Citrus Sinensis ID: 023910

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-----
Protein Sequence
MVPPFKIQIKTQQDIYCIAWLLSLARCDRKGIMMSSSVAKSASWSDVKVKPWHNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIAAYC
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEcHHHHHHHHHHHHHccccccccEEcccccccccccccccccccccccccccccccEEEEEEcccccccccHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccHHHccccHHHHHHcc
Coil and Loop (DISEMBL)
mvppfkiqiktQQDIYCIAWLLSLARcdrkgimmsssvaksaswsdvkvkpwhntqkQQVTATRSMLVIEMRdrgqnrkplqrgrnLSIEAIQAVQHLKRahlhsnpldhvfNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKtenslepeIQGFNALLKCLVGFKLRDLVVDCYELMKtvgcepdrssyRTVINGLEAMEEVAFSGIIRQDAFkyygdlefleedEEDIAAYC
Flexible Loop (DISEMBL)
mvppfkiqiktqqDIYCIAWLLSLARCDRKGIMMSSsvaksaswsdvkvkpwhntqkqqvtatrSMLVIEMRdrgqnrkplqrgrNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMktvgcepdrssYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIAAYC
Low Complexity Region (SEG)
MVPPFKIQIKTQQDIYCIAWLLSLARCDRKGIMMsssvaksaswsdvkvkPWHNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGdlefleedeedIAAYC
Disordered region (IsUnstruct)
*****KIQIKTQQDIYCIAWLLSLARCDRKGIMMS**V****SWSDVKVKPWH*************LV******************LSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLE**********
Disordered Region (DISOPRED)
**PPFKIQIKTQQDIYCIAWLLSLA**************************************************************SIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIAAYC
Disordered Region (DISEMBL)
MVPPFKIQIKTQQDIYCIAWLLSLARCDRKGIM**************KVKPWHNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIAAYC
Disordered Region (DISPRO)
*VPPFKIQIKTQQDIYCIAWLLSLARCDRKGIMMSSSVAKSASWSDVKVK*******QQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIAAYC
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVPPFKIQIKTQQDIYCIAWLLSLARCDRKGIMMSSSVAKSASWSDVKVKPWHNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIAAYC
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	275	2.2.26 [Sep-21-2011]
Q9STF9	257	Pentatricopeptide repeat-	no	no	0.578	0.618	0.349	1e-15
Q1PFH7	196	Pentatricopeptide repeat-	no	no	0.538	0.755	0.316	4e-13
O82178	591	Pentatricopeptide repeat-	no	no	0.530	0.247	0.251	3e-07
Q9SCP4	447	Pentatricopeptide repeat-	no	no	0.447	0.275	0.264	2e-06
Q9SQU6	486	Pentatricopeptide repeat-	no	no	0.4	0.226	0.267	4e-05
Q9LK58	551	Pentatricopeptide repeat-	no	no	0.676	0.337	0.245	4e-05
Q9LK57	394	Pentatricopeptide repeat-	no	no	0.410	0.286	0.313	0.0001
O23278	501	Pentatricopeptide repeat-	no	no	0.392	0.215	0.229	0.0004
Q9FKC3	508	Pentatricopeptide repeat-	no	no	0.581	0.314	0.203	0.0004
Q9FX35	568	Pentatricopeptide repeat-	no	no	0.367	0.177	0.309	0.0005

>sp|Q9STF9|PP266_ARATH Pentatricopeptide repeat-containing protein At3g46870 OS=Arabidopsis thaliana GN=At3g46870 PE=2 SV=1

 Score = 84.0 bits (206), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 59/169 (34%), Positives = 88/169 (52%), Gaps = 10/169 (5%)

Query: 75  GQNRKPLQRGRNL-SIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLR 133
           G+ R PL RG+ L   EA+  +  LKR       LD    +   RLLK DM+AV+ EL R
Sbjct: 60  GRPRGPLWRGKKLIGKEALFVILGLKRLKEDDEKLDKFIKTHVFRLLKLDMLAVIGELER 119

Query: 134 QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI 193
           Q    LA+K+FE I+K++WY+P V +Y D+I     +        L+  +K EN L P+ 
Sbjct: 120 QEETALAIKMFEVIQKQEWYQPDVFMYKDLIVSLAKSKRMDEAMALWEKMKKEN-LFPDS 178

Query: 194 QGFNALLKCLVGFKLRDL----VVDCYELMKTVGCEPDRSSYRTVINGL 238
           Q +  +++   GF LRD      ++ YE M      P+   +R ++ GL
Sbjct: 179 QTYTEVIR---GF-LRDGCPADAMNVYEDMLKSPDPPEELPFRVLLKGL 223

Arabidopsis thaliana (taxid: 3702)

>sp|Q1PFH7|PPR89_ARATH Pentatricopeptide repeat-containing protein At1g62350 OS=Arabidopsis thaliana GN=At1g62350 PE=2 SV=1

 Score = 75.5 bits (184), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 49/155 (31%), Positives = 77/155 (49%), Gaps = 7/155 (4%)

Query: 87  LSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFED 146
           +S E + A + LKR    S  LD    S   RLLK D+++VL E  RQN   L +K++E 
Sbjct: 1   MSKEGLIAAKELKRLQTQSVRLDRFIGSHVSRLLKSDLVSVLAEFQRQNQVFLCMKLYEV 60

Query: 147 IRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF 206
           +R+E WY+P +  Y DM+ +   N      + ++  LK E  L  +   F  L++   GF
Sbjct: 61  VRREIWYRPDMFFYRDMLMMLARNKKVDETKKVWEDLKKEEVLFDQ-HTFGDLVR---GF 116

Query: 207 KLRDLVVDCYELMKTVGCEPDRS---SYRTVINGL 238
              +L ++   L   +   PDR     +R ++ GL
Sbjct: 117 LDNELPLEAMRLYGEMRESPDRPLSLPFRVILKGL 151

Arabidopsis thaliana (taxid: 3702)

>sp|O82178|PP186_ARATH Pentatricopeptide repeat-containing protein At2g35130 OS=Arabidopsis thaliana GN=At2g35130 PE=2 SV=1

 Score = 55.8 bits (133), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 42/167 (25%), Positives = 77/167 (46%), Gaps = 21/167 (12%)

Query: 90  EAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRK 149
           EAI   Q +KR      P    +N      L  ++        + +   ++ K++ ++R 
Sbjct: 247 EAIDVFQRMKRDR--CKPTTETYN------LMINLYG------KASKSYMSWKLYCEMRS 292

Query: 150 EQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR 209
            Q  KP +  Y  ++  F   GL +  E ++  L+ E+ LEP++  +NAL++        
Sbjct: 293 HQC-KPNICTYTALVNAFAREGLCEKAEEIFEQLQ-EDGLEPDVYVYNALMESYSRAGYP 350

Query: 210 DLVVDCYELMKTVGCEPDRSSYRTVIN-----GLEAMEEVAFSGIIR 251
               + + LM+ +GCEPDR+SY  +++     GL +  E  F  + R
Sbjct: 351 YGAAEIFSLMQHMGCEPDRASYNIMVDAYGRAGLHSDAEAVFEEMKR 397

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SCP4|PP279_ARATH Pentatricopeptide repeat-containing protein At3g53170 OS=Arabidopsis thaliana GN=At3g53170 PE=2 SV=1

 Score = 53.1 bits (126), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/125 (26%), Positives = 62/125 (49%), Gaps = 2/125 (1%)

Query: 113 NSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL 172
           + K+  L    ++  L E +++N    ALK+F  +RK+ WY+P+   Y  + +V G    
Sbjct: 50  SEKYLTLWPKAVLEALDEAIKENRWQSALKIFNLLRKQHWYEPRCKTYTKLFKVLGNCKQ 109

Query: 173 FQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVG-CEPDRSSY 231
                +L+  + +E  L+P I  + +L+      +L D      E MK+V  C+PD  ++
Sbjct: 110 PDQASLLFEVMLSEG-LKPTIDVYTSLISVYGKSELLDKAFSTLEYMKSVSDCKPDVFTF 168

Query: 232 RTVIN 236
             +I+
Sbjct: 169 TVLIS 173

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SQU6|PP216_ARATH Pentatricopeptide repeat-containing protein At3g06430, chloroplastic OS=Arabidopsis thaliana GN=EMB2750 PE=2 SV=1

 Score = 48.9 bits (115), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/112 (26%), Positives = 57/112 (50%), Gaps = 2/112 (1%)

Query: 127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE 186
            L +L+ +   L AL+VF+ +R++ +Y+P+   Y  ++ + G +G     + L+  +  E
Sbjct: 94  TLSDLIAKKQWLQALEVFDMLREQTFYQPKEGTYMKLLVLLGKSGQPNRAQKLFDEM-LE 152

Query: 187 NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVG-CEPDRSSYRTVING 237
             LEP ++ + ALL       L D      + MK+   C+PD  +Y T++  
Sbjct: 153 EGLEPTVELYTALLAAYTRSNLIDDAFSILDKMKSFPQCQPDVFTYSTLLKA 204

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LK58|PP225_ARATH Pentatricopeptide repeat-containing protein At3g13150 OS=Arabidopsis thaliana GN=At3g13150 PE=2 SV=1

 Score = 48.9 bits (115), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 52/212 (24%), Positives = 93/212 (43%), Gaps = 26/212 (12%)

Query: 31  GIMMSSSVAKSASWSDVKVKPWHNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIE 90
           GI   SS+A + S      KP   T+  +  +        + D GQ+    +  +N  + 
Sbjct: 14  GIFKESSIATAKS-----AKPRSQTKSTKFPSKLKASTASVGDGGQSSNDAKDSKNSKL- 67

Query: 91  AIQAVQHLKRAHLHSNPLDHV---FNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDI 147
             Q V+  KR+   S     V   +++  RRL +    + + E+L+        K F+DI
Sbjct: 68  -TQKVEKFKRS-CESESFRQVHGLYSAFIRRLREAKKFSTIDEVLQYQ------KKFDDI 119

Query: 148 RKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK 207
           + E +          ++ ++G +G+ +H   L+  +  E + E  ++ FNALL   V  K
Sbjct: 120 KSEDFV-------IRIMLLYGYSGMAEHAHKLFDEM-PELNCERTVKSFNALLSAYVNSK 171

Query: 208 LRDLVVDCY-ELMKTVGCEPDRSSYRTVINGL 238
             D  +  + EL + +G  PD  +Y T+I  L
Sbjct: 172 KLDEAMKTFKELPEKLGITPDLVTYNTMIKAL 203

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LK57|PP226_ARATH Pentatricopeptide repeat-containing protein At3g13160, mitochondrial OS=Arabidopsis thaliana GN=At3g13160 PE=1 SV=1

 Score = 47.0 bits (110), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 37/118 (31%), Positives = 58/118 (49%), Gaps = 5/118 (4%)

Query: 125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVS---LYADMIQVFGTNGLFQHVEILYF 181
           IAV    +R+       +  E+I +EQ   P +S     A +I ++G  G+F++ + ++ 
Sbjct: 71  IAVYERTVRRLAAAKKFEWVEEILEEQNKYPNMSKEGFVARIINLYGRVGMFENAQKVFD 130

Query: 182 YLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCY-ELMKTVGCEPDRSSYRTVINGL 238
            +   N     +  FNALL   V  K  DLV   + EL   +  EPD +SY T+I GL
Sbjct: 131 EMPERNCKRTALS-FNALLNACVNSKKFDLVEGIFKELPGKLSIEPDVASYNTLIKGL 187

Arabidopsis thaliana (taxid: 3702)

>sp|O23278|PP310_ARATH Pentatricopeptide repeat-containing protein At4g14190, chloroplastic OS=Arabidopsis thaliana GN=At4g14190 PE=2 SV=2

 Score = 45.8 bits (107), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 25/109 (22%), Positives = 52/109 (47%), Gaps = 1/109 (0%)

Query: 127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE 186
           ++R L  +     A++ F  +  +    P + +Y  +I  +  +G F+   + Y     E
Sbjct: 137 IIRFLCEEKSMSEAIRAFRSMIDDHELSPSLEIYNSIIHSYADDGKFEEA-MFYLNHMKE 195

Query: 187 NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVI 235
           N L P  + ++ L++    +K+ D +V C + M++ GC  D  +Y  +I
Sbjct: 196 NGLLPITETYDGLIEAYGKWKMYDEIVLCLKRMESDGCVRDHVTYNLLI 244

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKC3|PP424_ARATH Pentatricopeptide repeat-containing protein At5g48730, chloroplastic OS=Arabidopsis thaliana GN=At5g48730 PE=2 SV=2

 Score = 45.4 bits (106), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 40/197 (20%), Positives = 81/197 (41%), Gaps = 37/197 (18%)

Query: 76  QNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQN 135
           ++ K ++  +N  I + +A+  + R     + ++    SK  +LL   ++  L E +   
Sbjct: 71  RDSKEIKEDKNTKIASRKAISIILRREATKSIIEKKKGSK--KLLPRTVLESLHERITAL 128

Query: 136 HCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT-------------------------- 169
               A++VFE +R++ WYKP V +Y  +I + G                           
Sbjct: 129 RWESAIQVFELLREQLWYKPNVGIYVKLIVMLGKCKQPEKAHELFQEMINEGCVVNHEVY 188

Query: 170 ---------NGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK 220
                    +G F     L   +K+ ++ +P++  ++ L+K  +     D V D    M+
Sbjct: 189 TALVSAYSRSGRFDAAFTLLERMKSSHNCQPDVHTYSILIKSFLQVFAFDKVQDLLSDMR 248

Query: 221 TVGCEPDRSSYRTVING 237
             G  P+  +Y T+I+ 
Sbjct: 249 RQGIRPNTITYNTLIDA 265

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FX35|PP117_ARATH Pentatricopeptide repeat-containing protein At1g73400, mitochondrial OS=Arabidopsis thaliana GN=At1g73400 PE=2 SV=2

 Score = 45.4 bits (106), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 34/110 (30%), Positives = 55/110 (50%), Gaps = 9/110 (8%)

Query: 140 ALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSL--EPEIQGFN 197
           A+K+ E++  E  +KP+   Y   I  F   G+      L+ ++ T+ S    P  + F 
Sbjct: 287 AMKLLEEM-IEAGHKPENFTYCAAIDTFCQAGMVDEAADLFDFMITKGSAVSAPTAKTF- 344

Query: 198 ALLKCLVGFKLRDLVVDCYEL---MKTVGCEPDRSSYRTVINGLEAMEEV 244
           AL+  +V     D   +C+EL   M + GC PD S+Y+ VI G+   E+V
Sbjct: 345 ALM--IVALAKNDKAEECFELIGRMISTGCLPDVSTYKDVIEGMCMAEKV 392

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	275
225428340	246	PREDICTED: pentatricopeptide repeat-cont	0.712	0.796	0.617	2e-65
297744458	208	unnamed protein product [Vitis vinifera]	0.687	0.908	0.629	2e-64
21618227	262	unknown [Arabidopsis thaliana]	0.738	0.774	0.589	3e-63
449454430	249	PREDICTED: pentatricopeptide repeat-cont	0.694	0.767	0.623	2e-62
15242388	712	Vacuolar sorting protein 9 (VPS9) domain	0.738	0.285	0.584	2e-62
22531104	262	putative protein [Arabidopsis thaliana]	0.738	0.774	0.584	2e-62
255546690	248	conserved hypothetical protein [Ricinus	0.814	0.903	0.550	2e-61
224102763	216	predicted protein [Populus trichocarpa]	0.727	0.925	0.585	3e-60
297811021	745	hypothetical protein ARALYDRAFT_487743 [	0.712	0.263	0.575	2e-58
357164141	233	PREDICTED: pentatricopeptide repeat-cont	0.738	0.871	0.521	2e-50

>gi|225428340|ref|XP_002279994.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870 [Vitis vinifera]

 Score =  255 bits (651), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 121/196 (61%), Positives = 150/196 (76%)

Query: 64  RSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFD 123
           R +  I MRDR QNRKPLQRGRNLSIEAIQAVQ LKRA    + L+ VF SK RRLLK D
Sbjct: 32  RGIFTINMRDRSQNRKPLQRGRNLSIEAIQAVQALKRAKRDESSLERVFESKVRRLLKLD 91

Query: 124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYL 183
           MIAVL++LL QN CLLALKVF+D+RKE WYKPQVSLYA+MI+V G+NGLF+ V +L  YL
Sbjct: 92  MIAVLKQLLNQNECLLALKVFDDVRKEYWYKPQVSLYAEMIRVLGSNGLFEQVHLLLSYL 151

Query: 184 KTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE 243
           K E  LE E +GFNALL+ L+ F +    ++C++LMKT GCEP++SS+R +I GLE+  E
Sbjct: 152 KKETGLELETEGFNALLRTLIDFDMTGPAMECFQLMKTSGCEPNKSSFRILIKGLESKGE 211

Query: 244 VAFSGIIRQDAFKYYG 259
           +  S  ++ DA KY+G
Sbjct: 212 LDISATVKLDAQKYFG 227

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744458|emb|CBI37720.3| unnamed protein product [Vitis vinifera]

 Score =  251 bits (641), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 119/189 (62%), Positives = 147/189 (77%)

Query: 71  MRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRE 130
           MRDR QNRKPLQRGRNLSIEAIQAVQ LKRA    + L+ VF SK RRLLK DMIAVL++
Sbjct: 1   MRDRSQNRKPLQRGRNLSIEAIQAVQALKRAKRDESSLERVFESKVRRLLKLDMIAVLKQ 60

Query: 131 LLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLE 190
           LL QN CLLALKVF+D+RKE WYKPQVSLYA+MI+V G+NGLF+ V +L  YLK E  LE
Sbjct: 61  LLNQNECLLALKVFDDVRKEYWYKPQVSLYAEMIRVLGSNGLFEQVHLLLSYLKKETGLE 120

Query: 191 PEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGII 250
            E +GFNALL+ L+ F +    ++C++LMKT GCEP++SS+R +I GLE+  E+  S  +
Sbjct: 121 LETEGFNALLRTLIDFDMTGPAMECFQLMKTSGCEPNKSSFRILIKGLESKGELDISATV 180

Query: 251 RQDAFKYYG 259
           + DA KY+G
Sbjct: 181 KLDAQKYFG 189

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21618227|gb|AAM67277.1| unknown [Arabidopsis thaliana]

 Score =  247 bits (631), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 129/219 (58%), Positives = 155/219 (70%), Gaps = 16/219 (7%)

Query: 67  LVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNP---------------LDHV 111
           +VI+MRDR +NRKPLQRGR LSIEAIQAVQ LKRA+    P               LD V
Sbjct: 35  MVIKMRDRSKNRKPLQRGRMLSIEAIQAVQALKRANPLLPPAPVPSTSTTSSSSALLDRV 94

Query: 112 FNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG 171
             SKFRRLLKFDM+AVLRELLRQN C LALKVFE+IRKE WYKPQV +Y DMI V   N 
Sbjct: 95  IISKFRRLLKFDMVAVLRELLRQNECSLALKVFEEIRKEYWYKPQVRMYTDMITVMADNS 154

Query: 172 LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY 231
           L + V  LY  +K+E  L  EI+ FN LL  L+  KL DLV+DCY  M+++G EPDR+S+
Sbjct: 155 LMEEVNYLYSAMKSEKGLMAEIEWFNTLLTILLNHKLFDLVMDCYAFMQSIGYEPDRASF 214

Query: 232 RTVINGLEAMEEVAFSGIIRQDAFKYYGD-LEFLEEDEE 269
           R ++ GLE+  E+  S I+RQDA +YYG+ LEF+EEDEE
Sbjct: 215 RVLVLGLESNGEMGLSAIVRQDAHEYYGESLEFIEEDEE 253

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454430|ref|XP_004144958.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870-like [Cucumis sativus] gi|449473007|ref|XP_004153757.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870-like [Cucumis sativus] gi|449517150|ref|XP_004165609.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870-like [Cucumis sativus]

 Score =  245 bits (625), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 119/191 (62%), Positives = 142/191 (74%)

Query: 69  IEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVL 128
           + MR   +NRKPLQ+GRNLSIEAIQAVQ LKR       LD V++SK RRLLKFDM+AVL
Sbjct: 40  VTMRGGSENRKPLQKGRNLSIEAIQAVQSLKRTKKDLQQLDRVYDSKIRRLLKFDMLAVL 99

Query: 129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENS 188
           RELLRQN C LALKVFED+RKE WYKPQVSLYAD+I V  +NGLF+ V+I+  Y+K E  
Sbjct: 100 RELLRQNECSLALKVFEDVRKEHWYKPQVSLYADIITVLASNGLFERVQIILSYMKAEAD 159

Query: 189 LEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSG 248
           L PEI GFNALLK LV   L +L ++ Y LMK VGCEPD++S+R VI GLE+  E     
Sbjct: 160 LAPEIDGFNALLKALVSHNLGELAMESYYLMKDVGCEPDKASFRIVIKGLESKGEAVDLR 219

Query: 249 IIRQDAFKYYG 259
            ++QDA + YG
Sbjct: 220 TVKQDAQRLYG 230

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15242388|ref|NP_196494.1| Vacuolar sorting protein 9 (VPS9) domain protein [Arabidopsis thaliana] gi|9955519|emb|CAC05458.1| putative protein [Arabidopsis thaliana] gi|332003991|gb|AED91374.1| Vacuolar sorting protein 9 (VPS9) domain protein [Arabidopsis thaliana]

 Score =  245 bits (625), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 128/219 (58%), Positives = 154/219 (70%), Gaps = 16/219 (7%)

Query: 67  LVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPL---------------DHV 111
           +VI+MRDR +NRKPLQRGR LSIEAIQAVQ LKRA+    P                D V
Sbjct: 485 MVIKMRDRSKNRKPLQRGRMLSIEAIQAVQALKRANPLLPPPPVPSTSTTSSSSALLDRV 544

Query: 112 FNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG 171
             SKFRRLLKFDM+AVLRELLRQN C LALKVFE+IRKE WYKPQV +Y DMI V   N 
Sbjct: 545 IISKFRRLLKFDMVAVLRELLRQNECSLALKVFEEIRKEYWYKPQVRMYTDMITVMADNS 604

Query: 172 LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY 231
           L + V  LY  +K+E  L  EI+ FN LL  L+  KL DLV+DCY  M+++G EPDR+S+
Sbjct: 605 LMEEVNYLYSAMKSEKGLMAEIEWFNTLLTILLNHKLFDLVMDCYAFMQSIGYEPDRASF 664

Query: 232 RTVINGLEAMEEVAFSGIIRQDAFKYYGD-LEFLEEDEE 269
           R ++ GLE+  E+  S I+RQDA +YYG+ LEF+EEDEE
Sbjct: 665 RVLVLGLESNGEMGLSAIVRQDAHEYYGESLEFIEEDEE 703

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22531104|gb|AAM97056.1| putative protein [Arabidopsis thaliana] gi|30023740|gb|AAP13403.1| At5g09320 [Arabidopsis thaliana]

 Score =  245 bits (625), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 128/219 (58%), Positives = 154/219 (70%), Gaps = 16/219 (7%)

Query: 67  LVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPL---------------DHV 111
           +VI+MRDR +NRKPLQRGR LSIEAIQAVQ LKRA+    P                D V
Sbjct: 35  MVIKMRDRSKNRKPLQRGRMLSIEAIQAVQALKRANPLLPPPPVPSTSTTSSSSALLDRV 94

Query: 112 FNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG 171
             SKFRRLLKFDM+AVLRELLRQN C LALKVFE+IRKE WYKPQV +Y DMI V   N 
Sbjct: 95  IISKFRRLLKFDMVAVLRELLRQNECSLALKVFEEIRKEYWYKPQVRMYTDMITVMADNS 154

Query: 172 LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY 231
           L + V  LY  +K+E  L  EI+ FN LL  L+  KL DLV+DCY  M+++G EPDR+S+
Sbjct: 155 LMEEVNYLYSAMKSEKGLMAEIEWFNTLLTILLNHKLFDLVMDCYAFMQSIGYEPDRASF 214

Query: 232 RTVINGLEAMEEVAFSGIIRQDAFKYYGD-LEFLEEDEE 269
           R ++ GLE+  E+  S I+RQDA +YYG+ LEF+EEDEE
Sbjct: 215 RVLVLGLESNGEMGLSAIVRQDAHEYYGESLEFIEEDEE 253

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546690|ref|XP_002514404.1| conserved hypothetical protein [Ricinus communis] gi|223546501|gb|EEF48000.1| conserved hypothetical protein [Ricinus communis]

 Score =  241 bits (616), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 125/227 (55%), Positives = 157/227 (69%), Gaps = 3/227 (1%)

Query: 36  SSVAKSASWSDVKVKPWHNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAV 95
           +SV     +S   V     + + +    R ++V+  + +  NRK LQ+GRNLSIE+IQAV
Sbjct: 9   ASVTSGQEFSAFTVSKALKSSRIKRRRRRMVMVVNAKGKEDNRKQLQKGRNLSIESIQAV 68

Query: 96  QHLKRAHLHS--NPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWY 153
           Q LKRA+  S  + LD VF SKF RLLK DM++VLRELLRQNHCLLALKVF+DIRKE WY
Sbjct: 69  QSLKRAYYFSTNSNLDSVFRSKFSRLLKLDMLSVLRELLRQNHCLLALKVFKDIRKEYWY 128

Query: 154 KPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE-NSLEPEIQGFNALLKCLVGFKLRDLV 212
           KPQVSLY DMI+   +NG F+ VE+L  YLKTE N +EPE   FNAL   L+ F L    
Sbjct: 129 KPQVSLYDDMIKAMASNGYFEQVELLCIYLKTETNLIEPETDAFNALFTTLITFNLSGFA 188

Query: 213 VDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG 259
           ++ Y LMK V CEPDR ++R +INGLE+M E + S I+RQDA K+YG
Sbjct: 189 MEFYGLMKAVKCEPDRLTFRILINGLESMGESSASAILRQDAHKFYG 235

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102763|ref|XP_002312792.1| predicted protein [Populus trichocarpa] gi|222849200|gb|EEE86747.1| predicted protein [Populus trichocarpa]

 Score =  237 bits (605), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 120/205 (58%), Positives = 152/205 (74%), Gaps = 5/205 (2%)

Query: 74  RGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPL-DHVFNSKFRRLLKFDMIAVLRELL 132
           R  NRKPLQ+GRNLSIEAIQ +Q LK A+ +   L D VF SKF RLLKFDM AVLRELL
Sbjct: 12  RSLNRKPLQKGRNLSIEAIQTIQALKLAYNNDKSLLDQVFRSKFSRLLKFDMTAVLRELL 71

Query: 133 RQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE--NSLE 190
           RQNHCLLALKVFEDIR E WYKP+V LY DMIQV  +NG  + V++L+ YL++E    L+
Sbjct: 72  RQNHCLLALKVFEDIRVEHWYKPKVLLYNDMIQVMASNGFIEEVQLLFRYLESEITGDLQ 131

Query: 191 PEIQGFNALLKCLVGFKLRDLVVDCYELMKT--VGCEPDRSSYRTVINGLEAMEEVAFSG 248
            +   FN LL  L+ FKL  LV++CYE MK+  VGCEPDRS+++ ++NGLE++ E   S 
Sbjct: 132 FKTDEFNQLLATLISFKLGGLVMECYEWMKSVVVGCEPDRSTFKLLVNGLESIGEFELSV 191

Query: 249 IIRQDAFKYYGDLEFLEEDEEDIAA 273
           ++RQDA+K+YG+    E +EE IA+
Sbjct: 192 VVRQDAYKFYGESLDFEAEEEGIAS 216

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297811021|ref|XP_002873394.1| hypothetical protein ARALYDRAFT_487743 [Arabidopsis lyrata subsp. lyrata] gi|297319231|gb|EFH49653.1| hypothetical protein ARALYDRAFT_487743 [Arabidopsis lyrata subsp. lyrata]

 Score =  231 bits (590), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 118/205 (57%), Positives = 146/205 (71%), Gaps = 9/205 (4%)

Query: 64  RSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNP---------LDHVFNS 114
           R  + I+MRDR +NRKPLQRGR LSIEAIQAVQ LKRA+    P         +D V  S
Sbjct: 521 RRAMGIKMRDRSKNRKPLQRGRMLSIEAIQAVQALKRANPLLPPPSPSSSSALVDRVIIS 580

Query: 115 KFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQ 174
           KFRRLLKFDM+AVLRELLRQN C LALKVFE+IRKE WYKPQV +Y DMI V   N L +
Sbjct: 581 KFRRLLKFDMVAVLRELLRQNECSLALKVFEEIRKEYWYKPQVRMYTDMITVMADNSLME 640

Query: 175 HVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTV 234
            V  LY  +K+E  L  +I+ FN LL  L+  KL DLV+DCY  M+++G EPDR+S+R +
Sbjct: 641 EVNYLYSAMKSEKGLMADIEWFNTLLTILLNHKLFDLVMDCYAFMQSIGYEPDRASFRIL 700

Query: 235 INGLEAMEEVAFSGIIRQDAFKYYG 259
           + GLE+  E++ S I+R+DA +YYG
Sbjct: 701 VLGLESNGEMSLSAIVRKDAHEYYG 725

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357164141|ref|XP_003579962.1| PREDICTED: pentatricopeptide repeat-containing protein At3g46870-like [Brachypodium distachyon]

 Score =  205 bits (522), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 108/207 (52%), Positives = 135/207 (65%), Gaps = 4/207 (1%)

Query: 65  SMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVF--NSKFRRLLKF 122
           + + I MRDR +NRKP QRGR LS EAIQAVQ LKRA L   P       ++K RRLLK 
Sbjct: 24  TAITITMRDRSKNRKPTQRGRYLSTEAIQAVQSLKRATLSGTPAAGAVATDTKLRRLLKA 83

Query: 123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFY 182
           DM+AV REL  Q   LLALKVFE+IRKE WYKP++  Y D+I V  + GL   V     Y
Sbjct: 84  DMVAVFRELAAQGEALLALKVFEEIRKEHWYKPRLFWYVDLITVLASKGLLSEVSKACSY 143

Query: 183 LKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME 242
           LK E  LEP+  GFN LLK L+  +   L +DC+ LMK    EPDR +YRT+INGLE++ 
Sbjct: 144 LKREQ-LEPDTDGFNLLLKTLLDAEFTQLTMDCFRLMKLWNSEPDRITYRTLINGLESLG 202

Query: 243 EVAFSGIIRQDAFKYYGDL-EFLEEDE 268
           E+  S  +R +A   YGDL ++L+E+E
Sbjct: 203 EMDLSAKMRLEAENDYGDLWDYLDEEE 229

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	275
TAIR|locus:2184727	712	VPS9B "AT5G09320" [Arabidopsis	0.701	0.271	0.586	4.8e-55
TAIR|locus:2089154	222	EMB3123 "EMBRYO DEFECTIVE 3123	0.603	0.747	0.360	6.5e-19
TAIR|locus:2102832	257	AT3G46870 [Arabidopsis thalian	0.610	0.653	0.340	2.5e-17
TAIR|locus:2027149	196	AT1G62350 "AT1G62350" [Arabido	0.56	0.785	0.310	5.4e-15
TAIR|locus:2081041	486	PPR2 "pentatricopeptide repeat	0.389	0.220	0.275	6.9e-05
TAIR|locus:2090034	394	AT3G13160 [Arabidopsis thalian	0.4	0.279	0.338	0.00014
TAIR|locus:504956171	650	ABO5 "ABA Overly-Sensitive 5"	0.541	0.229	0.270	0.0003

TAIR|locus:2184727 VPS9B "AT5G09320" [Arabidopsis thaliana (taxid:3702)]

 Score = 568 (205.0 bits), Expect = 4.8e-55, P = 4.8e-55
 Identities = 122/208 (58%), Positives = 146/208 (70%)

Query:    67 LVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAH--LHSNP-------------LDHV 111
             +VI+MRDR +NRKPLQRGR LSIEAIQAVQ LKRA+  L   P             LD V
Sbjct:   485 MVIKMRDRSKNRKPLQRGRMLSIEAIQAVQALKRANPLLPPPPVPSTSTTSSSSALLDRV 544

Query:   112 FNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG 171
               SKFRRLLKFDM+AVLRELLRQN C LALKVFE+IRKE WYKPQV +Y DMI V   N 
Sbjct:   545 IISKFRRLLKFDMVAVLRELLRQNECSLALKVFEEIRKEYWYKPQVRMYTDMITVMADNS 604

Query:   172 LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY 231
             L + V  LY  +K+E  L  EI+ FN LL  L+  KL DLV+DCY  M+++G EPDR+S+
Sbjct:   605 LMEEVNYLYSAMKSEKGLMAEIEWFNTLLTILLNHKLFDLVMDCYAFMQSIGYEPDRASF 664

Query:   232 RTVINGLEAMEEVAFSGIIRQDAFKYYG 259
             R ++ GLE+  E+  S I+RQDA +YYG
Sbjct:   665 RVLVLGLESNGEMGLSAIVRQDAHEYYG 692

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0006810 "transport" evidence=ISS

TAIR|locus:2089154 EMB3123 "EMBRYO DEFECTIVE 3123" [Arabidopsis thaliana (taxid:3702)]

 Score = 227 (85.0 bits), Expect = 6.5e-19, P = 6.5e-19
 Identities = 62/172 (36%), Positives = 91/172 (52%)

Query:    53 HNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVF 112
             H+     +   R+ + I    R  NR PL +GR LS EAIQ++Q LKRAH     L    
Sbjct:    15 HSHTLSVIVPKRTFVSIRCGPR-DNRGPLLKGRILSTEAIQSIQSLKRAHRTGVSLSLTL 73

Query:   113 NSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNG 171
                 RRL+K D+I+VLRELLRQ++C LA+ V   +R E  Y P  + LYAD++     N 
Sbjct:    74 RP-LRRLIKSDLISVLRELLRQDYCTLAVHVLSTLRTE--YPPLDLVLYADIVNALTRNK 130

Query:   172 LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVG 223
              F  ++ L   +   +    + +    L++ +VG + R+ VV  Y LM+  G
Sbjct:   131 EFDEIDRLIGEIDGIDQRSDD-KALAKLIRAVVGAERRESVVRVYTLMRESG 181

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0000373 "Group II intron splicing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

GO:0009658 "chloroplast organization" evidence=IMP

TAIR|locus:2102832 AT3G46870 [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 61/179 (34%), Positives = 92/179 (51%)

Query:    65 SMLVIEMRDRGQNRKPLQRGRNL-SIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFD 123
             ++ V    D G+ R PL RG+ L   EA+  +  LKR       LD    +   RLLK D
Sbjct:    51 TVFVSRFHD-GRPRGPLWRGKKLIGKEALFVILGLKRLKEDDEKLDKFIKTHVFRLLKLD 109

Query:   124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYL 183
             M+AV+ EL RQ    LA+K+FE I+K++WY+P V +Y D+I     +        L+  +
Sbjct:   110 MLAVIGELERQEETALAIKMFEVIQKQEWYQPDVFMYKDLIVSLAKSKRMDEAMALWEKM 169

Query:   184 KTENSLEPEIQGFNALLKCLVGFKLRDL----VVDCYELMKTVGCEPDRSSYRTVINGL 238
             K EN L P+ Q +  +++   GF LRD      ++ YE M      P+   +R ++ GL
Sbjct:   170 KKEN-LFPDSQTYTEVIR---GF-LRDGCPADAMNVYEDMLKSPDPPEELPFRVLLKGL 223

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

TAIR|locus:2027149 AT1G62350 "AT1G62350" [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 5.4e-15, P = 5.4e-15
 Identities = 50/161 (31%), Positives = 79/161 (49%)

Query:    87 LSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFED 146
             +S E + A + LKR    S  LD    S   RLLK D+++VL E  RQN   L +K++E 
Sbjct:     1 MSKEGLIAAKELKRLQTQSVRLDRFIGSHVSRLLKSDLVSVLAEFQRQNQVFLCMKLYEV 60

Query:   147 IRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF 206
             +R+E WY+P +  Y DM+ +   N      + ++  LK E  L  +   F  L++   GF
Sbjct:    61 VRREIWYRPDMFFYRDMLMMLARNKKVDETKKVWEDLKKEEVLFDQ-HTFGDLVR---GF 116

Query:   207 KLRDLVVDCYELMKTVGCEPDRS---SYRTVINGLEAMEEV 244
                +L ++   L   +   PDR     +R ++ GL    E+
Sbjct:   117 LDNELPLEAMRLYGEMRESPDRPLSLPFRVILKGLVPYPEL 157

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2081041 PPR2 "pentatricopeptide repeat 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 122 (48.0 bits), Expect = 6.9e-05, P = 6.9e-05
 Identities = 30/109 (27%), Positives = 57/109 (52%)

Query:   128 LRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTEN 187
             L +L+ +   L AL+VF+ +R++ +Y+P+   Y  ++ + G +G     + L+  +  E 
Sbjct:    95 LSDLIAKKQWLQALEVFDMLREQTFYQPKEGTYMKLLVLLGKSGQPNRAQKLFDEM-LEE 153

Query:   188 SLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVG-CEPDRSSYRTVI 235
              LEP ++ + ALL       L D      + MK+   C+PD  +Y T++
Sbjct:   154 GLEPTVELYTALLAAYTRSNLIDDAFSILDKMKSFPQCQPDVFTYSTLL 202

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0048868 "pollen tube development" evidence=IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0009553 "embryo sac development" evidence=IMP

GO:0009555 "pollen development" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0019843 "rRNA binding" evidence=IDA

TAIR|locus:2090034 AT3G13160 [Arabidopsis thaliana (taxid:3702)]

 Score = 118 (46.6 bits), Expect = 0.00014, P = 0.00014
 Identities = 41/121 (33%), Positives = 61/121 (50%)

Query:   125 IAVLRELLRQNHCLLALKVFE---DIRKEQWYKPQVS---LYADMIQVFGTNGLFQHVEI 178
             IAV    +R+   L A K FE   +I +EQ   P +S     A +I ++G  G+F++ + 
Sbjct:    71 IAVYERTVRR---LAAAKKFEWVEEILEEQNKYPNMSKEGFVARIINLYGRVGMFENAQK 127

Query:   179 LYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCY-ELMKTVGCEPDRSSYRTVING 237
             ++  +   N     +  FNALL   V  K  DLV   + EL   +  EPD +SY T+I G
Sbjct:   128 VFDEMPERNCKRTALS-FNALLNACVNSKKFDLVEGIFKELPGKLSIEPDVASYNTLIKG 186

Query:   238 L 238
             L
Sbjct:   187 L 187

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

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

GO:0009909 "regulation of flower development" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

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

 Score = 118 (46.6 bits), Expect = 0.00030, P = 0.00030
 Identities = 43/159 (27%), Positives = 75/159 (47%)

Query:    98 LKRAHLHSNPLDHVFN--SKFRRL-LKFDMIA--VLRELLRQNHCLLALKVFEDIRKEQW 152
             L +A+L S      F+   + RR   K D+ A  +L + L ++    A +VFED++K   
Sbjct:   209 LLQAYLRSRDYSKAFDVYCEIRRGGHKLDIFAYNMLLDALAKDE--KACQVFEDMKKRHC 266

Query:   153 YKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLV 212
              + + + Y  MI+  G  G       L+  + TE  L   + G+N L++ L   K+ D  
Sbjct:   267 RRDEYT-YTIMIRTMGRIGKCDEAVGLFNEMITEG-LTLNVVGYNTLMQVLAKGKMVDKA 324

Query:   213 VDCYELMKTVGCEPDRSSYRTVINGLEAMEE-VAFSGII 250
             +  +  M   GC P+  +Y  ++N L A  + V   G++
Sbjct:   325 IQVFSRMVETGCRPNEYTYSLLLNLLVAEGQLVRLDGVV 363


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.327   0.140   0.426    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      275       248   0.00079  114 3  11 22  0.49    32
                                                     32  0.46    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  7
  No. of states in DFA:  607 (65 KB)
  Total size of DFA:  198 KB (2112 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  21.49u 0.07s 21.56t   Elapsed:  00:00:01
  Total cpu time:  21.49u 0.07s 21.56t   Elapsed:  00:00:01
  Start:  Sat May 11 02:47:30 2013   End:  Sat May 11 02:47:31 2013

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008380 "RNA splicing" evidence=IMP

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00036297001 SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (246 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	275
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04

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

 Score = 38.2 bits (90), Expect = 2e-04
 Identities = 11/48 (22%), Positives = 23/48 (47%)

Query: 191 PEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGL 238
           P++  +N L+         +  +  +  MK  G +P+  +Y  +I+GL
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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	275
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.96
PLN03218	1060	maturation of RBCL 1; Provisional	99.96
PLN03218	1060	maturation of RBCL 1; Provisional	99.96
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.95
PLN03077	857	Protein ECB2; Provisional	99.95
PLN03077	857	Protein ECB2; Provisional	99.94
PF13041	50	PPR_2: PPR repeat family	99.66
PF13041	50	PPR_2: PPR repeat family	99.66
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.23
PF12854	34	PPR_1: PPR repeat	99.23
PF12854	34	PPR_1: PPR repeat	99.19
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.04
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.9
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.75
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.68
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.66
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.62
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.61
KOG4422	625	consensus Uncharacterized conserved protein [Funct	98.61
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.47
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.46
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.43
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.43
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.35
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.34
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.32
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.17
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.14
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.11
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.1
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.09
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.0
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.97
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.96
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.92
PRK12370	553	invasion protein regulator; Provisional	97.91
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.88
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.87
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.86
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	97.81
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	97.79
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.79
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.76
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.7
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.7
PRK15359	144	type III secretion system chaperone protein SscB;	97.65
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.63
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.61
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.58
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.55
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.53
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.53
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.52
PRK14574	822	hmsH outer membrane protein; Provisional	97.51
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.5
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.5
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.5
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.49
PRK11189	296	lipoprotein NlpI; Provisional	97.47
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.47
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.45
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.45
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.44
PRK14574	822	hmsH outer membrane protein; Provisional	97.44
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.41
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	97.34
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.34
KOG1126	638	consensus DNA-binding cell division cycle control	97.28
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.28
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.27
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.24
PRK12370	553	invasion protein regulator; Provisional	97.22
PRK15359	144	type III secretion system chaperone protein SscB;	97.21
PRK11189	296	lipoprotein NlpI; Provisional	97.18
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.09
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.08
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.06
PRK10803	263	tol-pal system protein YbgF; Provisional	97.05
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.02
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.0
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	96.98
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	96.96
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.94
KOG2003	840	consensus TPR repeat-containing protein [General f	96.91
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.9
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.84
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.83
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	96.82
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	96.8
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	96.8
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.79
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.76
KOG3941	406	consensus Intermediate in Toll signal transduction	96.71
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.67
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.65
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.63
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	96.54
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	96.53
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	96.49
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.48
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.47
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	96.46
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.41
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.4
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	96.39
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.39
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.39
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.36
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.36
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.36
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.32
KOG1126	638	consensus DNA-binding cell division cycle control	96.31
KOG2076	895	consensus RNA polymerase III transcription factor	96.27
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.26
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.26
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.23
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.03
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.02
KOG1915	677	consensus Cell cycle control protein (crooked neck	95.97
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	95.96
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	95.91
KOG3941	406	consensus Intermediate in Toll signal transduction	95.91
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	95.88
KOG1129	478	consensus TPR repeat-containing protein [General f	95.78
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	95.73
KOG0547	606	consensus Translocase of outer mitochondrial membr	95.71
KOG1129	478	consensus TPR repeat-containing protein [General f	95.71
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.65
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.6
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	95.54
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.53
KOG1915	677	consensus Cell cycle control protein (crooked neck	95.51
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	95.49
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	95.4
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.37
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.35
KOG2003	840	consensus TPR repeat-containing protein [General f	95.3
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.11
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	95.06
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.03
KOG3060	289	consensus Uncharacterized conserved protein [Funct	94.92
PRK10803	263	tol-pal system protein YbgF; Provisional	94.91
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	94.91
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.79
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	94.79
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.73
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	94.68
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	94.63
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	94.61
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	94.59
KOG0495	913	consensus HAT repeat protein [RNA processing and m	94.56
PF12688	120	TPR_5: Tetratrico peptide repeat	94.44
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.23
PF13512	142	TPR_18: Tetratricopeptide repeat	94.19
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	94.13
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.06
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	93.93
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.9
PF12688	120	TPR_5: Tetratrico peptide repeat	93.87
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	93.45
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.35
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.33
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	93.28
PF13371	73	TPR_9: Tetratricopeptide repeat	93.27
KOG3616	1636	consensus Selective LIM binding factor [Transcript	93.16
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.11
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.06
KOG2796	366	consensus Uncharacterized conserved protein [Funct	92.9
PF13371	73	TPR_9: Tetratricopeptide repeat	92.88
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.75
PLN02789	320	farnesyltranstransferase	92.74
KOG3785	557	consensus Uncharacterized conserved protein [Funct	92.39
KOG1128	777	consensus Uncharacterized conserved protein, conta	92.25
KOG2076	895	consensus RNA polymerase III transcription factor	92.09
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	91.99
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.98
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	91.88
COG4700	251	Uncharacterized protein conserved in bacteria cont	91.75
KOG1125	579	consensus TPR repeat-containing protein [General f	91.7
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	91.55
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	91.5
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.46
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.23
KOG0547	606	consensus Translocase of outer mitochondrial membr	91.11
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	90.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	90.66
KOG2376	652	consensus Signal recognition particle, subunit Srp	90.37
PF13428	44	TPR_14: Tetratricopeptide repeat	90.25
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	89.83
PRK04841	903	transcriptional regulator MalT; Provisional	89.79
smart00299	140	CLH Clathrin heavy chain repeat homology.	89.26
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	88.94
PRK14720	906	transcript cleavage factor/unknown domain fusion p	88.79
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	88.67
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	88.64
KOG0553	304	consensus TPR repeat-containing protein [General f	88.24
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.23
PRK04841	903	transcriptional regulator MalT; Provisional	88.01
PF13929	292	mRNA_stabil: mRNA stabilisation	87.97
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	87.91
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	87.74
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.34
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.16
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	87.15
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	86.85
KOG1128	777	consensus Uncharacterized conserved protein, conta	86.66
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.59
KOG1125	579	consensus TPR repeat-containing protein [General f	86.57
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.55
PF13762	145	MNE1: Mitochondrial splicing apparatus component	86.36
KOG0553	304	consensus TPR repeat-containing protein [General f	86.34
PLN02789	320	farnesyltranstransferase	86.22
KOG4340	459	consensus Uncharacterized conserved protein [Funct	85.99
KOG2047	835	consensus mRNA splicing factor [RNA processing and	85.86
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.77
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	85.59
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	85.21
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.19
COG4105	254	ComL DNA uptake lipoprotein [General function pred	85.17
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	85.16
KOG2047	835	consensus mRNA splicing factor [RNA processing and	83.4
KOG3785	557	consensus Uncharacterized conserved protein [Funct	82.82
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	82.76
KOG3060	289	consensus Uncharacterized conserved protein [Funct	81.97
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	81.68
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	81.63
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	81.54
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	81.26
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.83
PF13428	44	TPR_14: Tetratricopeptide repeat	80.55
KOG4570	418	consensus Uncharacterized conserved protein [Funct	80.33
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	80.3

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

Probab=99.96  E-value=1.6e-28  Score=240.56  Aligned_cols=196  Identities=14%  Similarity=0.096  Sum_probs=163.4

Q ss_pred             hhhcccccccccccccCCCcccccccchhhhhhhccCCCCCcccccCCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHh
Q 023910           38 VAKSASWSDVKVKPWHNTQKQQVTATRSMLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFR  117 (275)
Q Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~l~~~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~  117 (275)
                      +++.+.++++...+..++..+.++   ..++|.+|.+.         +.. .+|+.++++|.+.+.  .|+..+|+.++.
T Consensus       269 y~k~g~~~~A~~vf~~m~~~~~vt---~n~li~~y~~~---------g~~-~eA~~lf~~M~~~g~--~pd~~t~~~ll~  333 (697)
T PLN03081        269 YSKCGDIEDARCVFDGMPEKTTVA---WNSMLAGYALH---------GYS-EEALCLYYEMRDSGV--SIDQFTFSIMIR  333 (697)
T ss_pred             HHHCCCHHHHHHHHHhCCCCChhH---HHHHHHHHHhC---------CCH-HHHHHHHHHHHHcCC--CCCHHHHHHHHH
Confidence            344444544444444444333322   23466776433         234 499999999999988  888999999988


Q ss_pred             hhcHH-----------------------hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHH
Q 023910          118 RLLKF-----------------------DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQ  174 (275)
Q Consensus       118 ~l~~~-----------------------~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~  174 (275)
                      .+++.                       .+.+||++|+++|++++|.++|++|.+     ||++|||+||.+|+++|+.+
T Consensus       334 a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~-----~d~~t~n~lI~~y~~~G~~~  408 (697)
T PLN03081        334 IFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-----KNLISWNALIAGYGNHGRGT  408 (697)
T ss_pred             HHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC-----CCeeeHHHHHHHHHHcCCHH
Confidence            76554                       234899999999999999999999954     59999999999999999999


Q ss_pred             HHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          175 HVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       175 ~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      +|+++|++|... |+.||.+||+++|++|++.|++++|.++|++|. +.|+.||..||++||++|++.|++++|.+++++
T Consensus       409 ~A~~lf~~M~~~-g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~  487 (697)
T PLN03081        409 KAVEMFERMIAE-GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR  487 (697)
T ss_pred             HHHHHHHHHHHh-CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHH
Confidence            999999999975 999999999999999999999999999999998 479999999999999999999999999999988


Q ss_pred             H
Q 023910          254 A  254 (275)
Q Consensus       254 m  254 (275)
                      |
T Consensus       488 ~  488 (697)
T PLN03081        488 A  488 (697)
T ss_pred             C
Confidence            5

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.96  E-value=2.5e-27  Score=237.80  Aligned_cols=175  Identities=15%  Similarity=0.145  Sum_probs=126.3

Q ss_pred             hhhhhccCCCCCcccccCCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH------------------------
Q 023910           67 LVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF------------------------  122 (275)
Q Consensus        67 ~~i~~~~~~~~~~~l~~~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~------------------------  122 (275)
                      .+|.+|.+.+         .+. +|+++++.|...+.  .|+..+|+.++..+++.                        
T Consensus       512 aLI~gy~k~G---------~~e-eAl~lf~~M~~~Gv--~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~  579 (1060)
T PLN03218        512 ALIDGCARAG---------QVA-KAFGAYGIMRSKNV--KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDH  579 (1060)
T ss_pred             HHHHHHHHCc---------CHH-HHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcH
Confidence            4666665433         333 77777777777776  66677777776654432                        


Q ss_pred             -hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          123 -DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       123 -~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                       .+.++|++|+++|++++|.++|++|.+. |+.|+..+||+||++|++.|++++|.++|++|... |+.||.+|||+||+
T Consensus       580 vTynaLI~ay~k~G~ldeA~elf~~M~e~-gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~-Gv~PD~~TynsLI~  657 (1060)
T PLN03218        580 ITVGALMKACANAGQVDRAKEVYQMIHEY-NIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVD  657 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHH
Confidence             2346777777777777777777777774 77777777777777777777777777777777754 77777777777777


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      +|++.|++++|.++|++|.+.|+.||..+|++||++|++.|++++|.++|++|.
T Consensus       658 a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~  711 (1060)
T PLN03218        658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK  711 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            777777777777777777777777777777777777777777777777777764

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.96  E-value=2.6e-27  Score=237.61  Aligned_cols=179  Identities=13%  Similarity=0.167  Sum_probs=159.2

Q ss_pred             hhhhhhccCCCCCcccccCCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH-----------------------
Q 023910           66 MLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF-----------------------  122 (275)
Q Consensus        66 ~~~i~~~~~~~~~~~l~~~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~-----------------------  122 (275)
                      ..+|.+|.+.+         .+. +|.+++++|.+.+.  .|+..+|+.++.++++.                       
T Consensus       476 nsLI~~y~k~G---------~vd-~A~~vf~eM~~~Gv--~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~v  543 (1060)
T PLN03218        476 TTLISTCAKSG---------KVD-AMFEVFHEMVNAGV--EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRV  543 (1060)
T ss_pred             HHHHHHHHhCc---------CHH-HHHHHHHHHHHcCC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHH
Confidence            45788876543         444 89999999999888  78889999998876654                       


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHc-CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKE-QWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~-~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      .+..+|++|++.|++++|.++|++|.+. .|+.||.+|||+||++|++.|++++|.++|++|.+. |+.||..+||+||.
T Consensus       544 TYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~-gi~p~~~tynsLI~  622 (1060)
T PLN03218        544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEY-NIKGTPEVYTIAVN  622 (1060)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCChHHHHHHHH
Confidence            3558999999999999999999999762 478999999999999999999999999999999865 89999999999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      +|++.|++++|.++|++|.+.|+.||..||++||++|++.|++++|.+++++|.+.
T Consensus       623 ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~  678 (1060)
T PLN03218        623 SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ  678 (1060)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999998763

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

Probab=99.95  E-value=1.4e-26  Score=226.86  Aligned_cols=161  Identities=11%  Similarity=0.114  Sum_probs=142.8

Q ss_pred             CCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH-----------------------hHHHHHHHHHhcCCHHHHHH
Q 023910           86 NLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF-----------------------DMIAVLRELLRQNHCLLALK  142 (275)
Q Consensus        86 ~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~-----------------------~~~~li~~~~~~g~~~~A~~  142 (275)
                      ... +|+.++++|.+.+.  .|+..+|..++..+...                       .+.+||++|+++|++++|.+
T Consensus       204 ~~~-~A~~lf~~M~~~g~--~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~  280 (697)
T PLN03081        204 NYR-EAFALFREMWEDGS--DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARC  280 (697)
T ss_pred             CHH-HHHHHHHHHHHhCC--CCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHH
Confidence            444 99999999999887  77788888777644322                       23589999999999999999


Q ss_pred             HHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhC
Q 023910          143 VFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       143 lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~  222 (275)
                      +|++|.+     +|+++||+||.+|++.|++++|+++|++|... |+.||.+||+++|.+|++.|++++|.+++++|.+.
T Consensus       281 vf~~m~~-----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~-g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~  354 (697)
T PLN03081        281 VFDGMPE-----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDS-GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT  354 (697)
T ss_pred             HHHhCCC-----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh
Confidence            9999965     49999999999999999999999999999865 99999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          223 GCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       223 g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      |+.||..+||+||++|+++|++++|.++|++|.
T Consensus       355 g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~  387 (697)
T PLN03081        355 GFPLDIVANTALVDLYSKWGRMEDARNVFDRMP  387 (697)
T ss_pred             CCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC
Confidence            999999999999999999999999999998754

>PLN03077 Protein ECB2; Provisional

Probab=99.95  E-value=1.8e-26  Score=230.87  Aligned_cols=224  Identities=14%  Similarity=0.091  Sum_probs=176.7

Q ss_pred             hhcccchHHHHHHHHHHh---hhcccchh-------------------HHhhhhhcccccccccccccCCCcccccccch
Q 023910            8 QIKTQQDIYCIAWLLSLA---RCDRKGIM-------------------MSSSVAKSASWSDVKVKPWHNTQKQQVTATRS   65 (275)
Q Consensus         8 ~~~~~~~~~~~~~~~~~a---~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   65 (275)
                      +.+..|+..+.+.++...   +....|..                   +...+++.+.++.+...+..++..+.++   .
T Consensus       382 ~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs---~  458 (857)
T PLN03077        382 QDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVIS---W  458 (857)
T ss_pred             HhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeee---H
Confidence            457778888777777631   11111111                   2233445555555544454454444333   2


Q ss_pred             hhhhhhccCCCCCcccccCCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH-----------------------
Q 023910           66 MLVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF-----------------------  122 (275)
Q Consensus        66 ~~~i~~~~~~~~~~~l~~~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~-----------------------  122 (275)
                      +++|.++.+.         +.. .+|+.+++.|.. +.  .|+..+|..++..+.+.                       
T Consensus       459 ~~mi~~~~~~---------g~~-~eA~~lf~~m~~-~~--~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~  525 (857)
T PLN03077        459 TSIIAGLRLN---------NRC-FEALIFFRQMLL-TL--KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGF  525 (857)
T ss_pred             HHHHHHHHHC---------CCH-HHHHHHHHHHHh-CC--CCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccce
Confidence            3466666432         233 489999999985 34  78999999998866543                       


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      .+.++|++|+++|++++|.++|+.|      .||+++||+||.+|+++|+.++|+++|++|.+. |+.||.+||++||.+
T Consensus       526 ~~naLi~~y~k~G~~~~A~~~f~~~------~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~-g~~Pd~~T~~~ll~a  598 (857)
T PLN03077        526 LPNALLDLYVRCGRMNYAWNQFNSH------EKDVVSWNILLTGYVAHGKGSMAVELFNRMVES-GVNPDEVTFISLLCA  598 (857)
T ss_pred             echHHHHHHHHcCCHHHHHHHHHhc------CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCCCcccHHHHHHH
Confidence            1348999999999999999999987      359999999999999999999999999999975 999999999999999


Q ss_pred             HHhCCChhHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          203 LVGFKLRDLVVDCYELMK-TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~-~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      |++.|++++|.++|++|+ +.|+.||..||++|+++|+++|++++|.+++++|
T Consensus       599 ~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        599 CSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             HhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            999999999999999999 7899999999999999999999999999999997

>PLN03077 Protein ECB2; Provisional

Probab=99.94  E-value=9.9e-26  Score=225.55  Aligned_cols=227  Identities=12%  Similarity=0.083  Sum_probs=179.8

Q ss_pred             hcccchHHHHHHHHHHhh---hcccchhHHh-------------------hhhhcccccccccccccCCCcccccccchh
Q 023910            9 IKTQQDIYCIAWLLSLAR---CDRKGIMMSS-------------------SVAKSASWSDVKVKPWHNTQKQQVTATRSM   66 (275)
Q Consensus         9 ~~~~~~~~~~~~~~~~a~---~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   66 (275)
                      .|..|+.++.+.++....   ....|..++.                   .+++.+.++++...+..++..+.++   ..
T Consensus       181 ~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s---~n  257 (857)
T PLN03077        181 AGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS---WN  257 (857)
T ss_pred             cCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcch---hH
Confidence            377888888877776421   1122222222                   2334444444444444444433332   23


Q ss_pred             hhhhhccCCCCCcccccCCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH-----------------------h
Q 023910           67 LVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF-----------------------D  123 (275)
Q Consensus        67 ~~i~~~~~~~~~~~l~~~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~-----------------------~  123 (275)
                      ++|.+|.+.         +... +|+.++.+|.+.+.  .|+..+|+.++..++..                       .
T Consensus       258 ~li~~~~~~---------g~~~-eAl~lf~~M~~~g~--~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~  325 (857)
T PLN03077        258 AMISGYFEN---------GECL-EGLELFFTMRELSV--DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSV  325 (857)
T ss_pred             HHHHHHHhC---------CCHH-HHHHHHHHHHHcCC--CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHH
Confidence            466666433         3444 99999999999998  88999999998765432                       3


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +.++|++|+++|++++|.++|++|.+     ||+++||+||++|++.|++++|+++|++|... |+.||..||+++|.+|
T Consensus       326 ~n~Li~~y~k~g~~~~A~~vf~~m~~-----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~-g~~Pd~~t~~~ll~a~  399 (857)
T PLN03077        326 CNSLIQMYLSLGSWGEAEKVFSRMET-----KDAVSWTAMISGYEKNGLPDKALETYALMEQD-NVSPDEITIASVLSAC  399 (857)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC-----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHh-CCCCCceeHHHHHHHH
Confidence            55999999999999999999999954     59999999999999999999999999999875 9999999999999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      ++.|++++|.++++.|.+.|+.||..+||+||++|+++|++++|.++|++|.+
T Consensus       400 ~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  452 (857)
T PLN03077        400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE  452 (857)
T ss_pred             hccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999998653

>PF13041 PPR_2: PPR repeat family

Probab=99.66  E-value=2.1e-16  Score=102.18  Aligned_cols=49  Identities=24%  Similarity=0.476  Sum_probs=25.0

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          155 PQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       155 p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ||+++||+||++|++.|++++|.++|++|+++ |++||..|||+||++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~-g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKR-GIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHc
Confidence            45555555555555555555555555555433 45555555555555544

>PF13041 PPR_2: PPR repeat family

Probab=99.66  E-value=2.4e-16  Score=101.89  Aligned_cols=50  Identities=26%  Similarity=0.454  Sum_probs=49.1

Q ss_pred             cCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 023910          191 PEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEA  240 (275)
Q Consensus       191 pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~  240 (275)
                      ||+++||+||++|++.|++++|.++|++|++.|+.||..||++||++|||
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            89999999999999999999999999999999999999999999999986

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.23  E-value=7.3e-10  Score=99.26  Aligned_cols=129  Identities=19%  Similarity=0.223  Sum_probs=110.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      .+.++|.++|+.-..+.|.+++++-+.. ..+.+..+||.+|.+-.....    .++..+|... ..+||..|||+++++
T Consensus       209 t~s~mI~Gl~K~~~~ERA~~L~kE~~~~-k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisq-km~Pnl~TfNalL~c  282 (625)
T KOG4422|consen  209 TVSIMIAGLCKFSSLERARELYKEHRAA-KGKVYREAFNGLIGASSYSVG----KKLVAEMISQ-KMTPNLFTFNALLSC  282 (625)
T ss_pred             hHHHHHHHHHHHHhHHHHHHHHHHHHHh-hheeeHHhhhhhhhHHHhhcc----HHHHHHHHHh-hcCCchHhHHHHHHH
Confidence            4558999999999999999999999886 468899999999987665433    7899999987 599999999999999


Q ss_pred             HHhCCChhH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHH
Q 023910          203 LVGFKLRDL----VVDCYELMKTVGCEPDRSSYRTVINGLEAMEEV-AFSGIIRQDAFKY  257 (275)
Q Consensus       203 ~~~~g~~~~----A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~-~~A~~l~~~m~~~  257 (275)
                      ..+.|+++.    |.+++.+|++-|+.|...+|..+|.-++|.++. ..|..++.+.+..
T Consensus       283 ~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~  342 (625)
T KOG4422|consen  283 AAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNS  342 (625)
T ss_pred             HHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHh
Confidence            999998765    568999999999999999999999999998876 4466677776543

>PF12854 PPR_1: PPR repeat

Probab=99.23  E-value=1e-11  Score=73.21  Aligned_cols=32  Identities=19%  Similarity=0.335  Sum_probs=16.2

Q ss_pred             CCCcCHHHHHHHHHHHHhCCChhHHHHHHHHH
Q 023910          188 SLEPEIQGFNALLKCLVGFKLRDLVVDCYELM  219 (275)
Q Consensus       188 G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  219 (275)
                      |+.||.+|||+||++||+.|++++|.++|++|
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            44555555555555555555555555555544

>PF12854 PPR_1: PPR repeat

Probab=99.19  E-value=2.6e-11  Score=71.54  Aligned_cols=33  Identities=21%  Similarity=0.287  Sum_probs=32.0

Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          152 WYKPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       152 g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      |+.||++|||+||++||+.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            899999999999999999999999999999994

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.04  E-value=3.4e-08  Score=90.10  Aligned_cols=130  Identities=8%  Similarity=-0.012  Sum_probs=101.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+...+.+.|++++|.++|+++.+.  ...+...+..+...|.+.|++++|.++|+++... +-.....+++.+..+|.+
T Consensus       185 ~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~  261 (389)
T PRK11788        185 ELAQQALARGDLDAARALLKKALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQA  261 (389)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHH
Confidence            4555667788999999999988773  2334667788888899999999999999988743 122224678888899999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|...++.+.+.  .|+...+..+...+.+.|++++|..+++++.+.+|.
T Consensus       262 ~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~  314 (389)
T PRK11788        262 LGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPS  314 (389)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcC
Confidence            99999999999988765  466677788888899999999999999888887775

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.90  E-value=1.9e-07  Score=85.26  Aligned_cols=135  Identities=12%  Similarity=0.022  Sum_probs=106.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNAL  199 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~l  199 (275)
                      +..+...+.+.|++++|.+.|+.+.+. +..++    ...|..+...+.+.|++++|...|+++.+.  .+.+...+..+
T Consensus       144 ~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l  220 (389)
T PRK11788        144 LQQLLEIYQQEKDWQKAIDVAERLEKL-GGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAA--DPQCVRASILL  220 (389)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHHHHHh-cCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHH
Confidence            446778888999999999999999874 22222    234567778888999999999999998743  23346688888


Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          200 LKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       200 I~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ...|.+.|++++|.++|+++.+.+-.....+++.+..+|++.|++++|.+.++++.+..|+.
T Consensus       221 a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~  282 (389)
T PRK11788        221 GDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGA  282 (389)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc
Confidence            89999999999999999999865322234678889999999999999999999998887763

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.75  E-value=1.2e-08  Score=59.89  Aligned_cols=33  Identities=24%  Similarity=0.375  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCC
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVGCEPD  227 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd  227 (275)
                      |||+||++|++.|++++|.++|++|++.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566666666666666667777766666666666

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.68  E-value=2.8e-08  Score=58.16  Aligned_cols=33  Identities=27%  Similarity=0.434  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP  226 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p  226 (275)
                      +|||++|.+|++.|+++.|.++|++|++.|++|
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            466777777777777777777777777666666

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.66  E-value=2.9e-08  Score=58.15  Aligned_cols=35  Identities=17%  Similarity=0.334  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH
Q 023910          158 SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI  193 (275)
Q Consensus       158 ~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~  193 (275)
                      +|||+||++|++.|++++|.++|++|+.. |++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~-g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLER-GIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCC
Confidence            47999999999999999999999999975 999984

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.

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

Probab=98.62  E-value=5.2e-06  Score=82.55  Aligned_cols=128  Identities=7%  Similarity=-0.072  Sum_probs=65.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+...|.+.|++++|...|+.+.+.  ...+...|..+...|.+.|++++|...|+++...  .+.+..+++.+...+..
T Consensus       606 ~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~  681 (899)
T TIGR02917       606 MLGRAQLAAGDLNKAVSSFKKLLAL--QPDSALALLLLADAYAVMKNYAKAITSLKRALEL--KPDNTEAQIGLAQLLLA  681 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHH
Confidence            4455555555555555555555442  1224445555555555555555555555555421  23334555555555555


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      .|++++|.++++.+.+.+ .++...+..+...+.+.|++++|.+.++.+.+..
T Consensus       682 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  733 (899)
T TIGR02917       682 AKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA  733 (899)
T ss_pred             cCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            555555555555554432 2334444555555555555555555555544443

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

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

Probab=98.61  E-value=8.2e-06  Score=81.11  Aligned_cols=130  Identities=9%  Similarity=-0.033  Sum_probs=85.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+...|.+.|++++|..+++.+.+.  ...+..+|..+...|.+.|++++|...|+.+...  .+.+...+..+..+|.+
T Consensus       572 ~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~  647 (899)
T TIGR02917       572 ALAQYYLGKGQLKKALAILNEAADA--APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL--QPDSALALLLLADAYAV  647 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHH
Confidence            4556666667777777777776653  3445666777777777777777777777776532  23355666677777777


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|..+|+.+.+. .+.+..++..+...+...|++++|.++++.+.+..+.
T Consensus       648 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  701 (899)
T TIGR02917       648 MKNYAKAITSLKRALEL-KPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK  701 (899)
T ss_pred             cCCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            77777777777766643 1234566777777777777777777777776665543

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=3.2e-07  Score=82.66  Aligned_cols=97  Identities=10%  Similarity=0.014  Sum_probs=83.4

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVI  235 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li  235 (275)
                      +..||.+||.|+|+--..+.|.+++++-... ..+.+..+||.+|.+-+-.    ....++.+|....++||..|||+++
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-KGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHh-hheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHH
Confidence            6789999999999999999999999999865 5899999999999875433    2388999999999999999999999


Q ss_pred             HHHHhcCCHHHHH----HHHHHHHHH
Q 023910          236 NGLEAMEEVAFSG----IIRQDAFKY  257 (275)
Q Consensus       236 ~~~~~~g~~~~A~----~l~~~m~~~  257 (275)
                      ++..+.|+++.|.    +++.+|.+.
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKei  306 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEI  306 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHh
Confidence            9999999988775    455555544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.47  E-value=2.1e-07  Score=54.36  Aligned_cols=34  Identities=18%  Similarity=0.302  Sum_probs=31.1

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP  191 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p  191 (275)
                      +.|||++|++|++.|+++.|.++|++|++. |++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~-gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQ-GVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCC
Confidence            368999999999999999999999999975 8988

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

Probab=98.46  E-value=1.5e-07  Score=53.64  Aligned_cols=29  Identities=14%  Similarity=0.339  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCC
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVG  223 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g  223 (275)
                      |||+||++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            44445555555555555555555444444

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.43  E-value=3.3e-05  Score=64.00  Aligned_cols=134  Identities=6%  Similarity=-0.066  Sum_probs=107.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+...+...|++++|.+.|++..+.  ...+...++.+...|...|++++|.+.|++.........+...+..+-..|
T Consensus        68 ~~~la~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  145 (234)
T TIGR02521        68 YLALALYYQQLGELEKAEDSFRRALTL--NPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCA  145 (234)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHH
Confidence            345667788899999999999999874  244667888889999999999999999999875322233456777788889


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|++++|...|++..+.. +.+...+..+...+...|++++|.+++++..+..+.
T Consensus       146 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  201 (234)
T TIGR02521       146 LKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQ  201 (234)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999987542 224567888899999999999999999998887554

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

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.43  E-value=2.6e-05  Score=64.58  Aligned_cols=131  Identities=13%  Similarity=-0.022  Sum_probs=107.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+...+...|++++|.+.|++..+......+...+..+-..|...|++++|...|++....  .+.+...+..+...+..
T Consensus       104 ~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~  181 (234)
T TIGR02521       104 NYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYL  181 (234)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHH
Confidence            5566777899999999999999773222334567777888999999999999999998743  33456788899999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      .|++++|...+++..+. ...+...+..+...+...|+.++|..+.+.+.+.+|
T Consensus       182 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  234 (234)
T TIGR02521       182 RGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLFP  234 (234)
T ss_pred             cCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc
Confidence            99999999999998865 345667777888999999999999999998887654

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.

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

Probab=98.35  E-value=4.2e-07  Score=51.76  Aligned_cols=31  Identities=13%  Similarity=0.300  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCC
Q 023910          158 SLYADMIQVFGTNGLFQHVEILYFYLKTENSL  189 (275)
Q Consensus       158 ~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~  189 (275)
                      +|||+||++|++.|++++|.++|++|.+. |+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~-g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRER-GI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHC-cC
Confidence            48999999999999999999999999864 64

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.

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

Probab=98.34  E-value=2.3e-05  Score=69.21  Aligned_cols=141  Identities=12%  Similarity=0.067  Sum_probs=106.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHH---HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVS---LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~---tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      -.|..|.+.++++.|.+.++.|++-   ..|..   ...+.++.+.-.+.+++|..+|+++..  .+.++..+.|.+..+
T Consensus       136 l~Vqi~L~~~R~dlA~k~l~~~~~~---~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~  210 (290)
T PF04733_consen  136 LAVQILLKMNRPDLAEKELKNMQQI---DEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVC  210 (290)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHCC---SCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc---CCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHH
Confidence            5678899999999999999999873   34533   333445555445679999999999964  378999999999999


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHHhCCccchHHHHHHHh
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEV-AFSGIIRQDAFKYYGDLEFLEEDEEDIA  272 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~-~~A~~l~~~m~~~~~~~~~~~e~~~~~~  272 (275)
                      +...|++++|.+++.+-.+.. .-|..|...+|......|+. +.+.+++.++...+|+..++.+.+++.+
T Consensus       211 ~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~~~~~~~  280 (290)
T PF04733_consen  211 HLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKDLAEKEA  280 (290)
T ss_dssp             HHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            999999999999999876432 22445666677777788887 7788999999999999877777766654

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.

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

Probab=98.32  E-value=8.9e-06  Score=60.63  Aligned_cols=82  Identities=21%  Similarity=0.276  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCC-CcCHHHHHHHHHHHHhCC--------ChhHHHHHHHHHHhCCCCCCHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENSL-EPEIQGFNALLKCLVGFK--------LRDLVVDCYELMKTVGCEPDRS  229 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~-~pd~~tyn~lI~~~~~~g--------~~~~A~~l~~~M~~~g~~pd~~  229 (275)
                      |-...|.-+...+++.....+|+.+++ +|+ .|++.+||.++.+-++..        ++-..+.+|++|...+++|+..
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkR-N~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~e  105 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKR-NGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHh-cCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHH
Confidence            344566666677888888889988885 488 889999999988887643        2445778899999999999999


Q ss_pred             HHHHHHHHHHhc
Q 023910          230 SYRTVINGLEAM  241 (275)
Q Consensus       230 ty~~li~~~~~~  241 (275)
                      ||+.++..+.+.
T Consensus       106 tYnivl~~Llkg  117 (120)
T PF08579_consen  106 TYNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988753

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 [, , ].

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

Probab=98.17  E-value=3.7e-05  Score=70.87  Aligned_cols=118  Identities=10%  Similarity=-0.041  Sum_probs=98.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcC-CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQ-WYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~-g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      |+-.+++.+....+++++..++...+... ....-..|..++|+.|-+.|..++++.+++.=. .+|+-||..|||.||+
T Consensus        68 dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~-~yGiF~D~~s~n~Lmd  146 (429)
T PF10037_consen   68 DLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRL-QYGIFPDNFSFNLLMD  146 (429)
T ss_pred             HHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChh-hcccCCChhhHHHHHH
Confidence            44566777777778888999988887731 122223455699999999999999999998865 4799999999999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM  241 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~  241 (275)
                      .+.+.|++..|.++..+|...+...+..|+..-+.+|.+.
T Consensus       147 ~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  147 HFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999888888889999999988887

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 [].

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

Probab=98.14  E-value=2.8e-05  Score=64.71  Aligned_cols=88  Identities=17%  Similarity=0.301  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHcC-----CCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC----------------ChhHHHH
Q 023910          156 QVSLYADMIQVFGTN-----GLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK----------------LRDLVVD  214 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~-----g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g----------------~~~~A~~  214 (275)
                      |..+|..+|+.|.+.     |+++=....+..|. +.|+.-|..+||.||+.+=+..                .-+-|++
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~-efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMD-EFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHH-HcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            444455555544433     44444445555554 2455555555555555554321                2356899


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 023910          215 CYELMKTVGCEPDRSSYRTVINGLEAMEEV  244 (275)
Q Consensus       215 l~~~M~~~g~~pd~~ty~~li~~~~~~g~~  244 (275)
                      ++++|.++|+.||..|+..|++.+++.+..
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            999999999999999999999998776654

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

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

Probab=98.11  E-value=3.3e-05  Score=67.63  Aligned_cols=131  Identities=12%  Similarity=0.067  Sum_probs=87.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~  204 (275)
                      ..+..+.+.++++.+.++++.........++...|..+-..+.+.|+.++|++.|++..+.   .| |....+.++..+.
T Consensus       115 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~l~~~li  191 (280)
T PF13429_consen  115 SALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNALAWLLI  191 (280)
T ss_dssp             ---H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHH
Confidence            5566677778888888888887654334567777878888888888888888888887643   44 4667777888888


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|+.+++.++++...... ..|...+..+-.+|...|+.++|..++++..+..|+
T Consensus       192 ~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~  246 (280)
T PF13429_consen  192 DMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD  246 (280)
T ss_dssp             TTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred             HCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccccc
Confidence            8888888777777776443 334446677777888888888888888887766553

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.10  E-value=0.00061  Score=66.98  Aligned_cols=130  Identities=11%  Similarity=-0.043  Sum_probs=83.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+...|++++|...|++..+.  -..+...|..+...|...|+.++|...++.+...  .+.+...+..+ ..+.+
T Consensus       115 ~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~--~P~~~~a~~~~-~~l~~  189 (656)
T PRK15174        115 LVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQE--VPPRGDMIATC-LSFLN  189 (656)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CCCCHHHHHHH-HHHHH
Confidence            4555667778888888888887663  1234667777777788888888888877776533  12222233233 34677


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|..+++.+.+..-.++..++..+...+.+.|++++|.+.++++.+..|.
T Consensus       190 ~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~  244 (656)
T PRK15174        190 KSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD  244 (656)
T ss_pred             cCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            7788888877777665433334445555566777777777777777777665443

>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=98.09  E-value=0.00089  Score=65.28  Aligned_cols=131  Identities=12%  Similarity=-0.102  Sum_probs=104.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+-..+...|++++|...|++..+.  -..+...|..+-..|...|++++|+..|++....  .+.+...|..+-..|.
T Consensus       369 ~~la~~~~~~g~~~eA~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~  444 (615)
T TIGR00990       369 IKRASMNLELGDPDKAEEDFDKALKL--NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQY  444 (615)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHH
Confidence            45566677889999999999988774  2335778888889999999999999999988643  3445677888888889


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|++++|...|++..+. .+-+...|+.+-..+...|++++|.+.++...+..|+
T Consensus       445 ~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~  499 (615)
T TIGR00990       445 KEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKE  499 (615)
T ss_pred             HCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCc
Confidence            999999999999988753 2234668888888999999999999999998877654

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

Probab=98.00  E-value=1.2e-05  Score=78.05  Aligned_cols=100  Identities=14%  Similarity=0.192  Sum_probs=85.5

Q ss_pred             HHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 023910          142 KVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       142 ~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      .++-.|+. .|+.||-+||.+||.-||..|+.+.|- +|.-|+.+ ...-+...|+.++.+..++|+.+.+.        
T Consensus        11 nfla~~e~-~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~k-sLpv~e~vf~~lv~sh~~And~Enpk--------   79 (1088)
T KOG4318|consen   11 NFLALHEI-SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIK-SLPVREGVFRGLVASHKEANDAENPK--------   79 (1088)
T ss_pred             hHHHHHHH-hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcc-cccccchhHHHHHhcccccccccCCC--------
Confidence            34566767 499999999999999999999999999 99999865 68889999999999999999988776        


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          222 VGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       222 ~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                         .|-..||+.|+.+|.+.|++..-..+-++|.
T Consensus        80 ---ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe  110 (1088)
T KOG4318|consen   80 ---EPLADTYTNLLKAYRIHGDLILFEVVEQDLE  110 (1088)
T ss_pred             ---CCchhHHHHHHHHHHhccchHHHHHHHHHHH
Confidence               7888899999999999999877444433333

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

Probab=97.97  E-value=0.00023  Score=62.58  Aligned_cols=134  Identities=12%  Similarity=0.100  Sum_probs=108.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ++.+++..-|.+..+.|.++|.+.++...+..++....++|..++ .++.+.|..+|+...+.  +.-+..-|..-|+-+
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKK--FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHH--HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            456777777888899999999999886556778888888887665 45688899999998865  677888899999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDR---SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~---~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+.|+.+.|..+|+.-... +.++.   ..|...|+-=.+.|+++....+.+.+.+.+++-
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            9999999999999998754 33332   489999999999999999999999999998873

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.

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

Probab=97.96  E-value=0.00064  Score=52.33  Aligned_cols=112  Identities=16%  Similarity=0.106  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ......+...+.+.|++++|.+.|+.....  .+.+...|..+-..|.+.|++++|..+++...+.+ +.+..++..+-.
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~   93 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAE   93 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHH
Confidence            344566667777888888888888887642  34466777778888888888888888888766543 335566666777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCCccchHHHHHHH
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDI  271 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~~~~~  271 (275)
                      .+...|++++|...++...+..|.-....+..+++
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  128 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEICGENPEYSELKERA  128 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            88888888888888888888887765544444433

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

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=97.92  E-value=0.00097  Score=65.03  Aligned_cols=129  Identities=9%  Similarity=-0.180  Sum_probs=106.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      .+-..+...|++++|...|++..+.   .|+ ..+|..+-..|...|++++|+..|++....  -+-+...|..+-..|.
T Consensus       336 ~lg~~~~~~g~~~eA~~~~~kal~l---~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~p~~~~~~~~lg~~~~  410 (615)
T TIGR00990       336 LRGTFKCLKGKHLEALADLSKSIEL---DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKL--NSEDPDIYYHRAQLHF  410 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            3445566789999999999998773   454 668888889999999999999999998643  2445788999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.+|.
T Consensus       411 ~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~  465 (615)
T TIGR00990       411 IKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPE  465 (615)
T ss_pred             HcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            9999999999999887542 235667778888899999999999999999888776

>PRK12370 invasion protein regulator; Provisional

Probab=97.91  E-value=0.00079  Score=64.86  Aligned_cols=127  Identities=6%  Similarity=-0.126  Sum_probs=95.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHH-HHHHHHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQ-GFNALLKCLV  204 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~-tyn~lI~~~~  204 (275)
                      +-..+...|++++|...|++..+.   .| +...|..+-..|...|++++|+..|++...   ..|+.. .+..+...+.
T Consensus       344 lg~~~~~~g~~~~A~~~~~~Al~l---~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~  417 (553)
T PRK12370        344 LGLINTIHSEYIVGSLLFKQANLL---SPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITY  417 (553)
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHH
Confidence            334566789999999999999884   44 466788888899999999999999999864   345432 3344455577


Q ss_pred             hCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++++|...+++..+.. .| +...+..+-..+...|++++|.+.++++....|.
T Consensus       418 ~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~  473 (553)
T PRK12370        418 YHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEIT  473 (553)
T ss_pred             hccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccch
Confidence            7899999999999887543 34 3334667777888999999999999887655443

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

Probab=97.88  E-value=0.00069  Score=58.00  Aligned_cols=139  Identities=12%  Similarity=0.092  Sum_probs=99.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHH----HHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADM----IQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~L----i~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+.|..+++.|.+..+.|..-.    +..|.|-|    |+...-.+.+.+|.-+|++|. + .+.|+.-+-|.+..++
T Consensus       144 VqI~lk~~r~d~A~~~lk~mq~id----ed~tLtQLA~awv~la~ggek~qdAfyifeE~s-~-k~~~T~~llnG~Av~~  217 (299)
T KOG3081|consen  144 VQILLKMHRFDLAEKELKKMQQID----EDATLTQLAQAWVKLATGGEKIQDAFYIFEELS-E-KTPPTPLLLNGQAVCH  217 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHccc----hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHh-c-ccCCChHHHccHHHHH
Confidence            334456677888888888887731    44555544    444445577899999999996 3 3899999999999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHHHHHHhh
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSY-RTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIAA  273 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty-~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~~~~~~~  273 (275)
                      ...|++++|..++++..+..-+ |..|. |.++.+.-..-+.+--.+.+..+...+|+..|++...++.++
T Consensus       218 l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~vk~~~ekeae  287 (299)
T KOG3081|consen  218 LQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLSHPEHPFVKHLNEKEAE  287 (299)
T ss_pred             HHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCcchHHHHHHHHHHH
Confidence            9999999999999998854333 22343 444444433334455678888899999999999888877654

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

Probab=97.87  E-value=0.00019  Score=53.56  Aligned_cols=79  Identities=14%  Similarity=0.318  Sum_probs=66.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCC-CCCHHHHHHHHHHHHcCCC--------HHHHHHHHHHhHhcCCCCcCHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWY-KPQVSLYADMIQVFGTNGL--------FQHVEILYFYLKTENSLEPEIQGF  196 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~-~p~~~tyn~Li~~~~~~g~--------~~~A~~lf~~M~~~~G~~pd~~ty  196 (275)
                      .-|..+...+++..-..+|+.+++ .|+ .|++.+||.++.+.++...        +-+.+.+|+.|... +++||..||
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkR-N~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etY  107 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKR-NGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETY  107 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHh-cCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHH
Confidence            455556667999999999999999 599 9999999999999887632        34677899999876 799999999


Q ss_pred             HHHHHHHHhC
Q 023910          197 NALLKCLVGF  206 (275)
Q Consensus       197 n~lI~~~~~~  206 (275)
                      |.+|..+.+.
T Consensus       108 nivl~~Llkg  117 (120)
T PF08579_consen  108 NIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHh
Confidence            9999998764

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 [, , ].

>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=97.86  E-value=0.00034  Score=48.50  Aligned_cols=97  Identities=7%  Similarity=-0.001  Sum_probs=56.7

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 023910          160 YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLE  239 (275)
Q Consensus       160 yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~  239 (275)
                      |..+...+...|++++|...|++....  .+.+...+..+-..|...|++++|.+.|+...+.. ..+..++..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            444555566666666666666666432  22233556666666666666777776666655432 222245566666666


Q ss_pred             hcCCHHHHHHHHHHHHHHhC
Q 023910          240 AMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       240 ~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ..|+.++|.+.+....+..|
T Consensus        80 ~~~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          80 KLGKYEEALEAYEKALELDP   99 (100)
T ss_pred             HHHhHHHHHHHHHHHHccCC
Confidence            67777777776666655443

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

Probab=97.85  E-value=0.00011  Score=67.71  Aligned_cols=103  Identities=9%  Similarity=0.060  Sum_probs=89.5

Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC-CCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHH
Q 023910          153 YKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTEN-SLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY  231 (275)
Q Consensus       153 ~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~-G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty  231 (275)
                      ..-+.+..-.+++.+....+++++..++...+... ....-..|..++|..|.+.|..++++++++.=..+|+-||.+||
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            45578889999999999999999999998886431 22233345679999999999999999999998899999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          232 RTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       232 ~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      |.|++.+.+.|++..|.++..+|+
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~  165 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMM  165 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHH
Confidence            999999999999999999999876

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 [].

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=97.81  E-value=0.0014  Score=64.45  Aligned_cols=130  Identities=7%  Similarity=-0.094  Sum_probs=84.8

Q ss_pred             HHHHHHHhcCCHHH----HHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLL----ALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       126 ~li~~~~~~g~~~~----A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      .+-..|.+.|++++    |...|+...+.  ...+...+..+-..|.+.|++++|+..+++....  -+-+...+..+-.
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~  326 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            34455566677664    67777777663  1234567777777777777777777777776532  2233455666677


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSS-YRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~t-y~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +|.+.|++++|...|+.+.+.  .|+... +..+..++...|+.++|.+.+++..+..|+.
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~  385 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASH  385 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhh
Confidence            777788888888887777643  344333 3334556777888888888888877776663

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

Probab=97.79  E-value=0.00014  Score=63.59  Aligned_cols=125  Identities=11%  Similarity=0.039  Sum_probs=88.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      .+-..+.+.|+.++|.+.|++..+.   .| |....+.++..+...|+.+++.++++.....  ...|...+..+-.+|.
T Consensus       151 ~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~  225 (280)
T PF13429_consen  151 ALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYL  225 (280)
T ss_dssp             HHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhc
Confidence            5556677899999999999999885   45 5888999999999999999999999998764  4566778899999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      ..|+.++|..+|++.... -+-|..+...+.+++...|+.++|.++.++..+
T Consensus       226 ~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  226 QLGRYEEALEYLEKALKL-NPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccc-ccccccccccccccccccccccccccccccccc
Confidence            999999999999997752 233777888999999999999999999887543

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

Probab=97.79  E-value=0.00022  Score=59.40  Aligned_cols=84  Identities=11%  Similarity=0.168  Sum_probs=67.6

Q ss_pred             HHHHHHHHHh-----cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCC----------------HHHHHHHHHH
Q 023910          124 MIAVLRELLR-----QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL----------------FQHVEILYFY  182 (275)
Q Consensus       124 ~~~li~~~~~-----~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~----------------~~~A~~lf~~  182 (275)
                      +..+|+.|.+     .|..+=-...+..|.+ .|+.-|..+||.||+.+=+..-                -+-|++++++
T Consensus        50 F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~e-fgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~q  128 (228)
T PF06239_consen   50 FLEAVDIFKQRDVRRRGHVEFIYAALKKMDE-FGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQ  128 (228)
T ss_pred             HHHHHHHHHhcCCCCcChHHHHHHHHHHHHH-cCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHH
Confidence            3444444443     4677777778888988 7999999999999999887432                2668999999


Q ss_pred             hHhcCCCCcCHHHHHHHHHHHHhCCCh
Q 023910          183 LKTENSLEPEIQGFNALLKCLVGFKLR  209 (275)
Q Consensus       183 M~~~~G~~pd~~tyn~lI~~~~~~g~~  209 (275)
                      |+. +|+.||..|+..|++.+++.+..
T Consensus       129 ME~-~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  129 MEN-NGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHH-cCCCCcHHHHHHHHHHhccccHH
Confidence            986 59999999999999999988753

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

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.76  E-value=0.0014  Score=48.73  Aligned_cols=106  Identities=8%  Similarity=-0.047  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCC-CCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhC--CCCCCHHHHHHHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENS-LEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTV--GCEPDRSSYRTVI  235 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G-~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~--g~~pd~~ty~~li  235 (275)
                      ++-.+...+.+.|++++|.+.|+.+..... -......+..+...+.+.|++++|...|+.....  +.......+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455556666677777777766653210 0111234455666666677777777777766532  1111233455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHhCCccch
Q 023910          236 NGLEAMEEVAFSGIIRQDAFKYYGDLEFL  264 (275)
Q Consensus       236 ~~~~~~g~~~~A~~l~~~m~~~~~~~~~~  264 (275)
                      ..+.+.|+.++|.+.++++.+.+|+-...
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhH
Confidence            66666777777777777777777665433

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.

>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=97.70  E-value=0.0014  Score=60.24  Aligned_cols=121  Identities=12%  Similarity=0.087  Sum_probs=100.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      +++..+...++++.|.++|+++.++   .|++..  .|...|...++-.+|++++++...+  .+-|....+.-...|.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~---~pev~~--~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRER---DPEVAV--LLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhc---CCcHHH--HHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHh
Confidence            6777777789999999999999886   366544  4788888889999999999998754  45577777777777899


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRS-SYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~-ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      .++.+.|..+.+++.+  +.|+.. +|..|..+|.+.|+++.|.-.++.+-
T Consensus       247 k~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999874  466555 99999999999999999998888743

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

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.70  E-value=0.0036  Score=62.73  Aligned_cols=142  Identities=11%  Similarity=-0.071  Sum_probs=113.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCC----------CCCC---HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQW----------YKPQ---VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE  192 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g----------~~p~---~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd  192 (275)
                      .+..++...|++++|.++++.+.+...          -.|+   ...+..+...+...|+.++|+++|+++...  .+-+
T Consensus       315 ~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n  392 (765)
T PRK10049        315 DLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN--APGN  392 (765)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            455677889999999999999987421          1123   234566778899999999999999999753  5667


Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHHHHHH
Q 023910          193 IQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDI  271 (275)
Q Consensus       193 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~~~~~  271 (275)
                      ...+..+...+...|++++|...+++..+.  .|| ...+-.+...+.+.|++++|+.+++++++.+|+-..+..+.+..
T Consensus       393 ~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~~~~~~  470 (765)
T PRK10049        393 QGLRIDYASVLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQRLARAR  470 (765)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            889999999999999999999999987753  465 45556666788899999999999999999999876666555543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.65  E-value=0.0037  Score=49.24  Aligned_cols=96  Identities=14%  Similarity=-0.006  Sum_probs=48.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 023910          162 DMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM  241 (275)
Q Consensus       162 ~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~  241 (275)
                      .+-..+.+.|++++|...|+.....  -+.+...|..+-.++.+.|++++|...|+...... ..|..++..+-.++.+.
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHc
Confidence            3444455555555555555554421  12344555555555555555555555555555321 22444445555555555


Q ss_pred             CCHHHHHHHHHHHHHHhCC
Q 023910          242 EEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       242 g~~~~A~~l~~~m~~~~~~  260 (275)
                      |++++|.+.++...+.-|.
T Consensus       106 g~~~eAi~~~~~Al~~~p~  124 (144)
T PRK15359        106 GEPGLAREAFQTAIKMSYA  124 (144)
T ss_pred             CCHHHHHHHHHHHHHhCCC
Confidence            5555555555555554443

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

Probab=97.63  E-value=0.0058  Score=52.46  Aligned_cols=120  Identities=11%  Similarity=-0.035  Sum_probs=94.9

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh---
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG---  205 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~---  205 (275)
                      .-|++.|++++|++..+...       +.-....=+..+-+..+.+-|...++.|..-.    +..|.+.|-.++.+   
T Consensus       116 ~i~~~~~~~deAl~~~~~~~-------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id----ed~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGE-------NLEAAALNVQILLKMHRFDLAEKELKKMQQID----EDATLTQLAQAWVKLAT  184 (299)
T ss_pred             HHhhcCCChHHHHHHHhccc-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc----hHHHHHHHHHHHHHHhc
Confidence            45788999999999988732       22222222344556788999999999998543    77888877777765   


Q ss_pred             -CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 -FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 -~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                       .+.+.+|+.+|++|.+ ...|+..+-|-...++...|++++|+.++++....+++
T Consensus       185 ggek~qdAfyifeE~s~-k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~  239 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK  239 (299)
T ss_pred             cchhhhhHHHHHHHHhc-ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC
Confidence             5589999999999964 37889999999999999999999999999998877665

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.61  E-value=0.0053  Score=61.52  Aligned_cols=126  Identities=10%  Similarity=-0.049  Sum_probs=87.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+-..+.+.|++++|.++|++..+.  -..+...+..+...+...|++++|+..+++....  .+.+.. +..+-.++
T Consensus        52 ~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~-~~~la~~l  126 (765)
T PRK10049         52 YAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG--APDKAN-LLALAYVY  126 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHH-HHHHHHHH
Confidence            456666777788888888888887663  1334566677777788888888888888887643  333444 77777777


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      .+.|+.++|...+++..+.  .| +...+..+...+.+.|..+.|.+.++....
T Consensus       127 ~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~  178 (765)
T PRK10049        127 KRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSAPALGAIDDANL  178 (765)
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC
Confidence            8888888888888887753  33 334445566777777888888877766554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.58  E-value=0.007  Score=61.97  Aligned_cols=122  Identities=11%  Similarity=-0.055  Sum_probs=95.9

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHH
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLV  212 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A  212 (275)
                      +.|++++|...|++..+   ..|+...|..+-..+.+.|+.++|+..|++....  -+-+...++.+-.++...|+.++|
T Consensus       588 ~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeA  662 (987)
T PRK09782        588 IPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQS  662 (987)
T ss_pred             hCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHH
Confidence            45888899888888876   3567888888888888999999999998888642  233456667777788888999999


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          213 VDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       213 ~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ...|+...+.  .| +...+..+-.++...|++++|...+++..+.-|..
T Consensus       663 i~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~  710 (987)
T PRK09782        663 REMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQ  710 (987)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC
Confidence            9988887643  33 45567788888889999999999999988887765

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.55  E-value=0.0042  Score=65.00  Aligned_cols=129  Identities=9%  Similarity=-0.006  Sum_probs=100.0

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHH---------
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNAL---------  199 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~l---------  199 (275)
                      ..+...|++++|...|++..+.  -.-|...+..|-..|.+.|++++|+..|++..+...-.++...|..+         
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRA--NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            3456789999999999999884  23378889999999999999999999999986431111222223222         


Q ss_pred             ---HHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          200 ---LKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       200 ---I~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                         -..+.+.|++++|...|++..+.. +.+...+..+-..+...|++++|.+.+++..+..|.
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~  417 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG  417 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence               335678999999999999998642 235567778889999999999999999999988776

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.53  E-value=0.033  Score=51.46  Aligned_cols=123  Identities=12%  Similarity=0.065  Sum_probs=100.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|+.++|.+++++..++   .||...  .++.+....++.+++.+..+...+.  .+=|...+.++=..|.
T Consensus       267 ~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~  339 (398)
T PRK10747        267 VAMAEHLIECDDHDTAQQIILDGLKR---QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLM  339 (398)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHH
Confidence            36778888899999999999998774   344421  2344555669999999999999754  4455567888889999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      +.|++++|.+.|+...+  ..|+..+|..+-..+.+.|+.++|.+++++-..
T Consensus       340 ~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        340 KHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999999999885  469999999999999999999999999988654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.53  E-value=0.0073  Score=61.85  Aligned_cols=127  Identities=11%  Similarity=-0.060  Sum_probs=87.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF  206 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~  206 (275)
                      +...+.+.|+.++|...|++..+. . .++...+..+...+.+.|++++|+..|++...   +.|+...|..+-..+.+.
T Consensus       548 la~all~~Gd~~eA~~~l~qAL~l-~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~l  622 (987)
T PRK09782        548 AANTAQAAGNGAARDRWLQQAEQR-G-LGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQR  622 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhc-C-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHC
Confidence            344556677777777777777663 1 22333333333444455888888888877752   457777888888888888


Q ss_pred             CChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          207 KLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       207 g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |+.++|...|++..+.  .| +...++.+-..+...|++++|.++++...+..|.
T Consensus       623 G~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~  675 (987)
T PRK09782        623 HNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPD  675 (987)
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            8888888888877643  34 4445666667788888888888888888777664

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

Probab=97.52  E-value=0.0091  Score=49.68  Aligned_cols=122  Identities=8%  Similarity=-0.004  Sum_probs=84.2

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH-HhCCC--hh
Q 023910          134 QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL-VGFKL--RD  210 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~-~~~g~--~~  210 (275)
                      .++.+++...++...+.  -..|...|..|-..|...|++++|...|+....-  -.-|...+..+-.++ ...|+  .+
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~  127 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTP  127 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcH
Confidence            34455666666665553  2457778888888888888888888888877632  223556666666653 56666  48


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          211 LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       211 ~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +|..++++..+..-. |..++..+-..+.+.|++++|...++++.+..|.
T Consensus       128 ~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~  176 (198)
T PRK10370        128 QTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            888888887754322 5567777777788888888888888888877765

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.51  E-value=0.037  Score=55.73  Aligned_cols=141  Identities=9%  Similarity=-0.071  Sum_probs=104.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCC------------CCCCHHH-HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQW------------YKPQVSL-YADMIQVFGTNGLFQHVEILYFYLKTENSLEP  191 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g------------~~p~~~t-yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p  191 (275)
                      ..|.-+|...+++++|..+++.+.+...            ..||-.. +..++..+...|++.+|+++++++...  -+-
T Consensus       371 ~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~  448 (822)
T PRK14574        371 DDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APA  448 (822)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            5678888888999999999988877311            1223222 334556678888899999999988754  566


Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHHHH
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEE  269 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~~~  269 (275)
                      |......+-+.+...|.+.+|.+.++....  +.| |..+.......+...|++.+|..+.+++.+.+|+-.-..++++
T Consensus       449 n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~~l~r  525 (822)
T PRK14574        449 NQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQELDR  525 (822)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHHHHHH
Confidence            788888888888888999999998865543  244 4556667777888889999999999999999998766666554

>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=97.50  E-value=0.00045  Score=61.02  Aligned_cols=116  Identities=10%  Similarity=-0.000  Sum_probs=87.8

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh----
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG----  205 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~----  205 (275)
                      .+...|++++|+++++.-       .+.-.....+..|.+.++++.|.+.++.|++   .-.|... ..|..++..    
T Consensus       111 i~~~~~~~~~AL~~l~~~-------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~~l-~qLa~awv~l~~g  179 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG-------GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDEDSIL-TQLAEAWVNLATG  179 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT-------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCCHHH-HHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHcc-------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcHHH-HHHHHHHHHHHhC
Confidence            345579999999988653       2566777889999999999999999999974   3445443 334444433    


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      ...+.+|+.+|+++.+. ..++..+.|.+.-++...|++++|++++.+..+.
T Consensus       180 ~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~  230 (290)
T PF04733_consen  180 GEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK  230 (290)
T ss_dssp             TTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC
T ss_pred             chhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            34799999999998754 6788899999999999999999999999986543

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.

>TIGR00540 hemY_coli hemY protein

Probab=97.50  E-value=0.0082  Score=55.58  Aligned_cols=130  Identities=14%  Similarity=-0.004  Sum_probs=98.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHH---HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSL---YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~t---yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      ..+...+...|+.+.|.+++++..++   .||...   .....-.....++.+.+.+.++...+...-.|+.....++=.
T Consensus       267 ~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~  343 (409)
T TIGR00540       267 IALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQ  343 (409)
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHH
Confidence            36777888999999999999999885   344331   122222333457888899999887654222222245567888


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      .|.+.|++++|.+.|+.-......||...+..+...+.+.|+.++|.+++++....
T Consensus       344 l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~~  399 (409)
T TIGR00540       344 LLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLGL  399 (409)
T ss_pred             HHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88999999999999996555556899999999999999999999999999986543

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.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.50  E-value=0.0078  Score=59.35  Aligned_cols=128  Identities=13%  Similarity=0.040  Sum_probs=105.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH-HHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI-QGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~-~tyn~lI~~~  203 (275)
                      -|-....+.|..++|..+++....   +.|| ......+...+.+.+++++|+...+....   ..||. ...+.+=.++
T Consensus        91 ~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~~~a~~l  164 (694)
T PRK15179         91 LVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREILLEAKSW  164 (694)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHHHHHHHH
Confidence            455556678999999999999977   3565 66777888999999999999999999874   34555 5556666678


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|+.++|..+|++.... ..-+..++..+-.++-..|+.++|...|+...+..+.
T Consensus       165 ~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~  220 (694)
T PRK15179        165 DEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD  220 (694)
T ss_pred             HHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc
Confidence            8899999999999999872 2234678889999999999999999999999887765

>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=97.49  E-value=0.0025  Score=43.90  Aligned_cols=92  Identities=10%  Similarity=0.026  Sum_probs=74.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+...+...|++++|.++|++..+.  ...+..++..+...|...|++++|.+.|+.....  ...+..++..+...+..
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~   80 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHHH
Confidence            4455667789999999999999774  2345577888899999999999999999988643  34455788899999999


Q ss_pred             CCChhHHHHHHHHHHh
Q 023910          206 FKLRDLVVDCYELMKT  221 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~  221 (275)
                      .|+.++|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            9999999999987654

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.47  E-value=0.015  Score=51.45  Aligned_cols=120  Identities=11%  Similarity=-0.070  Sum_probs=85.0

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHHhCC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLVGFK  207 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~~~g  207 (275)
                      ..|.+.|+.++|...|++..+.  -..+...|+.+-..|...|++++|...|+...+   +.| +..+|..+-.++...|
T Consensus        72 ~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~g  146 (296)
T PRK11189         72 VLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE---LDPTYNYAYLNRGIALYYGG  146 (296)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCC
Confidence            3566778888888888888773  233578888888888888888888888888763   344 4567777888888888


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          208 LRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       208 ~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      ++++|.+.|+.-.+.  .|+..........+...++.++|.+.+++..
T Consensus       147 ~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        147 RYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             CHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            888888888887643  3443322222333445677888888886644

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.47  E-value=0.012  Score=49.76  Aligned_cols=133  Identities=6%  Similarity=-0.059  Sum_probs=96.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH-HHHHHHHHHHHcC--------CCHHHHHHHHHHhHhcCCCCcCH-H
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQV-SLYADMIQVFGTN--------GLFQHVEILYFYLKTENSLEPEI-Q  194 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~-~tyn~Li~~~~~~--------g~~~~A~~lf~~M~~~~G~~pd~-~  194 (275)
                      ..+-..+.+.|++++|...|+.+.+...-.|.. .++..+-..+.+.        |+.++|.+.|+.....   .|+. .
T Consensus        74 ~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~  150 (235)
T TIGR03302        74 LDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEY  150 (235)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChh
Confidence            344567778899999999999998753222222 2344444555544        7889999999998753   3332 2


Q ss_pred             HHH-----------------HHHHHHHhCCChhHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          195 GFN-----------------ALLKCLVGFKLRDLVVDCYELMKTVG--CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       195 tyn-----------------~lI~~~~~~g~~~~A~~l~~~M~~~g--~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      .+.                 .+-..|.+.|++++|...+++..+..  -......+..+..++.+.|++++|..+++.+.
T Consensus       151 ~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~  230 (235)
T TIGR03302       151 APDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLG  230 (235)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            221                 33456778899999999999987431  22345688899999999999999999999999


Q ss_pred             HHhCC
Q 023910          256 KYYGD  260 (275)
Q Consensus       256 ~~~~~  260 (275)
                      ..||+
T Consensus       231 ~~~~~  235 (235)
T TIGR03302       231 ANYPD  235 (235)
T ss_pred             hhCCC
Confidence            88875

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).

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

Probab=97.45  E-value=0.0084  Score=47.06  Aligned_cols=124  Identities=11%  Similarity=0.010  Sum_probs=89.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHH---HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH--HHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSL---YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI--QGFNAL  199 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~t---yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~--~tyn~l  199 (275)
                      ..++..+ ..++...+...++.+.+.+  ..+...   .=.+-..+...|++++|...|+..... .-.|+.  ...-.|
T Consensus        16 ~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   16 EQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHH
Confidence            3444444 4788999999999998852  333222   222347788899999999999999864 323332  344456


Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          200 LKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       200 I~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      -..+...|++++|+..++......+.  ...+...-+.|.+.|+.++|...|+..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~--~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFK--ALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchH--HHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            67788899999999999875544443  346678888999999999999998764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.45  E-value=0.011  Score=49.97  Aligned_cols=136  Identities=10%  Similarity=0.022  Sum_probs=96.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH-HHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI-QGFNALLK  201 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~-~tyn~lI~  201 (275)
                      ...+...+.+.|+++.|...|++..+...-.|. ..++..+-..|.+.|++++|...|+++.+...-.|.. .++..+-.
T Consensus        36 ~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~  115 (235)
T TIGR03302        36 LYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGL  115 (235)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHH
Confidence            345566777899999999999999774211121 2467888899999999999999999997532112221 24444445


Q ss_pred             HHHhC--------CChhHHHHHHHHHHhCCCCCCHH-HH-----------------HHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          202 CLVGF--------KLRDLVVDCYELMKTVGCEPDRS-SY-----------------RTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       202 ~~~~~--------g~~~~A~~l~~~M~~~g~~pd~~-ty-----------------~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      ++.+.        |+.++|.+.|+...+.  .|+.. .+                 -.+-..+.+.|++++|...+++..
T Consensus       116 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al  193 (235)
T TIGR03302       116 SNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVV  193 (235)
T ss_pred             HHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            55544        7889999999998743  23221 11                 134566788999999999999999


Q ss_pred             HHhCCc
Q 023910          256 KYYGDL  261 (275)
Q Consensus       256 ~~~~~~  261 (275)
                      +.||+-
T Consensus       194 ~~~p~~  199 (235)
T TIGR03302       194 ENYPDT  199 (235)
T ss_pred             HHCCCC
Confidence            998864

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).

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.44  E-value=0.0079  Score=63.02  Aligned_cols=127  Identities=7%  Similarity=-0.029  Sum_probs=78.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|+.++|++.|+...+.  -..+...+..+...|...|+.++|++.|+.....  -+-+..++..+-.++.+
T Consensus       608 ~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~  683 (1157)
T PRK11447        608 TLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAA  683 (1157)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHh
Confidence            3445556667777777777777663  1335666777777777777777777777765421  12234445556666677


Q ss_pred             CCChhHHHHHHHHHHhCC--CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVG--CEP---DRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g--~~p---d~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      .|++++|.++|+......  -.|   +...+..+-..+...|+.++|.+.++..+.
T Consensus       684 ~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        684 LGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             CCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            777777777777766432  122   224455556666777777777777777654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.44  E-value=0.011  Score=59.36  Aligned_cols=118  Identities=12%  Similarity=0.025  Sum_probs=53.9

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR  209 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~  209 (275)
                      .|...|+++.|+++|+++.+..  .-|...+..|+..|...++.++|++.++....   ..|+...|-.++..+...++.
T Consensus       111 ly~~~gdyd~Aiely~kaL~~d--P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~---~dp~~~~~l~layL~~~~~~~  185 (822)
T PRK14574        111 AYRNEKRWDQALALWQSSLKKD--PTNPDLISGMIMTQADAGRGGVVLKQATELAE---RDPTVQNYMTLSYLNRATDRN  185 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcc---cCcchHHHHHHHHHHHhcchH
Confidence            3444455555555555554431  11233344445555555555555555555532   234444443332223223334


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          210 DLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       210 ~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      .+|++.++++.+.. +-+...+.-+..++.+.|-...|.++..+
T Consensus       186 ~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~  228 (822)
T PRK14574        186 YDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKE  228 (822)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHh
Confidence            34555555555331 11333444555555555555555544433

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

Probab=97.41  E-value=0.013  Score=49.30  Aligned_cols=131  Identities=10%  Similarity=-0.050  Sum_probs=100.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      +.|--+|...|+...|.+-+++..+.  -+-+.-+|.++-..|-+.|..+.|.+-|+.-.+.  -+-|....|.-=.-+|
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC  114 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHH
Confidence            45666888999999999999998884  2335678888889999999999999999887532  1223455566666678


Q ss_pred             hCCChhHHHHHHHHHH---hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          205 GFKLRDLVVDCYELMK---TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~---~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ..|++++|...|+.-.   ..|..++  ||.-+.-+-.+.|+.+.|.+.++...+..|+.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~--t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~  172 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSD--TLENLGLCALKAGQFDQAEEYLKRALELDPQF  172 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcch--hhhhhHHHHhhcCCchhHHHHHHHHHHhCcCC
Confidence            8999999999999887   3455555  66666666778999999999999988887774

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

Probab=97.34  E-value=0.00074  Score=66.14  Aligned_cols=106  Identities=10%  Similarity=0.054  Sum_probs=85.8

Q ss_pred             HHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHH
Q 023910          140 ALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELM  219 (275)
Q Consensus       140 A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  219 (275)
                      ..++.+..++-.+ .||..+|.++++.-.-+|+++.|..++.+|+++ |+..+.+-|-.||-+   .++...+..+...|
T Consensus       188 vekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~-gfpir~HyFwpLl~g---~~~~q~~e~vlrgm  262 (1088)
T KOG4318|consen  188 VEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLLYEMKEK-GFPIRAHYFWPLLLG---INAAQVFEFVLRGM  262 (1088)
T ss_pred             HHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHc-CCCcccccchhhhhc---CccchHHHHHHHHH
Confidence            3444444444223 589999999999999999999999999999865 999999988888877   88888889999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 023910          220 KTVGCEPDRSSYRTVINGLEAMEEVAFSGII  250 (275)
Q Consensus       220 ~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l  250 (275)
                      .+.|+.||..||.--+..+...|....+.+.
T Consensus       263 qe~gv~p~seT~adyvip~l~N~~t~~~~e~  293 (1088)
T KOG4318|consen  263 QEKGVQPGSETQADYVIPQLSNGQTKYGEEG  293 (1088)
T ss_pred             HHhcCCCCcchhHHHHHhhhcchhhhhcccc
Confidence            9999999999999888888887765554443

>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=97.34  E-value=0.0041  Score=47.92  Aligned_cols=88  Identities=9%  Similarity=0.093  Sum_probs=68.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHh--------------HhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYL--------------KTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-  220 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M--------------~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-  220 (275)
                      |..++.++|-++++.|+++....+.+..              .......|+..+..+++.+|+.+|++..|+.+.+... 
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            3456777777777777777777766542              1112366899999999999999999999999999887 


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCC
Q 023910          221 TVGCEPDRSSYRTVINGLEAMEE  243 (275)
Q Consensus       221 ~~g~~pd~~ty~~li~~~~~~g~  243 (275)
                      .++++.+..+|..|++-....-+
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHhcC
Confidence            67888889999999987765544

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=97.28  E-value=0.0042  Score=59.12  Aligned_cols=160  Identities=10%  Similarity=0.015  Sum_probs=115.3

Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH-------------------hHHHHHHHHHhcCCHHHHHHHHHHhHHc
Q 023910           90 EAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF-------------------DMIAVLRELLRQNHCLLALKVFEDIRKE  150 (275)
Q Consensus        90 ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~-------------------~~~~li~~~~~~g~~~~A~~lf~~m~~~  150 (275)
                      ++..+|+.+++..-....+..+|.+.+=++-+.                   .+.++=++|.-.++.+.|++.|+.... 
T Consensus       371 ~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ-  449 (638)
T KOG1126|consen  371 QAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ-  449 (638)
T ss_pred             HHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc-
Confidence            667777777766544445566676665333221                   234778888889999999999998866 


Q ss_pred             CCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH---HHHHhCCChhHHHHHHHHHHhCCCCC
Q 023910          151 QWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL---KCLVGFKLRDLVVDCYELMKTVGCEP  226 (275)
Q Consensus       151 ~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI---~~~~~~g~~~~A~~l~~~M~~~g~~p  226 (275)
                        +.| ...+||-+=+-+.....+|.|+.-|..-     +..|...||++-   ..|.|.++++.|.-.|+.-.  .+.|
T Consensus       450 --ldp~faYayTLlGhE~~~~ee~d~a~~~fr~A-----l~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~--~INP  520 (638)
T KOG1126|consen  450 --LDPRFAYAYTLLGHESIATEEFDKAMKSFRKA-----LGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV--EINP  520 (638)
T ss_pred             --cCCccchhhhhcCChhhhhHHHHhHHHHHHhh-----hcCCchhhHHHHhhhhheeccchhhHHHHHHHhhh--cCCc
Confidence              456 6788888878888888889998888543     556777777754   44778899999988888755  3455


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          227 -DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       227 -d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                       |.+.-.++-..+-+.|+.|+|.+++++....-|
T Consensus       521 ~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~  554 (638)
T KOG1126|consen  521 SNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP  554 (638)
T ss_pred             cchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC
Confidence             445556666677788999999999998765543

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

Probab=97.28  E-value=0.014  Score=44.63  Aligned_cols=104  Identities=12%  Similarity=0.120  Sum_probs=83.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|+.++|.+.|+.....  ...+...|..+-..|.+.|++++|...|+.....  .+.+...|..+-..|.
T Consensus        21 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~   96 (135)
T TIGR02552        21 YALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL--DPDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCChHHHHHHHHHHH
Confidence            35556777889999999999999774  2447788889999999999999999999988643  4556788888888999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTV  234 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l  234 (275)
                      ..|+.++|...|+...+.  .|+...+.-+
T Consensus        97 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~  124 (135)
T TIGR02552        97 ALGEPESALKALDLAIEI--CGENPEYSEL  124 (135)
T ss_pred             HcCCHHHHHHHHHHHHHh--ccccchHHHH
Confidence            999999999999987753  3555554433

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

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

Probab=97.27  E-value=0.068  Score=49.57  Aligned_cols=123  Identities=10%  Similarity=-0.020  Sum_probs=101.1

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-HHHHHHHHHHHHhCCChhH
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-IQGFNALLKCLVGFKLRDL  211 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-~~tyn~lI~~~~~~g~~~~  211 (275)
                      ..|+.++|+..++.+.+.  .+-|+.-+....+-+.+.|+.++|.+.|+.+..   ..|+ ....-.+=.+|.+.|++.+
T Consensus       318 ~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         318 LAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcCChHH
Confidence            679999999999999885  344666666677899999999999999999974   4666 5666777889999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          212 VVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       212 A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |..+++.-... .+-|...|..|-.+|...|+..+|..-..+...+-|..
T Consensus       393 ai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~  441 (484)
T COG4783         393 AIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRL  441 (484)
T ss_pred             HHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCH
Confidence            99999987633 45567799999999999999998888888877665554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.24  E-value=0.025  Score=41.81  Aligned_cols=99  Identities=7%  Similarity=-0.005  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC-CCCcCHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTEN-SLEPEIQGFNALLK  201 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~-G~~pd~~tyn~lI~  201 (275)
                      +..+...+.+.|++++|.+.|+++.+..+-.| ....+..+...|.+.|++++|...|+...... +.......+..+-.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            45666778889999999999999987521111 13566778899999999999999999987532 11122456788888


Q ss_pred             HHHhCCChhHHHHHHHHHHhC
Q 023910          202 CLVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~  222 (275)
                      ++.+.|+.++|...+++..+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            899999999999999999865

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.

>PRK12370 invasion protein regulator; Provisional

Probab=97.22  E-value=0.016  Score=55.91  Aligned_cols=116  Identities=6%  Similarity=-0.172  Sum_probs=90.4

Q ss_pred             CCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVV  213 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~  213 (275)
                      +++++|...+++..+.   .| +...|..+-..+...|++++|+..|++....  -+-+...|..+-..|...|++++|.
T Consensus       318 ~~~~~A~~~~~~Al~l---dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi  392 (553)
T PRK12370        318 NAMIKAKEHAIKATEL---DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEAL  392 (553)
T ss_pred             hHHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            4588999999999773   34 6778888888889999999999999998743  2334567888888999999999999


Q ss_pred             HHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          214 DCYELMKTVGCEPDR-SSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       214 ~l~~~M~~~g~~pd~-~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      ..++...+.  .|+. ..+..+...+...|++++|.+.+++..+.
T Consensus       393 ~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~  435 (553)
T PRK12370        393 QTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQ  435 (553)
T ss_pred             HHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            999998754  3432 22333444577789999999999887654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.21  E-value=0.018  Score=45.22  Aligned_cols=101  Identities=8%  Similarity=-0.096  Sum_probs=83.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+...|++++|...|+.....  -..+...|..+-..+.+.|++++|+..|+....-  -+.+...+..+-.++.+
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l--~p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALML--DASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHH
Confidence            4455667899999999999999874  2447888999999999999999999999999742  45578999999999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYR  232 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~  232 (275)
                      .|+.++|...|+.-.+  +.|+...|.
T Consensus       105 ~g~~~eAi~~~~~Al~--~~p~~~~~~  129 (144)
T PRK15359        105 MGEPGLAREAFQTAIK--MSYADASWS  129 (144)
T ss_pred             cCCHHHHHHHHHHHHH--hCCCChHHH
Confidence            9999999999998764  446554444

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.18  E-value=0.028  Score=49.72  Aligned_cols=122  Identities=10%  Similarity=-0.045  Sum_probs=97.4

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLV  212 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A  212 (275)
                      ++.+.++.-+.++..+....|+  ...|..+-..|.+.|+.++|...|++..+.  -+-+...|+.+-..|...|++++|
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHHH
Confidence            4566777777777653233333  356777778899999999999999998743  344678999999999999999999


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          213 VDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       213 ~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ...|+...+  +.| +..+|..+-..+...|++++|.+.++...+..|+
T Consensus       118 ~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~  164 (296)
T PRK11189        118 YEAFDSVLE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN  164 (296)
T ss_pred             HHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            999999875  345 4567788888899999999999999999888775

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

Probab=97.09  E-value=0.0011  Score=46.91  Aligned_cols=20  Identities=15%  Similarity=0.185  Sum_probs=9.7

Q ss_pred             HHHHHHcCCCHHHHHHHHHH
Q 023910          163 MIQVFGTNGLFQHVEILYFY  182 (275)
Q Consensus       163 Li~~~~~~g~~~~A~~lf~~  182 (275)
                      +-.+|.+.|++++|..+++.
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            44444444444444444444

>TIGR00540 hemY_coli hemY protein

Probab=97.08  E-value=0.018  Score=53.35  Aligned_cols=130  Identities=15%  Similarity=0.034  Sum_probs=85.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHH-HHHHHH---
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFN-ALLKCL---  203 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn-~lI~~~---  203 (275)
                      ...+...|+++.|...++.+.+.  -+-+...+..+...|.+.|++++|.+++..+.+. +.. +...+. .-+.++   
T Consensus       160 a~l~l~~~~~~~Al~~l~~l~~~--~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~-~~~-~~~~~~~l~~~a~~~~  235 (409)
T TIGR00540       160 TRILLAQNELHAARHGVDKLLEM--APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKA-GLF-DDEEFADLEQKAEIGL  235 (409)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc-CCC-CHHHHHHHHHHHHHHH
Confidence            44555678888888888888774  1235567778888888888888888888888754 333 333332 111211   


Q ss_pred             HhCCChhHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          204 VGFKLRDLVVDCYELMKTVG---CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g---~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ...+..+++.+.+..+.+..   .+.+...+..+...+...|+.++|.+++++..+..|+-
T Consensus       236 l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~  296 (409)
T TIGR00540       236 LDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDD  296 (409)
T ss_pred             HHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCc
Confidence            22233333334444444321   11377788888899999999999999999999887764

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.06  E-value=0.053  Score=51.44  Aligned_cols=131  Identities=15%  Similarity=0.099  Sum_probs=96.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCC--CCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---C--CCCcC-H
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQW--YKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---N--SLEPE-I  193 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g--~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~--G~~pd-~  193 (275)
                      .+...++..+++++|..++....+..-  +.++    ..+|+.|=..|-+.|++++|+++|++....   .  +..+. .
T Consensus       330 ~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~  409 (508)
T KOG1840|consen  330 ELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVG  409 (508)
T ss_pred             HHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhh
Confidence            566677778888888888876655321  2222    468899999999999999999999976432   1  11232 4


Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHH----hCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMK----TVGC--EPDRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~----~~g~--~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      ..+|-|=.+|.+.+..++|..+|.+-.    ..|.  +-...+|..|...|-+.|++++|.++.+....
T Consensus       410 ~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  410 KPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            677888888999999999999887654    2232  22346889999999999999999999988764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.05  E-value=0.021  Score=49.65  Aligned_cols=113  Identities=9%  Similarity=-0.001  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH----HHHHHHHHHHHhCCChhHHHHHHHHHHhC-CC-CCCHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI----QGFNALLKCLVGFKLRDLVVDCYELMKTV-GC-EPDRSS  230 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~----~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-g~-~pd~~t  230 (275)
                      ...|+.-+..+.+.|++++|...|+.+.+.   -|+.    ..+--+-.+|...|++++|...|+.+.+. .- ......
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            566888777777789999999999999754   2443    35566778889999999999999999832 11 112223


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHHHHHHh
Q 023910          231 YRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIA  272 (275)
Q Consensus       231 y~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~~~~~~  272 (275)
                      +--+...+...|+.++|..++++.++.||+-....+..++..
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~yP~s~~a~~A~~rL~  261 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKKYPGTDGAKQAQKRLN  261 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHHHHHh
Confidence            444556677899999999999999999999877777766543

>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=97.02  E-value=0.0091  Score=45.98  Aligned_cols=75  Identities=7%  Similarity=-0.037  Sum_probs=64.4

Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHH---------------hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMK---------------TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~---------------~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      |..++.++|-++++.|+++....+++..=               .....|+..+..+++.+|+..|++..|.++++...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            56789999999999999999999987541               234569999999999999999999999999999999


Q ss_pred             HhCCccchHHH
Q 023910          257 YYGDLEFLEED  267 (275)
Q Consensus       257 ~~~~~~~~~e~  267 (275)
                      .|+ +..-+++
T Consensus        81 ~Y~-I~i~~~~   90 (126)
T PF12921_consen   81 KYP-IPIPKEF   90 (126)
T ss_pred             HcC-CCCCHHH
Confidence            999 7554443

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

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

Probab=97.00  E-value=0.016  Score=55.30  Aligned_cols=120  Identities=10%  Similarity=0.049  Sum_probs=91.5

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhH
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDL  211 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~  211 (275)
                      ..|.+|.|+..+++-.+.   .|+ ...||.|-+++-..|++.+|++.+++-..-  +.--...-|.|-+.|...|++++
T Consensus       298 eqG~ldlAI~~Ykral~~---~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~  372 (966)
T KOG4626|consen  298 EQGLLDLAIDTYKRALEL---QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEE  372 (966)
T ss_pred             ccccHHHHHHHHHHHHhc---CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchH
Confidence            347888888888887663   455 678999999999999999999999887632  33345678888888999999999


Q ss_pred             HHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          212 VVDCYELMKTVGCEPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       212 A~~l~~~M~~~g~~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      |.++|..-.+  +.|+ ...+|.|-..|-..|++++|...+++.++.-|
T Consensus       373 A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P  419 (966)
T KOG4626|consen  373 ATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKP  419 (966)
T ss_pred             HHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCc
Confidence            9998887653  3343 24567788888889999999999888776533

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

Probab=96.98  E-value=0.044  Score=49.50  Aligned_cols=125  Identities=17%  Similarity=0.160  Sum_probs=100.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      .+++.-+.++|+.++|.++..+-.++ +..|+..+    .-.+.+-++.+.-++..+.-.+..+-.|  -.+.+|=..|.
T Consensus       267 ~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~L~~----~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~  339 (400)
T COG3071         267 VAYAERLIRLGDHDEAQEIIEDALKR-QWDPRLCR----LIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLAL  339 (400)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHh-ccChhHHH----HHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHH
Confidence            37788888999999999999998885 56666222    2345556777777777776665545566  67888889999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      +.+.+.+|...|+.  .-...|+..+|+-+-+++.+.|+..+|.++.++....+
T Consensus       340 k~~~w~kA~~~lea--Al~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         340 KNKLWGKASEALEA--ALKLRPSASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             HhhHHHHHHHHHHH--HHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            99999999999994  55678999999999999999999999999999976444

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

Probab=96.96  E-value=0.17  Score=44.88  Aligned_cols=133  Identities=13%  Similarity=0.098  Sum_probs=91.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +|=+-|-+.|..|.|+++...+.++.++.-+  ...--.|-.-|...|.+|.|+.+|..+..+  -..-...--.|+..|
T Consensus        74 tLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de--~efa~~AlqqLl~IY  151 (389)
T COG2956          74 TLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDE--GEFAEGALQQLLNIY  151 (389)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcc--hhhhHHHHHHHHHHH
Confidence            5556677788899999988888775332222  233444566688888889999998888754  123345567788888


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRS----SYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~----ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      -+..+|++|+++-+++...|-.+..+    -|.-|-..+.-..+++.|.+++.+....-|+
T Consensus       152 Q~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~  212 (389)
T COG2956         152 QATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKK  212 (389)
T ss_pred             HHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc
Confidence            88888888888888777555444332    3444555555667788888888887766555

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

Probab=96.94  E-value=0.12  Score=48.80  Aligned_cols=133  Identities=10%  Similarity=0.046  Sum_probs=111.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      +...|+..-|..-+..|..+|.+.++. +..+ ++..++++|..||. ++..-|.++|+-=.+..|  -+..--+.-++-
T Consensus       369 ~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~--d~p~yv~~Yldf  444 (656)
T KOG1914|consen  369 YCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFG--DSPEYVLKYLDF  444 (656)
T ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcC--CChHHHHHHHHH
Confidence            447788888888999999999999995 6777 89999999999995 578999999986433322  233444667888


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDR--SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~--~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.+.++=..|..+|+.....++.||.  ..|..+|+-=..-|++..+.++-+.+...|+.
T Consensus       445 L~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~  504 (656)
T KOG1914|consen  445 LSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPA  504 (656)
T ss_pred             HHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcch
Confidence            88999999999999999988887765  58999999999999999999999999999883

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

Probab=96.91  E-value=0.036  Score=51.12  Aligned_cols=128  Identities=7%  Similarity=0.077  Sum_probs=87.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF  206 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~  206 (275)
                      +-+-|--..+...|++++.+..+-  +..|....+-|-+.|-+.|+-.+|.+.+-+-- ++ ++.|..|..=|-.-|...
T Consensus       564 ianiye~led~aqaie~~~q~~sl--ip~dp~ilskl~dlydqegdksqafq~~ydsy-ry-fp~nie~iewl~ayyidt  639 (840)
T KOG2003|consen  564 IANIYELLEDPAQAIELLMQANSL--IPNDPAILSKLADLYDQEGDKSQAFQCHYDSY-RY-FPCNIETIEWLAAYYIDT  639 (840)
T ss_pred             HHHHHHHhhCHHHHHHHHHHhccc--CCCCHHHHHHHHHHhhcccchhhhhhhhhhcc-cc-cCcchHHHHHHHHHHHhh
Confidence            334444445666666666555442  44456666777777777777777776655443 22 556666666566666666


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHHhCC
Q 023910          207 KLRDLVVDCYELMKTVGCEPDRSSYRTVINGLE-AMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       207 g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~-~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .-+++|..+|+.-  .=+.|+..-|..||..|. |.|++.+|.+++++....||+
T Consensus       640 qf~ekai~y~eka--aliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpe  692 (840)
T KOG2003|consen  640 QFSEKAINYFEKA--ALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPE  692 (840)
T ss_pred             HHHHHHHHHHHHH--HhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCcc
Confidence            6777777777753  457899999998887766 579999999999998888886

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

Probab=96.90  E-value=0.083  Score=54.69  Aligned_cols=127  Identities=6%  Similarity=-0.041  Sum_probs=96.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC---HHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE---IQGFNALL  200 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd---~~tyn~lI  200 (275)
                      +..|..-|.+.++.++|-++|+.|.+++|  -....|...+..+.+.++-+.|..++.+-.+   +-|-   +..-.--+
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~---~lPk~eHv~~IskfA 1607 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALK---SLPKQEHVEFISKFA 1607 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHh---hcchhhhHHHHHHHH
Confidence            44788888888999999999999988744  6777888999999999988889888887653   3444   22222223


Q ss_pred             HHHHhCCChhHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          201 KCLVGFKLRDLVVDCYELMKTV-GCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~-g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      ..=.+.|+.+.+..+|+..... --+  ...|+..|+.=.+.|..+.+..+|++.+++
T Consensus      1608 qLEFk~GDaeRGRtlfEgll~ayPKR--tDlW~VYid~eik~~~~~~vR~lfeRvi~l 1663 (1710)
T KOG1070|consen 1608 QLEFKYGDAERGRTLFEGLLSAYPKR--TDLWSVYIDMEIKHGDIKYVRDLFERVIEL 1663 (1710)
T ss_pred             HHHhhcCCchhhHHHHHHHHhhCccc--hhHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence            3334688999999999988743 222  348999999999999999999999986643

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

Probab=96.84  E-value=0.014  Score=51.31  Aligned_cols=96  Identities=7%  Similarity=0.035  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 023910          158 SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVING  237 (275)
Q Consensus       158 ~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  237 (275)
                      .+|..+++..-+.+..+.|..+|.+..+...+..++....++|-- ...++.+.|..+|+...+. +.-|..-+..-|+-
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEY-YCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHH-HTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            579999999999999999999999998654466777776666643 3357788899999998743 45566778899999


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 023910          238 LEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~  255 (275)
                      +.+.|+.+.|..+|+...
T Consensus        80 l~~~~d~~~aR~lfer~i   97 (280)
T PF05843_consen   80 LIKLNDINNARALFERAI   97 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHC
T ss_pred             HHHhCcHHHHHHHHHHHH
Confidence            999999999999999854

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.

>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=96.83  E-value=0.0085  Score=40.17  Aligned_cols=64  Identities=19%  Similarity=0.250  Sum_probs=42.8

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL  200 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI  200 (275)
                      .+.|++++|.++|+.....  .+-|...+-.|...|.+.|++++|..+++.+...   .||...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~---~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ---DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG---GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CcCHHHHHHHH
Confidence            3567778888888887664  2336666667778888888888888888777643   45655555544

...

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

Probab=96.82  E-value=0.086  Score=44.55  Aligned_cols=130  Identities=12%  Similarity=-0.055  Sum_probs=92.2

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR  209 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~  209 (275)
                      .+|..|++++|...|++-....-+.--..||..+--+-.+.|+.+.|.+.|+.-...  -+-+..+.-.+-....+.|+.
T Consensus       112 FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y  189 (250)
T COG3063         112 FLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDY  189 (250)
T ss_pred             HHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccc
Confidence            456777888888888877664333334566777777777778888888888776532  122335566677777778888


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          210 DLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       210 ~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      -.|..+++.....|. ++..+.-..|..--+.|+-+.|.++=..+.+.||...
T Consensus       190 ~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         190 APARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSE  241 (250)
T ss_pred             hHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcH
Confidence            888888777765555 7888888888888888888888888888888888753

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

Probab=96.80  E-value=0.29  Score=43.44  Aligned_cols=132  Identities=11%  Similarity=-0.028  Sum_probs=93.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH-
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL-  200 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI-  200 (275)
                      .|+.-|-...+|++|+++-.++.+- |-.+.    ..-|--|-..+....+++.|..++.+-...   .|+.+--+.++ 
T Consensus       146 qLl~IYQ~treW~KAId~A~~L~k~-~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa---~~~cvRAsi~lG  221 (389)
T COG2956         146 QLLNIYQATREWEKAIDVAERLVKL-GGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA---DKKCVRASIILG  221 (389)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHc-CCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh---Cccceehhhhhh
Confidence            6777888888888888888877773 22222    122333333444457778888888776532   34444333333 


Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          201 KCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +.+...|++..|.+.++...+.+..--..+...|..+|...|+.++....+.++.+.++..
T Consensus       222 ~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~  282 (389)
T COG2956         222 RVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGA  282 (389)
T ss_pred             HHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCc
Confidence            4567789999999999998877665556677889999999999999999999998888774

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=96.80  E-value=0.06  Score=49.67  Aligned_cols=89  Identities=7%  Similarity=-0.112  Sum_probs=67.1

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCCHHHHH--HHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQVSLYA--DMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR  209 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn--~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~  209 (275)
                      .+.|+.+.|.+.|.++.+.   .|+...+-  ..-..+...|++++|...++++.+.  -+-+......+...|.+.|++
T Consensus       129 ~~~g~~~~A~~~l~~A~~~---~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~--~P~~~~al~ll~~~~~~~gdw  203 (398)
T PRK10747        129 QQRGDEARANQHLERAAEL---ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEV--APRHPEVLRLAEQAYIRTGAW  203 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHHhH
Confidence            5788899999999988763   45543333  3356778889999999999888643  244567788888888999999


Q ss_pred             hHHHHHHHHHHhCCCC
Q 023910          210 DLVVDCYELMKTVGCE  225 (275)
Q Consensus       210 ~~A~~l~~~M~~~g~~  225 (275)
                      ++|.+++..+.+.+..
T Consensus       204 ~~a~~~l~~l~k~~~~  219 (398)
T PRK10747        204 SSLLDILPSMAKAHVG  219 (398)
T ss_pred             HHHHHHHHHHHHcCCC
Confidence            9999888888866554

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

Probab=96.79  E-value=0.0031  Score=44.55  Aligned_cols=81  Identities=10%  Similarity=0.070  Sum_probs=58.8

Q ss_pred             CCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHH
Q 023910          170 NGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDR-SSYRTVINGLEAMEEVAFSG  248 (275)
Q Consensus       170 ~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~-~ty~~li~~~~~~g~~~~A~  248 (275)
                      .|++++|+.+|+++.....-.|+...+-.+-.+|.+.|++++|..+++. .  .+.|+. ...-.+-.+|.+.|++++|.
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            5889999999999985421123455566689999999999999999988 3  222222 33335578899999999999


Q ss_pred             HHHHH
Q 023910          249 IIRQD  253 (275)
Q Consensus       249 ~l~~~  253 (275)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            99976

>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=96.76  E-value=0.011  Score=46.28  Aligned_cols=70  Identities=14%  Similarity=0.194  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-----hCCCCCCHHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-----TVGCEPDRSS  230 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-----~~g~~pd~~t  230 (275)
                      +...++..+...|++++|+.+...+...  -+.|...|-.+|.+|.+.|+..+|.++|+.+.     +-|+.|+..|
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~--dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALAL--DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3444555555566666666666666532  34455666666666666666666666666554     3466666554

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

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

Probab=96.71  E-value=0.011  Score=51.32  Aligned_cols=88  Identities=16%  Similarity=0.247  Sum_probs=61.0

Q ss_pred             CHHHHHHHHHHHHcC-----CCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh----------------hHHHH
Q 023910          156 QVSLYADMIQVFGTN-----GLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR----------------DLVVD  214 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~-----g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~----------------~~A~~  214 (275)
                      |-.+|-+.+.-+...     ++++-....++.|+ ++|+.-|..+|+.||+.+=+..-+                +=+..
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~-eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMK-EYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHH-HhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            445555555444333     44555555566665 357777777777777766554321                34778


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 023910          215 CYELMKTVGCEPDRSSYRTVINGLEAMEEV  244 (275)
Q Consensus       215 l~~~M~~~g~~pd~~ty~~li~~~~~~g~~  244 (275)
                      ++++|...|+.||..+-..||+++.+.+-.
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            999999999999999999999999888764

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

Probab=96.67  E-value=0.054  Score=49.28  Aligned_cols=103  Identities=14%  Similarity=0.057  Sum_probs=77.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK  207 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g  207 (275)
                      -..+...|+++.|+++|++..+.  -.-+...|..+-.+|.+.|++++|+..++.....  -..+...|..+-.+|.+.|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            45566788999999999998874  2345777888888889999999999999888642  2336677888888888999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          208 LRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       208 ~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ++++|...|+...+  +.|+......++.
T Consensus        85 ~~~eA~~~~~~al~--l~P~~~~~~~~l~  111 (356)
T PLN03088         85 EYQTAKAALEKGAS--LAPGDSRFTKLIK  111 (356)
T ss_pred             CHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            99999999988774  3455555554443

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

Probab=96.65  E-value=0.064  Score=48.81  Aligned_cols=93  Identities=8%  Similarity=-0.121  Sum_probs=71.6

Q ss_pred             HHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 023910          165 QVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEV  244 (275)
Q Consensus       165 ~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~  244 (275)
                      ..+...|++++|+++|++....  -.-+...|..+-.+|.+.|++++|...++...+.. ..+...|..+-.+|...|++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            3455778899999998888643  34456777788888888899999999888887532 22556777778888888999


Q ss_pred             HHHHHHHHHHHHHhCC
Q 023910          245 AFSGIIRQDAFKYYGD  260 (275)
Q Consensus       245 ~~A~~l~~~m~~~~~~  260 (275)
                      ++|...++..++..|.
T Consensus        87 ~eA~~~~~~al~l~P~  102 (356)
T PLN03088         87 QTAKAALEKGASLAPG  102 (356)
T ss_pred             HHHHHHHHHHHHhCCC
Confidence            9999999888888776

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.63  E-value=0.33  Score=46.15  Aligned_cols=131  Identities=10%  Similarity=0.047  Sum_probs=91.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHc--CCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCCC-CcCHH-
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKE--QWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKT----ENSL-EPEIQ-  194 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~--~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G~-~pd~~-  194 (275)
                      +-..|...+++++|..+|+++...  ..+.++    ..+++.|=..|++.|++++|...+++-.+    ..|. .|.+. 
T Consensus       247 ~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~  326 (508)
T KOG1840|consen  247 LALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAA  326 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHH
Confidence            444666788999999999888551  112233    45666677789999999888776665321    1222 23333 


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHH---hCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMK---TVGCEPD----RSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~---~~g~~pd----~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      -++.+...|+..+++++|..++..-.   ..-..++    ..+|+.|-..|...|++++|++++++.+..
T Consensus       327 ~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~  396 (508)
T KOG1840|consen  327 QLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQI  396 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            45667777888999999999887654   2222333    358899999999999999999999997754

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

Probab=96.54  E-value=0.26  Score=42.31  Aligned_cols=123  Identities=11%  Similarity=-0.079  Sum_probs=97.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      ..+....+.|++..|...|.+...-  -.+|..+||.+=-+|-+.|+.++|..-|.+-.+-  ..-+...+|.|--.|.-
T Consensus       105 ~~gk~~~~~g~~~~A~~~~rkA~~l--~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L  180 (257)
T COG5010         105 AQGKNQIRNGNFGEAVSVLRKAARL--APTDWEAWNLLGAALDQLGRFDEARRAYRQALEL--APNEPSIANNLGMSLLL  180 (257)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHhcc--CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHH
Confidence            3566677789999999999999773  5778999999999999999999999988887642  22345678888888899


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      .|+.++|..++..-...+-. |...-..|.-.....|++++|+++...
T Consensus       181 ~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         181 RGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             cCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhccc
Confidence            99999999999988765543 444445666667789999999877654

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

Probab=96.53  E-value=0.1  Score=46.77  Aligned_cols=124  Identities=8%  Similarity=-0.088  Sum_probs=90.2

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCCCH-HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHH
Q 023910          134 QNHCLLALKVFEDIRKEQWYKPQV-SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLV  212 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p~~-~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A  212 (275)
                      .+..+.+.+.++..   .+..|+. .....+-..+...|++++|+..+++....  -+.+...+..+-..|...|++++|
T Consensus        93 ~~~~~~~~~~l~~~---~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA  167 (355)
T cd05804          93 SGMRDHVARVLPLW---APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEG  167 (355)
T ss_pred             ccCchhHHHHHhcc---CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHH
Confidence            45566666666552   1234443 44455667888999999999999998753  344567788888899999999999


Q ss_pred             HHHHHHHHhCC-CCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          213 VDCYELMKTVG-CEPDR--SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       213 ~~l~~~M~~~g-~~pd~--~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      ..++++..+.. ..|+.  ..|..+...+...|++++|.+++++.....+...
T Consensus       168 ~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~  220 (355)
T cd05804         168 IAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESD  220 (355)
T ss_pred             HHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCC
Confidence            99999877432 23443  3466788899999999999999999865555333

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.

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

Probab=96.49  E-value=0.31  Score=45.26  Aligned_cols=160  Identities=9%  Similarity=-0.020  Sum_probs=91.1

Q ss_pred             cHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH-------------------hHHHHHHHHHhcCCHHHHHHHHHHhH
Q 023910           88 SIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF-------------------DMIAVLRELLRQNHCLLALKVFEDIR  148 (275)
Q Consensus        88 ~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~-------------------~~~~li~~~~~~g~~~~A~~lf~~m~  148 (275)
                      -+.|+.+|+++.+...-.-.+..+|..++--....                   .+..+-+-|.-.++.+.|...|+...
T Consensus       278 fD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRAL  357 (559)
T KOG1155|consen  278 FDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRAL  357 (559)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHH
Confidence            34778888888776332222445555443211110                   11133444555678999999999987


Q ss_pred             HcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-
Q 023910          149 KEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-  226 (275)
Q Consensus       149 ~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-  226 (275)
                      +   +.| ....||-|-+-|...++...|++-+..-.+-  .+-|-..|-.|=.+|.-.+.+.=|+-.|++-.  .++| 
T Consensus       358 k---LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi--~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~--~~kPn  430 (559)
T KOG1155|consen  358 K---LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI--NPRDYRAWYGLGQAYEIMKMHFYALYYFQKAL--ELKPN  430 (559)
T ss_pred             h---cCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc--CchhHHHHhhhhHHHHHhcchHHHHHHHHHHH--hcCCC
Confidence            7   244 4577888878888888888888877765421  34444555555555555555555555555432  2333 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          227 DRSSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       227 d~~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      |...|.+|-++|.+.+++++|++.+...
T Consensus       431 DsRlw~aLG~CY~kl~~~~eAiKCykra  458 (559)
T KOG1155|consen  431 DSRLWVALGECYEKLNRLEEAIKCYKRA  458 (559)
T ss_pred             chHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            4445555555555555555555555443

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

Probab=96.48  E-value=0.11  Score=53.76  Aligned_cols=143  Identities=14%  Similarity=0.077  Sum_probs=105.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKP---QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL  200 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p---~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI  200 (275)
                      +...|.-....++.+.|++++++..+..++.-   -...|.++++.-.-.|.-+...++|++.-+ + +.| -..|..|.
T Consensus      1461 WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq-y-cd~-~~V~~~L~ 1537 (1710)
T KOG1070|consen 1461 WIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ-Y-CDA-YTVHLKLL 1537 (1710)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH-h-cch-HHHHHHHH
Confidence            34667777778889999999998877522221   146788888888777877888888888753 2 333 35588888


Q ss_pred             HHHHhCCChhHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc---cchHHHHHHH
Q 023910          201 KCLVGFKLRDLVVDCYELMKT-VGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL---EFLEEDEEDI  271 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~-~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~---~~~~e~~~~~  271 (275)
                      .-|-+.++.++|.++++.|.+ -|  -....|...++.+.+..+-+.|.+++.+.++..|+-   ++|.......
T Consensus      1538 ~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1538 GIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            889999999999999999973 34  345578888888888888889999999888888883   4555554433

>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=96.47  E-value=0.013  Score=39.29  Aligned_cols=64  Identities=14%  Similarity=0.134  Sum_probs=43.0

Q ss_pred             HcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 023910          168 GTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVI  235 (275)
Q Consensus       168 ~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li  235 (275)
                      .+.|++++|+++|++....  .+-|...+-.+..+|.+.|++++|..+++.+...  .||...|..++
T Consensus         2 l~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~   65 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL   65 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence            3567788888888887643  3336677777888888888888888888877643  35545554443

...

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

Probab=96.46  E-value=0.1  Score=46.81  Aligned_cols=91  Identities=8%  Similarity=-0.049  Sum_probs=72.6

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH--HHHHHHHHHHHhC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI--QGFNALLKCLVGF  206 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~--~tyn~lI~~~~~~  206 (275)
                      ..+...|++++|.+.+++..+.  -..+...+..+-..|...|++++|+.++++........|+.  ..|..+-..+...
T Consensus       122 ~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~  199 (355)
T cd05804         122 FGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLER  199 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHC
Confidence            4667789999999999999884  24456778888899999999999999999876431112343  3566788889999


Q ss_pred             CChhHHHHHHHHHHh
Q 023910          207 KLRDLVVDCYELMKT  221 (275)
Q Consensus       207 g~~~~A~~l~~~M~~  221 (275)
                      |+.++|..++++...
T Consensus       200 G~~~~A~~~~~~~~~  214 (355)
T cd05804         200 GDYEAALAIYDTHIA  214 (355)
T ss_pred             CCHHHHHHHHHHHhc
Confidence            999999999999863

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.41  E-value=0.13  Score=41.26  Aligned_cols=103  Identities=6%  Similarity=-0.110  Sum_probs=64.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTV  234 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l  234 (275)
                      ....|..+...+...|++++|+..|++......-.+ ...+|..+-..|.+.|+.++|...++...+.. +....++..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            355667777777777888888888877753211111 23467777777888888888888887766431 2223445555


Q ss_pred             HHHHH-------hcCCHHHHHHHHHHHHHHhC
Q 023910          235 INGLE-------AMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       235 i~~~~-------~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ...+.       +.|+++.|...+++....|.
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  144 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQAAEYWK  144 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHHHHHHH
Confidence            55555       77787766666665544433

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

Probab=96.40  E-value=0.13  Score=51.95  Aligned_cols=144  Identities=9%  Similarity=0.034  Sum_probs=101.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH----------
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI----------  193 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~----------  193 (275)
                      ...|++.+...+++++|.++.+.-.+...-.+...-|..+  .|.+.++.+++..+  .+...  +..+.          
T Consensus        34 ~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~--l~~q~~~~~~~~lv--~~l~~--~~~~~~~~~ve~~~~  107 (906)
T PRK14720         34 LDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGI--LSLSRRPLNDSNLL--NLIDS--FSQNLKWAIVEHICD  107 (906)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHH--HHHhhcchhhhhhh--hhhhh--cccccchhHHHHHHH
Confidence            3478899989999999999999776642222223333333  56666777776665  33321  22232          


Q ss_pred             ---------HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccch
Q 023910          194 ---------QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFL  264 (275)
Q Consensus       194 ---------~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~  264 (275)
                               ..+-++-.+|-+.|+.++|..+++++.+.. .-|....|-+-..|... ++++|.++.......|-+-+-.
T Consensus       108 ~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i~~kq~  185 (906)
T PRK14720        108 KILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFIKKKQY  185 (906)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHhhhcc
Confidence                     566667777888899999999999999776 44777888888899988 9999999999988776655555


Q ss_pred             HHHHHHHhhhC
Q 023910          265 EEDEEDIAAYC  275 (275)
Q Consensus       265 ~e~~~~~~~~~  275 (275)
                      .++++.-.+||
T Consensus       186 ~~~~e~W~k~~  196 (906)
T PRK14720        186 VGIEEIWSKLV  196 (906)
T ss_pred             hHHHHHHHHHH
Confidence            55555444444

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

Probab=96.39  E-value=0.12  Score=49.51  Aligned_cols=122  Identities=15%  Similarity=0.163  Sum_probs=60.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-HHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-IQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-~~tyn~lI~~~~  204 (275)
                      .+-+++-..|++.+|...+++...-  +.....+-|.|-+.|...|.+++|..+|..-. +  +.|. ...+|.|-..|-
T Consensus       325 NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~A~~ly~~al-~--v~p~~aaa~nNLa~i~k  399 (966)
T KOG4626|consen  325 NLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEEATRLYLKAL-E--VFPEFAAAHNNLASIYK  399 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchHHHHHHHHHH-h--hChhhhhhhhhHHHHHH
Confidence            4445555556666666666555442  12224445555555555555555555555543 1  2333 244555555555


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDR-SSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~-~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      +.|++++|+..+++-.  .|+|+. ..|+.+-..|-..|+.+.|.+.+.+.
T Consensus       400 qqgnl~~Ai~~Ykeal--rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rA  448 (966)
T KOG4626|consen  400 QQGNLDDAIMCYKEAL--RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRA  448 (966)
T ss_pred             hcccHHHHHHHHHHHH--hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHH
Confidence            5555555555555433  234432 23444444444444444444444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.39  E-value=0.24  Score=39.84  Aligned_cols=80  Identities=13%  Similarity=0.009  Sum_probs=56.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      .+-..+...|++++|...|++..+. ...+.  ...|..+-..|.+.|++++|...+++....  .+-+...+..+-..|
T Consensus        40 ~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~  116 (172)
T PRK02603         40 RDGMSAQADGEYAEALENYEEALKL-EEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH-hhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            4455666789999999999988763 22221  467888888899999999999999887642  223455666666677


Q ss_pred             HhCCC
Q 023910          204 VGFKL  208 (275)
Q Consensus       204 ~~~g~  208 (275)
                      ...|+
T Consensus       117 ~~~g~  121 (172)
T PRK02603        117 HKRGE  121 (172)
T ss_pred             HHcCC
Confidence            77666

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

Probab=96.39  E-value=0.025  Score=37.53  Aligned_cols=59  Identities=10%  Similarity=-0.028  Sum_probs=32.2

Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          201 KCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..+.+.|++++|..+|++..+.. +-+...+..+-..+.+.|++++|..+++++.+..|.
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            34555666666666666665443 114444455555566666666666666666555553

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.36  E-value=0.12  Score=41.35  Aligned_cols=91  Identities=10%  Similarity=0.008  Sum_probs=66.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKP--QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p--~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      .+...+...|++++|...|+..... .-.|  ...+|..+-..|.+.|++++|+..++.....  .+.+..+++.+-..|
T Consensus        40 ~~g~~~~~~g~~~~A~~~~~~al~l-~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~la~i~  116 (168)
T CHL00033         40 RDGMSAQSEGEYAEALQNYYEAMRL-EIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNMAVIC  116 (168)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc-cccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHH
Confidence            3444555679999999999999763 1122  2358888999999999999999999988642  233456677777777


Q ss_pred             H-------hCCChhHHHHHHHHH
Q 023910          204 V-------GFKLRDLVVDCYELM  219 (275)
Q Consensus       204 ~-------~~g~~~~A~~l~~~M  219 (275)
                      .       +.|++++|...+++-
T Consensus       117 ~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        117 HYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHhhHHHHHcccHHHHHHHHHHH
Confidence            7       778888776666544

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

Probab=96.36  E-value=0.16  Score=42.13  Aligned_cols=106  Identities=12%  Similarity=0.041  Sum_probs=81.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHH-HHcCCC--HHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQV-FGTNGL--FQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~-~~~~g~--~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      .+-..|...|++++|...|+...+.  -.-|...+..+-.+ |.+.|+  .++|.+++++..+.  -.-|...+..+-..
T Consensus        78 ~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~--dP~~~~al~~LA~~  153 (198)
T PRK10370         78 LLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALAL--DANEVTALMLLASD  153 (198)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh--CCCChhHHHHHHHH
Confidence            4455677899999999999999883  23367777777776 467777  59999999999753  34477888899999


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVING  237 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  237 (275)
                      +.+.|++++|...|+.+.+. ..|+..-+..+ .+
T Consensus       154 ~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~~~i-~~  186 (198)
T PRK10370        154 AFMQADYAQAIELWQKVLDL-NSPRVNRTQLV-ES  186 (198)
T ss_pred             HHHcCCHHHHHHHHHHHHhh-CCCCccHHHHH-HH
Confidence            99999999999999999854 34555454433 54

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

Probab=96.36  E-value=0.032  Score=55.54  Aligned_cols=121  Identities=11%  Similarity=0.054  Sum_probs=62.9

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVD  214 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~  214 (275)
                      +..+.|+++|.+..+.  ..-|...-|-+--.++.+|++++|..+|.+....  ..-+.-+|-.+-++|...|.+..|++
T Consensus       626 k~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIq  701 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQ  701 (1018)
T ss_pred             HHHHHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHH
Confidence            4455556665555552  2335555555555555556666666666555432  22233345555555555666666666


Q ss_pred             HHHHHH-hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          215 CYELMK-TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       215 l~~~M~-~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      .|+.-. ..+-+-+....+.|-.++.++|.+.+|.+..-......|
T Consensus       702 mYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  702 MYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             HHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            555433 223333444555555555555555555555555444444

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

Probab=96.32  E-value=0.47  Score=44.20  Aligned_cols=110  Identities=13%  Similarity=0.003  Sum_probs=88.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ...+-+.+.++.++|.+.|+.+...   .|+ ...+-.+-++|.+.|++.+|+.+++.-..+  .+-|...|..|-.+|.
T Consensus       345 ~~~~i~~~~nk~~~A~e~~~kal~l---~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~--~p~dp~~w~~LAqay~  419 (484)
T COG4783         345 LAGDILLEANKAKEAIERLKKALAL---DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN--DPEDPNGWDLLAQAYA  419 (484)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhc---CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCCCchHHHHHHHHHH
Confidence            4566778899999999999999884   566 666777789999999999999999998753  6788999999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      ..|+..+|..-..++                  |...|++++|........+.+
T Consensus       420 ~~g~~~~a~~A~AE~------------------~~~~G~~~~A~~~l~~A~~~~  455 (484)
T COG4783         420 ELGNRAEALLARAEG------------------YALAGRLEQAIIFLMRASQQV  455 (484)
T ss_pred             HhCchHHHHHHHHHH------------------HHhCCCHHHHHHHHHHHHHhc
Confidence            999999888766554                  455677777776666655443

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

Probab=96.31  E-value=0.14  Score=49.04  Aligned_cols=130  Identities=9%  Similarity=-0.059  Sum_probs=103.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      -+--.|.|.++++.|.-.|+...+   +.| |.+.-..+...+-+.|+.++|+++|++--.-  -.-|..+=--....+.
T Consensus       494 GlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~l--d~kn~l~~~~~~~il~  568 (638)
T KOG1126|consen  494 GLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHL--DPKNPLCKYHRASILF  568 (638)
T ss_pred             hhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhc--CCCCchhHHHHHHHHH
Confidence            455667889999999999999877   344 6777788888899999999999999986531  1224444445566677


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      -.++.++|+..++++++. +.-+...|-.+-..|.+.|+.+.|..-|.-+.++-|+-
T Consensus       569 ~~~~~~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  569 SLGRYVEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             hhcchHHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            789999999999999863 33355677888899999999999999999999998884

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

Probab=96.27  E-value=0.12  Score=51.10  Aligned_cols=135  Identities=9%  Similarity=0.041  Sum_probs=108.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+.++|...|++.+|+++|....... ..-+...|--+-.+|-..|..++|.+.|+.....  -+-+.-.=-+|=..|-
T Consensus       418 ~d~a~al~~~~~~~~Al~~l~~i~~~~-~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~  494 (895)
T KOG2076|consen  418 LDLADALTNIGKYKEALRLLSPITNRE-GYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQ  494 (895)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHhcCc-cccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHH
Confidence            478889999999999999999998853 4446889999999999999999999999998743  2233334445555677


Q ss_pred             hCCChhHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          205 GFKLRDLVVDCYELMK--------TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~--------~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      +.|+.++|.+.++.|.        ..+..|+...--...+.|...|+.++-.+.-..|...+-+.+
T Consensus       495 ~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~  560 (895)
T KOG2076|consen  495 QLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKR  560 (895)
T ss_pred             hcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999965        345678888778888889999999998888888777665544

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

Probab=96.26  E-value=0.064  Score=53.52  Aligned_cols=130  Identities=13%  Similarity=0.046  Sum_probs=79.0

Q ss_pred             HHHH-HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC------------CCHHHHHHHHHHhHhcCCCCcC
Q 023910          126 AVLR-ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN------------GLFQHVEILYFYLKTENSLEPE  192 (275)
Q Consensus       126 ~li~-~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~------------g~~~~A~~lf~~M~~~~G~~pd  192 (275)
                      +++. .+.+...+..|.+=|....++..-.+|..+--+|=+.|.+.            +..++|+++|.+..+.  -+-|
T Consensus       568 sl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN  645 (1018)
T KOG2002|consen  568 SLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKN  645 (1018)
T ss_pred             HHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc--Ccch
Confidence            3443 44455556666665555544333345555555555544322            3456777777776532  4556


Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          193 IQGFNALLKCLVGFKLRDLVVDCYELMKTVGC-EPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       193 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~-~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ...=|.+=-.++..|++++|..+|.+..+... -+|  +|--+-+.|...|++..|.++|+...+.|.
T Consensus       646 ~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~d--v~lNlah~~~e~~qy~~AIqmYe~~lkkf~  711 (1018)
T KOG2002|consen  646 MYAANGIGIVLAEKGRFSEARDIFSQVREATSDFED--VWLNLAHCYVEQGQYRLAIQMYENCLKKFY  711 (1018)
T ss_pred             hhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCc--eeeeHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            67777777777777777777777777775544 333  566677777777777777777777655544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.26  E-value=0.22  Score=40.06  Aligned_cols=85  Identities=11%  Similarity=0.017  Sum_probs=65.1

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC--HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE--IQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYR  232 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd--~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~  232 (275)
                      ....|..+-..|...|++++|...|++..+. .-.++  ...|..+-..|.+.|++++|...+++..+.  .| +...+.
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~  110 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKL-EEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALN  110 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHH
Confidence            3567788888899999999999999988643 12222  468889999999999999999999988753  34 445566


Q ss_pred             HHHHHHHhcCC
Q 023910          233 TVINGLEAMEE  243 (275)
Q Consensus       233 ~li~~~~~~g~  243 (275)
                      .+...+...|+
T Consensus       111 ~lg~~~~~~g~  121 (172)
T PRK02603        111 NIAVIYHKRGE  121 (172)
T ss_pred             HHHHHHHHcCC
Confidence            66667777666

>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=96.23  E-value=0.065  Score=41.83  Aligned_cols=71  Identities=14%  Similarity=0.141  Sum_probs=53.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCCCCcCHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT----ENSLEPEIQGF  196 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G~~pd~~ty  196 (275)
                      +..++..+...|+++.|..+.+.+...  -+-|...|-.+|.+|...|+..+|.+.|+.+..    +.|+.|+..|-
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~--dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALAL--DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            346677778899999999999999885  355889999999999999999999999998753    46899987653

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

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.03  E-value=0.032  Score=38.53  Aligned_cols=65  Identities=17%  Similarity=0.212  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHh----CCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKT----VGC-EPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~----~g~-~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      .+|+.+-..|.+.|++++|...|++..+    .|- .|+ ..+++.+-..+...|++++|.+++++..+.+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~   76 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDIF   76 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            4556666666666666666666665542    221 122 4566677777777777777777777766544

...

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.02  E-value=0.12  Score=50.41  Aligned_cols=111  Identities=14%  Similarity=0.172  Sum_probs=79.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      ..|.+-.+...|..|+.+++.+..+   +.-..-|.-+-+-|+..|+++.|+++|-+-.          .|+--|..|.+
T Consensus       737 kaieaai~akew~kai~ildniqdq---k~~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k  803 (1636)
T KOG3616|consen  737 KAIEAAIGAKEWKKAISILDNIQDQ---KTASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGK  803 (1636)
T ss_pred             HHHHHHhhhhhhhhhHhHHHHhhhh---ccccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhc
Confidence            4566667788999999999998775   2233446677789999999999999996642          26778999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIR  251 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~  251 (275)
                      +|+|++|.++-++.  .|-......|-+-..-+-+.|++.+|++++
T Consensus       804 ~~kw~da~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  804 AGKWEDAFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             cccHHHHHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            99999999986654  333444455555555555556555555443

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

Probab=95.97  E-value=0.45  Score=44.44  Aligned_cols=146  Identities=13%  Similarity=0.096  Sum_probs=88.2

Q ss_pred             hHHHHHHHHhhhcHHhHH--HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh
Q 023910          108 LDHVFNSKFRRLLKFDMI--AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT  185 (275)
Q Consensus       108 ~~~~~~~~~~~l~~~~~~--~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~  185 (275)
                      ...+++..++-|-+-|-+  ..+-+=-..|.+..|.++|+...+   ..|+...|++.|+.=.+-+..+.|..+++... 
T Consensus       126 ARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~---w~P~eqaW~sfI~fElRykeieraR~IYerfV-  201 (677)
T KOG1915|consen  126 ARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWME---WEPDEQAWLSFIKFELRYKEIERARSIYERFV-  201 (677)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHh-
Confidence            344555555444433322  222222234778888888887755   57888888888888888888888888888875 


Q ss_pred             cCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          186 ENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTV-G-CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       186 ~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-g-~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      -  +.|++.+|---..-=-++|.+.-|..+|+.-.+. | -.-+...|++...-=.+...++.|.-+++-.++..|
T Consensus       202 ~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~p  275 (677)
T KOG1915|consen  202 L--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIP  275 (677)
T ss_pred             e--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            2  6688888877777777788888888777765532 1 111222333333333344455555555555444333

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

Probab=95.96  E-value=0.12  Score=48.85  Aligned_cols=138  Identities=14%  Similarity=0.013  Sum_probs=101.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc-CCCC----cCHHHHHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE-NSLE----PEIQGFNALLK  201 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~-~G~~----pd~~tyn~lI~  201 (275)
                      +--.|.+.+..+.|.+.|.+....  .+-|....|-+--.....+.+.+|...|+.-... +.+.    .-..+++.|=+
T Consensus       386 lgmey~~t~n~kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH  463 (611)
T KOG1173|consen  386 LGMEYMRTNNLKLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGH  463 (611)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHH
Confidence            344566778899999999888663  3446677777766666778899999988875510 0111    23456888888


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHH
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEED  267 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~  267 (275)
                      +|-+.++.++|+..|+.-... ..-|..||.++--.|...|+++.|.+.|.+...+-|.-.++.++
T Consensus       464 ~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~l  528 (611)
T KOG1173|consen  464 AYRKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISEL  528 (611)
T ss_pred             HHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHH
Confidence            888999999999999877633 23367788888888888999999999999988777765555554

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

Probab=95.91  E-value=0.6  Score=36.42  Aligned_cols=89  Identities=10%  Similarity=0.010  Sum_probs=68.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      .+-..+...|++++|...|++.... .-.|+  ....-.|-..+...|++++|+..++.....   ......+...=+.|
T Consensus        53 ~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~---~~~~~~~~~~Gdi~  128 (145)
T PF09976_consen   53 QLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLARILLQQGQYDEALATLQQIPDE---AFKALAAELLGDIY  128 (145)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCc---chHHHHHHHHHHHH
Confidence            4567788899999999999999885 32232  234445678888999999999999876432   33445667778889


Q ss_pred             HhCCChhHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYEL  218 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~  218 (275)
                      .+.|+.++|...|+.
T Consensus       129 ~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  129 LAQGDYDEARAAYQK  143 (145)
T ss_pred             HHCCCHHHHHHHHHH
Confidence            999999999999875

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

Probab=95.91  E-value=0.069  Score=46.54  Aligned_cols=73  Identities=8%  Similarity=0.187  Sum_probs=59.0

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCH----------------HHHHHHHHHhHhcCCCCcCHHHHHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLF----------------QHVEILYFYLKTENSLEPEIQGFNA  198 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~----------------~~A~~lf~~M~~~~G~~pd~~tyn~  198 (275)
                      +.++--.-.+..|++ +|+.-|..+|+.||+.+-+..-.                +=+++++++|+.. |+.||-.+--.
T Consensus        86 ~HveFIy~ALk~m~e-yGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~h-GVmPdkE~e~~  163 (406)
T KOG3941|consen   86 THVEFIYTALKYMKE-YGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWH-GVMPDKEIEDI  163 (406)
T ss_pred             chHHHHHHHHHHHHH-hcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHc-CCCCchHHHHH
Confidence            334444455677877 79999999999999998876432                4478899999875 99999999999


Q ss_pred             HHHHHHhCCCh
Q 023910          199 LLKCLVGFKLR  209 (275)
Q Consensus       199 lI~~~~~~g~~  209 (275)
                      ||+++++.|-.
T Consensus       164 lvn~FGr~~~p  174 (406)
T KOG3941|consen  164 LVNAFGRWNFP  174 (406)
T ss_pred             HHHHhcccccc
Confidence            99999998853

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=95.88  E-value=0.44  Score=47.26  Aligned_cols=127  Identities=9%  Similarity=-0.032  Sum_probs=97.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-HHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-IQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-~~tyn~lI~~~~  204 (275)
                      .++....+.....+++.-.....++  +..++-.+--|-....+.|..++|+.+++....   +.|| ......+...+.
T Consensus        57 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~  131 (694)
T PRK15179         57 QVLERHAAVHKPAAALPELLDYVRR--YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVK  131 (694)
T ss_pred             HHHHHhhhhcchHhhHHHHHHHHHh--ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHH
Confidence            3444444555555555544555453  667788898899999999999999999999974   4555 567788899999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      +.+++++|...++...+.  .|| ......+-.++.+.|++++|.++|++.....|
T Consensus       132 ~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p  185 (694)
T PRK15179        132 RQQGIEAGRAEIELYFSG--GSSSAREILLEAKSWDEIGQSEQADACFERLSRQHP  185 (694)
T ss_pred             HhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCC
Confidence            999999999999998753  454 44556777788899999999999999886544

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

Probab=95.78  E-value=0.31  Score=43.47  Aligned_cols=124  Identities=8%  Similarity=-0.004  Sum_probs=60.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH------------------------
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFY------------------------  182 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~------------------------  182 (275)
                      +-.+|.+.|.+.+|.+.|+.-.++   .|-+-||--|-+.|.+-.++..|+.+|.+                        
T Consensus       229 ~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHh
Confidence            334455555555555555554442   33444444455555555555555555544                        


Q ss_pred             ----------hHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023910          183 ----------LKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQ  252 (275)
Q Consensus       183 ----------M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~  252 (275)
                                ..+.  ..-|+....++-.+|.-.++++-|++++..+.+.|+.. ...|+.+--+|.-++++|.+..-|+
T Consensus       306 ~~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~s-peLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  306 QEDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQS-PELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HHHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCC-hHHHhhHHHHHHhhcchhhhHHHHH
Confidence                      3321  22333333334444445555566666666665555542 2234444444555566666666555


Q ss_pred             HHHH
Q 023910          253 DAFK  256 (275)
Q Consensus       253 ~m~~  256 (275)
                      ....
T Consensus       383 RAls  386 (478)
T KOG1129|consen  383 RALS  386 (478)
T ss_pred             HHHh
Confidence            5443

>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=95.73  E-value=0.53  Score=44.99  Aligned_cols=128  Identities=10%  Similarity=0.013  Sum_probs=99.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF  206 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~  206 (275)
                      -..|...|+.++|++..++-.+.   .|+ +-.|..--+.|-..|++++|.+.+++-+.-  =.-|...=+-....+.|+
T Consensus       201 Aqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~L--D~~DRyiNsK~aKy~LRa  275 (517)
T PF12569_consen  201 AQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLKEAAEAMDEAREL--DLADRYINSKCAKYLLRA  275 (517)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhC--ChhhHHHHHHHHHHHHHC
Confidence            34466789999999999988773   566 667777788899999999999999887642  244778888888899999


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHH--------HHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          207 KLRDLVVDCYELMKTVGCEPDRSSY--------RTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       207 g~~~~A~~l~~~M~~~g~~pd~~ty--------~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |++++|..++......+..|-...+        .-.-.+|.|.|++..|..-|....+.|..
T Consensus       276 ~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~  337 (517)
T PF12569_consen  276 GRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDD  337 (517)
T ss_pred             CCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            9999999999988866655443222        34557788999999999988887766544

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 [], [].

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

Probab=95.71  E-value=0.3  Score=45.67  Aligned_cols=122  Identities=13%  Similarity=0.075  Sum_probs=83.5

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh-c---CCCCcCHHH--HHHHHHHH
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT-E---NSLEPEIQG--FNALLKCL  203 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~-~---~G~~pd~~t--yn~lI~~~  203 (275)
                      +.-|.+++++++..|++-+++  +...+-.||-.-..+...+++++|++.|+.-.. +   .++..+.-+  --+++-.-
T Consensus       437 a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q  514 (606)
T KOG0547|consen  437 ALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ  514 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc
Confidence            344678899999999999887  455566777777888888999999998887542 1   112112211  12222222


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      - .++++.|.++++.-.+-.=+ ....|-+|-..-...|++++|.++|++..
T Consensus       515 w-k~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  515 W-KEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             h-hhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            2 37888888888876643322 34678899999999999999999998854

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

Probab=95.71  E-value=0.13  Score=45.83  Aligned_cols=104  Identities=14%  Similarity=-0.066  Sum_probs=83.0

Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHH
Q 023910          152 WYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY  231 (275)
Q Consensus       152 g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty  231 (275)
                      |+..|-.==+-|-++|.+.|.+.+|++.|+.-.++   .|-+.||-.|-+.|.+...++.|+.+|.+-.+  ..|-.+||
T Consensus       218 ~~~~dwwWk~Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~  292 (478)
T KOG1129|consen  218 GCTLDWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTY  292 (478)
T ss_pred             cchHhHHHHHHHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhh
Confidence            44444444466788999999999999999887644   57888999999999999999999999998664  35666776


Q ss_pred             H-HHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          232 R-TVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       232 ~-~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      - -+-..+-..++.++|.++++...+..+.
T Consensus       293 l~g~ARi~eam~~~~~a~~lYk~vlk~~~~  322 (478)
T KOG1129|consen  293 LLGQARIHEAMEQQEDALQLYKLVLKLHPI  322 (478)
T ss_pred             hhhhHHHHHHHHhHHHHHHHHHHHHhcCCc
Confidence            4 4566677789999999999998876553

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

Probab=95.65  E-value=0.24  Score=49.25  Aligned_cols=88  Identities=11%  Similarity=-0.040  Sum_probs=43.4

Q ss_pred             cCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 023910          169 TNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSG  248 (275)
Q Consensus       169 ~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~  248 (275)
                      |.|+.++|..+++.....+ .. |..|..++-..|-..|..++|..+|+...  +.-|+..--..+..+|.|.+.+.+-.
T Consensus        55 r~gk~~ea~~~Le~~~~~~-~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~--~~~P~eell~~lFmayvR~~~yk~qQ  130 (932)
T KOG2053|consen   55 RLGKGDEALKLLEALYGLK-GT-DDLTLQFLQNVYRDLGKLDEAVHLYERAN--QKYPSEELLYHLFMAYVREKSYKKQQ  130 (932)
T ss_pred             HhcCchhHHHHHhhhccCC-CC-chHHHHHHHHHHHHHhhhhHHHHHHHHHH--hhCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555555555544321 11 55555555555555555555555555432  23344444445555555555555544


Q ss_pred             HHHHHHHHHhCC
Q 023910          249 IIRQDAFKYYGD  260 (275)
Q Consensus       249 ~l~~~m~~~~~~  260 (275)
                      +.--+|.+.+|+
T Consensus       131 kaa~~LyK~~pk  142 (932)
T KOG2053|consen  131 KAALQLYKNFPK  142 (932)
T ss_pred             HHHHHHHHhCCc
Confidence            444444444444

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

Probab=95.60  E-value=0.68  Score=39.75  Aligned_cols=121  Identities=13%  Similarity=0.008  Sum_probs=94.3

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhH
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDL  211 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~  211 (275)
                      --.|+-+.+..+......  ....|...-+.++....+.|++.+|+..|.+...  .-++|..+||.+=-+|-+.|++++
T Consensus        77 ~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~Gr~~~  152 (257)
T COG5010          77 YLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLGRFDE  152 (257)
T ss_pred             HhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHccChhH
Confidence            345666777766666544  2455666777799999999999999999999973  578999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          212 VVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       212 A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      |..-|.+-.+--.. +...+|-|--.|.-.|+++.|..++......
T Consensus       153 Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~  197 (257)
T COG5010         153 ARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLS  197 (257)
T ss_pred             HHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            99999887753221 2235566666777889999999999886543

>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=95.54  E-value=0.51  Score=43.54  Aligned_cols=90  Identities=12%  Similarity=0.102  Sum_probs=73.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH-HHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI-QGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~-~tyn~lI~~~~  204 (275)
                      -+...+...++-.+|.++.++..++  .+-|....+.-.+.|.+.++.+.|+.+.++...   +.|+. .+|..|..+|.
T Consensus       205 ~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi  279 (395)
T PF09295_consen  205 LLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSKKKYELALEIAKKAVE---LSPSEFETWYQLAECYI  279 (395)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCchhHHHHHHHHHHHH
Confidence            3445555677788999999998874  344677777777889999999999999999963   56666 59999999999


Q ss_pred             hCCChhHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMK  220 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~  220 (275)
                      +.|+++.|+-.++.|-
T Consensus       280 ~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  280 QLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHhcCc
Confidence            9999999999888664

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

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.53  E-value=0.54  Score=37.51  Aligned_cols=90  Identities=9%  Similarity=0.034  Sum_probs=50.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ++-..+...|++++|.++|+-...   +.|. ..-|-.|=-.|-..|++++|+..|...-.- . +-|...|-.+=.++.
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~---~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L-~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTI---YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI-K-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-C-CCCchHHHHHHHHHH
Confidence            444455566777777777766655   2333 333444444555556677777766665421 1 224455555556666


Q ss_pred             hCCChhHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMK  220 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~  220 (275)
                      +.|+.+.|..-|+.-.
T Consensus       115 ~lG~~~~A~~aF~~Ai  130 (157)
T PRK15363        115 ACDNVCYAIKALKAVV  130 (157)
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            6666666666666544

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

Probab=95.51  E-value=0.81  Score=42.78  Aligned_cols=127  Identities=18%  Similarity=0.212  Sum_probs=106.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH-HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQV-SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~-~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+++=.++..+..|..+|+.....   .|-+ ..|---+.+=-..|++..|.++|+... +  ..||...|++-|+-=.
T Consensus       112 kYae~Emknk~vNhARNv~dRAvt~---lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~-~--w~P~eqaW~sfI~fEl  185 (677)
T KOG1915|consen  112 KYAEFEMKNKQVNHARNVWDRAVTI---LPRVDQLWYKYIYMEEMLGNIAGARQIFERWM-E--WEPDEQAWLSFIKFEL  185 (677)
T ss_pred             HHHHHHHhhhhHhHHHHHHHHHHHh---cchHHHHHHHHHHHHHHhcccHHHHHHHHHHH-c--CCCcHHHHHHHHHHHH
Confidence            4556666788899999999988773   4443 455555666667789999999999875 3  7999999999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +-..++.|..+++...-  +.|++.+|--...-=-++|....|..+++..++.+++
T Consensus       186 RykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~  239 (677)
T KOG1915|consen  186 RYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGD  239 (677)
T ss_pred             HhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhh
Confidence            99999999999999874  4599999998888888999999999999999998887

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

Probab=95.49  E-value=0.14  Score=45.86  Aligned_cols=108  Identities=8%  Similarity=0.056  Sum_probs=85.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      .+...|.-+...|+...|.++-.+.    . .||..-|-.-|.+|+..|++++-..+-..   .+    ..+-|-..+.+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F----k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s---kK----sPIGyepFv~~  246 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF----K-VPDKRFWWLKIKALAENKDWDELEKFAKS---KK----SPIGYEPFVEA  246 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc----C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---CC----CCCChHHHHHH
Confidence            3446677778889988888776665    2 47899999999999999999988776432   22    34889999999


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQ  252 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~  252 (275)
                      |.+.|...+|..+...          .++.--+..|.++|++.+|.+.-.
T Consensus       247 ~~~~~~~~eA~~yI~k----------~~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPK----------IPDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHCCCHHHHHHHHHh----------CChHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999999887          244677888999999999976643

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

>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=95.40  E-value=1.8  Score=41.52  Aligned_cols=128  Identities=8%  Similarity=-0.036  Sum_probs=91.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcC-------------CCCCCHHHH--HHHHHHHHcCCCHHHHHHHHHHhHhcCCCC
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQ-------------WYKPQVSLY--ADMIQVFGTNGLFQHVEILYFYLKTENSLE  190 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~-------------g~~p~~~ty--n~Li~~~~~~g~~~~A~~lf~~M~~~~G~~  190 (275)
                      .|-..|....+.+...+++.......             .-.|+...|  .-|-..|-..|++++|++..++-..   ..
T Consensus       148 ~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~---ht  224 (517)
T PF12569_consen  148 NLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIE---HT  224 (517)
T ss_pred             HHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh---cC
Confidence            44444444444555555555554321             123555445  4455668889999999999998764   45


Q ss_pred             cC-HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          191 PE-IQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       191 pd-~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      |+ +..|.+--..|-+.|++++|.+..+.-+.-.. -|.+.=+-....+.|+|++++|.+++....+.
T Consensus       225 Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~  291 (517)
T PF12569_consen  225 PTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTRE  291 (517)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCC
Confidence            66 56777788889999999999999998875432 37777788888999999999999988765443

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 [], [].

>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=95.37  E-value=0.12  Score=34.64  Aligned_cols=63  Identities=8%  Similarity=0.010  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHH
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME-EVAFSGIIRQDAFKY  257 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g-~~~~A~~l~~~m~~~  257 (275)
                      .+|..+=..+.+.|++++|...|++..+.. +-+...|..+-.++.+.| ++++|.+.++..++.
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            344444445555555555555555544321 113334444444455555 455555555555443

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.35  E-value=0.65  Score=35.86  Aligned_cols=111  Identities=13%  Similarity=0.007  Sum_probs=78.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ...+|..+...+.......+++.+.+. + ..+...+|.||..|++.+ .++.++.+..   .    ++......++..|
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~-~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~---~----~~~yd~~~~~~~c   79 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKL-N-SENPALQTKLIELYAKYD-PQKEIERLDN---K----SNHYDIEKVGKLC   79 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHcc-C-ccchhHHHHHHHHHHHHC-HHHHHHHHHh---c----cccCCHHHHHHHH
Confidence            346777787888899999999998885 4 367889999999999874 4555566552   1    1334445588888


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM-EEVAFSGIIRQD  253 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~-g~~~~A~~l~~~  253 (275)
                      -+.+.++++..++..+..         |.-.++.+... ++++.|.+++.+
T Consensus        80 ~~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~  121 (140)
T smart00299       80 EKAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK  121 (140)
T ss_pred             HHcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh
Confidence            888888888888887642         22233333334 777777777765

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

Probab=95.30  E-value=1.2  Score=41.52  Aligned_cols=122  Identities=5%  Similarity=-0.021  Sum_probs=94.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .|-+.|-+.|+-..|++.+-+--+-  +.-|..|.-=|-..|...--+++|+..|+.-.   =+.|+.+-|-.||..|.+
T Consensus       597 kl~dlydqegdksqafq~~ydsyry--fp~nie~iewl~ayyidtqf~ekai~y~ekaa---liqp~~~kwqlmiasc~r  671 (840)
T KOG2003|consen  597 KLADLYDQEGDKSQAFQCHYDSYRY--FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA---LIQPNQSKWQLMIASCFR  671 (840)
T ss_pred             HHHHHhhcccchhhhhhhhhhcccc--cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hcCccHHHHHHHHHHHHH
Confidence            5667778889999999887766552  44456665557777777778899999999874   289999999999998876


Q ss_pred             -CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          206 -FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       206 -~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                       .|++.+|++++.+..+ .++-|.....-|+..+...|.- +|.++-+++
T Consensus       672 rsgnyqka~d~yk~~hr-kfpedldclkflvri~~dlgl~-d~key~~kl  719 (840)
T KOG2003|consen  672 RSGNYQKAFDLYKDIHR-KFPEDLDCLKFLVRIAGDLGLK-DAKEYADKL  719 (840)
T ss_pred             hcccHHHHHHHHHHHHH-hCccchHHHHHHHHHhccccch-hHHHHHHHH
Confidence             7999999999999864 5777888888899988888754 345544443

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

Probab=95.11  E-value=0.44  Score=44.25  Aligned_cols=130  Identities=16%  Similarity=0.124  Sum_probs=100.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHH-HHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQW-YKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGF-NALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g-~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~ty-n~lI~~~  203 (275)
                      ..|+...|..-++.|..+|-+.++. | ..+++..|+++|..|+. |+..-|..+|+-=...   -||+..| +--+.-+
T Consensus       402 ~~~N~v~r~~Gl~aaR~~F~k~rk~-~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~---f~d~~~y~~kyl~fL  476 (660)
T COG5107         402 VHLNYVLRKRGLEAARKLFIKLRKE-GIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK---FPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhcc-CCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh---CCCchHHHHHHHHHH
Confidence            4677777778899999999999985 6 78899999999999884 6788899999753322   3454444 5667777


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPD--RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd--~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+-++-+.|..+|+.-.+. +.-+  ...|..+|+-=..-|++..+..+-+.|.+.||+-
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            8889999999999844321 1112  3579999999999999999999999999999874

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=95.06  E-value=0.47  Score=40.78  Aligned_cols=102  Identities=10%  Similarity=0.023  Sum_probs=58.7

Q ss_pred             HHHcCCCHHHHHHHHHHhHhcCCCCcCH-HHH---HHHHHHHHhCCChhHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHh
Q 023910          166 VFGTNGLFQHVEILYFYLKTENSLEPEI-QGF---NALLKCLVGFKLRDLVVDCYELMKT-VGCEPDRSSYRTVINGLEA  240 (275)
Q Consensus       166 ~~~~~g~~~~A~~lf~~M~~~~G~~pd~-~ty---n~lI~~~~~~g~~~~A~~l~~~M~~-~g~~pd~~ty~~li~~~~~  240 (275)
                      .+.+.|++++|.+.|++....   -|+. ..-   --+..+|.+.++.++|...|++..+ ..-.|+. -|...+.|++.
T Consensus        41 ~~~~~g~y~~Ai~~f~~l~~~---yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~-~~a~Y~~g~~~  116 (243)
T PRK10866         41 QKLQDGNWKQAITQLEALDNR---YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI-DYVLYMRGLTN  116 (243)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch-HHHHHHHHHhh
Confidence            344567777777777777643   2222 222   2334556677777777777777763 2333332 33333333321


Q ss_pred             --c------------------CCHHHHHHHHHHHHHHhCCccchHHHHHHH
Q 023910          241 --M------------------EEVAFSGIIRQDAFKYYGDLEFLEEDEEDI  271 (275)
Q Consensus       241 --~------------------g~~~~A~~l~~~m~~~~~~~~~~~e~~~~~  271 (275)
                        .                  ....+|.+.|+++++.||+-....|.+.++
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl  167 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRL  167 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHH
Confidence              0                  113567788888889999877777765543

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

Probab=95.03  E-value=0.15  Score=33.75  Aligned_cols=54  Identities=17%  Similarity=0.151  Sum_probs=30.1

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      ..+.+.|++++|.++|++..+.  ..-+...|..+-..+.+.|++++|...|++..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQ--DPDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCC--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3455566666666666666553  12244555555566666666666666666554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.92  E-value=2.1  Score=36.91  Aligned_cols=118  Identities=10%  Similarity=0.014  Sum_probs=57.2

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHH
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLV  212 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A  212 (275)
                      .+|+.+.|...+++++.++.=.+-+.-..+|.  +--.|++++|+++++.+..+  -+-|.++|--=|...-..|+--+|
T Consensus        64 d~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~--lEa~~~~~~A~e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~a  139 (289)
T KOG3060|consen   64 DTGRDDLAQKCINQLRDRFPGSKRVGKLKAML--LEATGNYKEAIEYYESLLED--DPTDTVIRKRKLAILKAQGKNLEA  139 (289)
T ss_pred             HhcchHHHHHHHHHHHHhCCCChhHHHHHHHH--HHHhhchhhHHHHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHH
Confidence            45555666666666555421111111111111  12235556666666655543  244555555444444445554455


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          213 VDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       213 ~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      ++-+.+..+. +.-|...|.-+-+.|...|++++|.-.++++.
T Consensus       140 Ik~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  140 IKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             HHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            5554444432 44455566666666666666666655555544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.91  E-value=0.77  Score=39.96  Aligned_cols=97  Identities=9%  Similarity=-0.016  Sum_probs=70.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCC-CcCHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQV----SLYADMIQVFGTNGLFQHVEILYFYLKTENSL-EPEIQGFN  197 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~----~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~-~pd~~tyn  197 (275)
                      +|...+..+.+.|++++|...|+.+.+.   .|+.    ..+--|-..|...|++++|...|+.+.+.+-- ......+-
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            4555555556779999999999999885   3442    45666778899999999999999999753211 11123334


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhC
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~~  222 (275)
                      .+...|...|+.++|..+|+...+.
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4455677899999999999988753

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=94.91  E-value=0.83  Score=43.77  Aligned_cols=120  Identities=11%  Similarity=-0.045  Sum_probs=83.2

Q ss_pred             CHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcC--------CCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC
Q 023910          136 HCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTN--------GLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF  206 (275)
Q Consensus       136 ~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~--------g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~  206 (275)
                      ....|..+|++..+.   .|| ...|..+--+|...        .+...+.+.............+...|.++--.+...
T Consensus       357 ~~~~A~~lle~Ai~l---dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~  433 (517)
T PRK10153        357 SLNKASDLLEEILKS---EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVK  433 (517)
T ss_pred             HHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhc
Confidence            477899999999884   566 34444433333221        122333444433221112334557788776666678


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          207 KLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       207 g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |++++|...+++..+.+  |+...|..+-..+...|+.++|.+.+++...+-|.
T Consensus       434 g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~  485 (517)
T PRK10153        434 GKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPG  485 (517)
T ss_pred             CCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            99999999999988665  78899999999999999999999999998877554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.79  E-value=0.61  Score=38.76  Aligned_cols=32  Identities=19%  Similarity=0.177  Sum_probs=23.4

Q ss_pred             cCCHHHHHHHHHHHHHHhCCccchHHHHHHHh
Q 023910          241 MEEVAFSGIIRQDAFKYYGDLEFLEEDEEDIA  272 (275)
Q Consensus       241 ~g~~~~A~~l~~~m~~~~~~~~~~~e~~~~~~  272 (275)
                      .+...+|...|+++++.||+..+..+...++.
T Consensus       103 ~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~  134 (203)
T PF13525_consen  103 QTSTRKAIEEFEELIKRYPNSEYAEEAKKRLA  134 (203)
T ss_dssp             -HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHCcCchHHHHHHHHHH
Confidence            34567889999999999999888877766543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=94.79  E-value=2.3  Score=36.44  Aligned_cols=29  Identities=7%  Similarity=-0.034  Sum_probs=15.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHHhCCccchHH
Q 023910          238 LEAMEEVAFSGIIRQDAFKYYGDLEFLEE  266 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~~~~~~~~~~~e  266 (275)
                      |.+.|.+.-|..=++.+.+.||.....+|
T Consensus       185 Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~e  213 (243)
T PRK10866        185 YTKRGAYVAVVNRVEQMLRDYPDTQATRD  213 (243)
T ss_pred             HHHcCchHHHHHHHHHHHHHCCCCchHHH
Confidence            44555555555555555555555444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.73  E-value=0.63  Score=43.30  Aligned_cols=59  Identities=14%  Similarity=0.040  Sum_probs=37.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQV----SLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~----~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      .++.+-..|.+.|++++|+..|++-.+   +.|+.    .+|..+-.+|.+.|+.++|++.|++..
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrAL  139 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTAL  139 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344556666667777777777776655   24552    346667777777777777777776654

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

Probab=94.68  E-value=1.9  Score=39.33  Aligned_cols=127  Identities=13%  Similarity=0.030  Sum_probs=87.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-------VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNA  198 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~  198 (275)
                      -....|.+.|.+.....+...|.+. |.--|       ..+|+.+++-....+..+.-...|++...+  .+-+...-.+
T Consensus       192 La~r~y~~~g~~~~ll~~l~~L~ka-~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~--lr~~p~l~~~  268 (400)
T COG3071         192 LALRAYIRLGAWQALLAILPKLRKA-GLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK--LRNDPELVVA  268 (400)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHc-cCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH--hhcChhHHHH
Confidence            5677888889999999999999885 55444       357777777666666666655566666532  3444555556


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHh--------------------------------CCCCCCHHHHHHHHHHHHhcCCHHH
Q 023910          199 LLKCLVGFKLRDLVVDCYELMKT--------------------------------VGCEPDRSSYRTVINGLEAMEEVAF  246 (275)
Q Consensus       199 lI~~~~~~g~~~~A~~l~~~M~~--------------------------------~g~~pd~~ty~~li~~~~~~g~~~~  246 (275)
                      ++.=+.+.|+.++|.++..+-.+                                .+-.|  ..+.+|=..|.+.+.+.+
T Consensus       269 ~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~k  346 (400)
T COG3071         269 YAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGK  346 (400)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHH
Confidence            66666777777777766554432                                33334  467788888999999999


Q ss_pred             HHHHHHHHHHH
Q 023910          247 SGIIRQDAFKY  257 (275)
Q Consensus       247 A~~l~~~m~~~  257 (275)
                      |.+.|+...+.
T Consensus       347 A~~~leaAl~~  357 (400)
T COG3071         347 ASEALEAALKL  357 (400)
T ss_pred             HHHHHHHHHhc
Confidence            99999986654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.63  E-value=1.7  Score=44.41  Aligned_cols=120  Identities=8%  Similarity=0.060  Sum_probs=80.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCC---------------------CCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQW---------------------YKPQVSLYADMIQVFGTNGLFQHVEILYF  181 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g---------------------~~p~~~tyn~Li~~~~~~g~~~~A~~lf~  181 (275)
                      |.-.+-+-....+-.++|+.+|+..... +                     -.-....|+.|-.+--+.|.+.+|++-|-
T Consensus      1050 Da~~ia~iai~~~LyEEAF~ifkkf~~n-~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyi 1128 (1666)
T KOG0985|consen 1050 DAPDIAEIAIENQLYEEAFAIFKKFDMN-VSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYI 1128 (1666)
T ss_pred             CchhHHHHHhhhhHHHHHHHHHHHhccc-HHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHH
Confidence            3334444455566678888888764320 0                     00023456666666666677777766653


Q ss_pred             HhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023910          182 YLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQ  252 (275)
Q Consensus       182 ~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~  252 (275)
                      +-  +     |...|.-+|+...+.|.+++-..++..-++..-+|...  +.||-+|++.+++.+.++++.
T Consensus      1129 ka--d-----Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~ 1190 (1666)
T KOG0985|consen 1129 KA--D-----DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA 1190 (1666)
T ss_pred             hc--C-----CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc
Confidence            32  2     67789999999999999999999888777777777654  478888888888877666553

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

Probab=94.61  E-value=1.1  Score=39.26  Aligned_cols=100  Identities=7%  Similarity=0.080  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHcC-CCHHHHHHHHHHhHh---cCCCCcC--HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-----CCC
Q 023910          159 LYADMIQVFGTN-GLFQHVEILYFYLKT---ENSLEPE--IQGFNALLKCLVGFKLRDLVVDCYELMKTVGC-----EPD  227 (275)
Q Consensus       159 tyn~Li~~~~~~-g~~~~A~~lf~~M~~---~~G~~pd--~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~-----~pd  227 (275)
                      .+.-+-..|-.. |++++|++.|++-..   ..| .+.  ..++..+...+.+.|++++|.++|++....-.     +.+
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            444445566666 788888887776432   112 111  35666777778888888888888888764322     222


Q ss_pred             HHH--HHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          228 RSS--YRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       228 ~~t--y~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ...  ++.+| .+...|+...|.+.+++.....|.
T Consensus       195 ~~~~~l~a~l-~~L~~~D~v~A~~~~~~~~~~~~~  228 (282)
T PF14938_consen  195 AKEYFLKAIL-CHLAMGDYVAARKALERYCSQDPS  228 (282)
T ss_dssp             HHHHHHHHHH-HHHHTT-HHHHHHHHHHHGTTSTT
T ss_pred             HHHHHHHHHH-HHHHcCCHHHHHHHHHHHHhhCCC
Confidence            222  23433 455568888888888887766554

>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=94.59  E-value=0.13  Score=35.44  Aligned_cols=64  Identities=14%  Similarity=0.232  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCC-CcC-HHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSL-EPE-IQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~-~pd-~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      ..+|+.+-..|...|++++|+..|++...   ..|- .|+ ..+++.+-..|...|++++|.+.+++-.
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35788888899999999999998887642   2221 233 6788888899999999999999988643

...

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

Probab=94.56  E-value=5  Score=39.24  Aligned_cols=121  Identities=8%  Similarity=-0.048  Sum_probs=97.9

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHH
Q 023910          134 QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVV  213 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~  213 (275)
                      .|..++-..+|++....  ++-..+.|-...+-+-..|++..|..++...-.-  ..-+...|-+-+..-..+..+++|.
T Consensus       563 hgt~Esl~Allqkav~~--~pkae~lwlM~ake~w~agdv~~ar~il~~af~~--~pnseeiwlaavKle~en~e~eraR  638 (913)
T KOG0495|consen  563 HGTRESLEALLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEA--NPNSEEIWLAAVKLEFENDELERAR  638 (913)
T ss_pred             cCcHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHh--CCCcHHHHHHHHHHhhccccHHHHH
Confidence            57888888888888774  5667777877778888889999999999888743  3446788888999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          214 DCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       214 ~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+|..-..  ..|+...|.--++..--.+..++|.+++++..+.||.
T Consensus       639 ~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~  683 (913)
T KOG0495|consen  639 DLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPD  683 (913)
T ss_pred             HHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCc
Confidence            99998664  5667777766666666688999999999999998886

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=94.44  E-value=1.6  Score=33.13  Aligned_cols=85  Identities=9%  Similarity=-0.014  Sum_probs=53.7

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC------HHHHHHHHH
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE------IQGFNALLK  201 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd------~~tyn~lI~  201 (275)
                      .+-..|+.++|..+|++-... |....  ...+-.+-+.|...|++++|+.+|++...+   .|+      ...|-+  -
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~---~p~~~~~~~l~~f~A--l   83 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE---FPDDELNAALRVFLA--L   83 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCccccHHHHHHHH--H
Confidence            344568888888888888773 65544  234444556677778888888888877643   133      222222  2


Q ss_pred             HHHhCCChhHHHHHHHHHH
Q 023910          202 CLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~  220 (275)
                      ++...|+.++|++.+-...
T Consensus        84 ~L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   84 ALYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            5566788888887765443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.23  E-value=2.2  Score=37.83  Aligned_cols=120  Identities=15%  Similarity=0.159  Sum_probs=77.5

Q ss_pred             CHHHHHHHHHHhHHcCCC--CCCHHHHHHHHHHHHcCCCH----HHHHHHHHHhHhcCCCCcCH-HHHHHHHHHHHhCC-
Q 023910          136 HCLLALKVFEDIRKEQWY--KPQVSLYADMIQVFGTNGLF----QHVEILYFYLKTENSLEPEI-QGFNALLKCLVGFK-  207 (275)
Q Consensus       136 ~~~~A~~lf~~m~~~~g~--~p~~~tyn~Li~~~~~~g~~----~~A~~lf~~M~~~~G~~pd~-~tyn~lI~~~~~~g-  207 (275)
                      ....|..+|+.|++.+.+  .++-+++.+|+.+  ..+++    +.++..|+.+... |+..+- .-+-+-|-+++..- 
T Consensus       118 ~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~-~f~kgn~LQ~LS~iLaL~~~~~  194 (297)
T PF13170_consen  118 IIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADA-GFKKGNDLQFLSHILALSEGDD  194 (297)
T ss_pred             HHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHh-CCCCCcHHHHHHHHHHhccccc
Confidence            367899999999997654  4567888888776  44444    5677888888763 665543 34444444444322 


Q ss_pred             --ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH-HHHHHHHHHHHHhC
Q 023910          208 --LRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVA-FSGIIRQDAFKYYG  259 (275)
Q Consensus       208 --~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~-~A~~l~~~m~~~~~  259 (275)
                        .+.++.++++.+++.|+++...+|.++-= ++-.+..+ +..+-+.++.+...
T Consensus       195 ~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl-Lall~~~~~~~~~~i~ev~~~L~  248 (297)
T PF13170_consen  195 QEKVARVIELYNALKKNGVKIKYMHYPTLGL-LALLEDPEEKIVEEIKEVIDELK  248 (297)
T ss_pred             hHHHHHHHHHHHHHHHcCCccccccccHHHH-HHhcCCchHHHHHHHHHHHHHHh
Confidence              24578899999999999999888875533 33333333 44444445444433

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.19  E-value=0.7  Score=36.24  Aligned_cols=119  Identities=10%  Similarity=0.128  Sum_probs=69.9

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChh
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~  210 (275)
                      .+.|++++|.+.|+.+..++...| ....-=-|+.+|.+.|++++|...+++..+-+=-.|+ +-|--.+.|++.-...+
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~~~~~~   99 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSYYEQDE   99 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHHHHHhh
Confidence            367788888888888877643333 2344445777788888888888777776543222333 44555555544332222


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHHHH
Q 023910          211 LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEEDEE  269 (275)
Q Consensus       211 ~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~~~  269 (275)
                         ..|..+.  +..-|.             +...+|..-|+++++.||+.....+...
T Consensus       100 ---~~~~~~~--~~drD~-------------~~~~~A~~~f~~lv~~yP~S~ya~dA~~  140 (142)
T PF13512_consen  100 ---GSLQSFF--RSDRDP-------------TPARQAFRDFEQLVRRYPNSEYAADARK  140 (142)
T ss_pred             ---hHHhhhc--ccccCc-------------HHHHHHHHHHHHHHHHCcCChhHHHHHh
Confidence               2222222  222221             2245888889999999998877666544

>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=94.13  E-value=0.37  Score=32.06  Aligned_cols=63  Identities=6%  Similarity=0.036  Sum_probs=42.0

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC-ChhHHHHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK-LRDLVVDCYELMK  220 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g-~~~~A~~l~~~M~  220 (275)
                      +..+|..+=..+.+.|++++|+..|++..+-  -+-+...|..+=.+|.+.| ++++|...|+.-.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            4556677777777777777777777776542  2335566777777777777 5777777776543

...

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.06  E-value=0.21  Score=44.19  Aligned_cols=48  Identities=8%  Similarity=-0.066  Sum_probs=23.8

Q ss_pred             CHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          172 LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       172 ~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      ++++++.++..=. .+|+-||-+|++.+|+.+.+.++..+|.++...|.
T Consensus       115 ~pq~~i~~l~npI-qYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  115 DPQKAIYTLVNPI-QYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             ChHHHHHHHhCcc-hhccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            3444444444332 24555555555555555555555555555544444

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

Probab=93.93  E-value=3.8  Score=38.34  Aligned_cols=124  Identities=10%  Similarity=0.133  Sum_probs=95.7

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHHhCC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLVGFK  207 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~~~g  207 (275)
                      ..|........|.+-++...+-  .+.|-..|-.|-.+|.-.+.+.=|+-.|++-..   ++| |...|.+|=.+|.+.+
T Consensus       372 HEyvEmKNt~AAi~sYRrAvdi--~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~---~kPnDsRlw~aLG~CY~kl~  446 (559)
T KOG1155|consen  372 HEYVEMKNTHAAIESYRRAVDI--NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE---LKPNDSRLWVALGECYEKLN  446 (559)
T ss_pred             HHHHHhcccHHHHHHHHHHHhc--CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHhc
Confidence            4566667777788888777663  455788888888888888888888888887752   444 5688888888888888


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          208 LRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       208 ~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      ++++|...|..-..-|-. +...|.-|-+.|-+.++..+|...++.-.+.+
T Consensus       447 ~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~  496 (559)
T KOG1155|consen  447 RLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVS  496 (559)
T ss_pred             cHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            888888888887755433 55778888888888888888888888866655

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.90  E-value=2.9  Score=39.57  Aligned_cols=123  Identities=9%  Similarity=-0.027  Sum_probs=88.0

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHH-HHHHcCCCHHHHHHHHHHhHhc--CCCCcCHHHHHHHHHHHHhCCChh
Q 023910          134 QNHCLLALKVFEDIRKEQWYKPQVSLYADMI-QVFGTNGLFQHVEILYFYLKTE--NSLEPEIQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li-~~~~~~g~~~~A~~lf~~M~~~--~G~~pd~~tyn~lI~~~~~~g~~~  210 (275)
                      ....+.|.++++++.++   -|+...|.-.- +.+...|++++|++.|++....  .--+.....|=-+.-.+.-.++++
T Consensus       246 ~~~~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            45788999999999996   57887776555 4566779999999999964321  001223344555556678899999


Q ss_pred             HHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCH-------HHHHHHHHHHHHHhCC
Q 023910          211 LVVDCYELMK-TVGCEPDRSSYRTVINGLEAMEEV-------AFSGIIRQDAFKYYGD  260 (275)
Q Consensus       211 ~A~~l~~~M~-~~g~~pd~~ty~~li~~~~~~g~~-------~~A~~l~~~m~~~~~~  260 (275)
                      +|.+.|..+. ++...+-.++|-.-.. +...|+.       ++|.++|.+.....++
T Consensus       323 ~A~~~f~~L~~~s~WSka~Y~Y~~a~c-~~~l~~~~~~~~~~~~a~~l~~~vp~l~~k  379 (468)
T PF10300_consen  323 EAAEYFLRLLKESKWSKAFYAYLAAAC-LLMLGREEEAKEHKKEAEELFRKVPKLKQK  379 (468)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHH-HHhhccchhhhhhHHHHHHHHHHHHHHHhh
Confidence            9999999999 4566666555544333 4566777       8888888887776664

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=93.87  E-value=1.5  Score=33.33  Aligned_cols=88  Identities=14%  Similarity=-0.037  Sum_probs=63.9

Q ss_pred             HHHHcCCCHHHHHHHHHHhHhcCCCCcC--HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCC----HHHHHHHHHHH
Q 023910          165 QVFGTNGLFQHVEILYFYLKTENSLEPE--IQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPD----RSSYRTVINGL  238 (275)
Q Consensus       165 ~~~~~~g~~~~A~~lf~~M~~~~G~~pd--~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd----~~ty~~li~~~  238 (275)
                      .++-..|+.++|+.+|++-... |....  ...+-.+-+.|-..|++++|..+|++....-  |+    ...-..+--++
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHH
Confidence            3566789999999999998754 76655  3456667777889999999999999887431  33    11112233467


Q ss_pred             HhcCCHHHHHHHHHHHH
Q 023910          239 EAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       239 ~~~g~~~~A~~l~~~m~  255 (275)
                      ...|+.++|.+.+-...
T Consensus        86 ~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            88999999998886643

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

Probab=93.45  E-value=5.9  Score=37.82  Aligned_cols=114  Identities=10%  Similarity=0.135  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHHhCCChhHHHHH
Q 023910          137 CLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLVGFKLRDLVVDC  215 (275)
Q Consensus       137 ~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~~~g~~~~A~~l  215 (275)
                      .+....++++........|+.+ |-.+|+.--+..-++.|..+|.+..++ +..+ ++..++++|.-|| .++.+.|.++
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv-~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c-skD~~~AfrI  423 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLV-YCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC-SKDKETAFRI  423 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCcee-hhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh-cCChhHHHHH
Confidence            5556677777766545666654 888888888888899999999999876 6777 9999999999887 6778999999


Q ss_pred             HHH-HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          216 YEL-MKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       216 ~~~-M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      |+. |+..|-.|-  --..-++-+.+.++-..|..+|+...
T Consensus       424 FeLGLkkf~d~p~--yv~~YldfL~~lNdd~N~R~LFEr~l  462 (656)
T KOG1914|consen  424 FELGLKKFGDSPE--YVLKYLDFLSHLNDDNNARALFERVL  462 (656)
T ss_pred             HHHHHHhcCCChH--HHHHHHHHHHHhCcchhHHHHHHHHH
Confidence            985 444443332  22456666666666666666665544

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

Probab=93.35  E-value=1.2  Score=39.00  Aligned_cols=77  Identities=10%  Similarity=0.031  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-----hCCCCCCHHHHHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-----TVGCEPDRSSYRT  233 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-----~~g~~pd~~ty~~  233 (275)
                      +++.++..+...|+.+.+.+.++++-..  -+-|...|-.||.+|.+.|+...|.+.|+.++     +-|+.|-..+...
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            4444555555555555555555554422  33445555555555555555555555555443     2455555554444


Q ss_pred             HHHH
Q 023910          234 VING  237 (275)
Q Consensus       234 li~~  237 (275)
                      ..+.
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4444

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

Probab=93.33  E-value=2  Score=37.71  Aligned_cols=79  Identities=14%  Similarity=0.133  Sum_probs=68.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCCCCcCHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT----ENSLEPEIQGFNAL  199 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G~~pd~~tyn~l  199 (275)
                      +..++..+..+|+++.+...++++...+  .-|...|-.||.+|.++|+...|+..|+.+++    +.|+.|-..+....
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~d--p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELD--PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            4478888889999999999999998852  45889999999999999999999999998874    56999999988887


Q ss_pred             HHHHH
Q 023910          200 LKCLV  204 (275)
Q Consensus       200 I~~~~  204 (275)
                      .....
T Consensus       234 ~~~~~  238 (280)
T COG3629         234 EEILR  238 (280)
T ss_pred             HHHhc
Confidence            77733

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

Probab=93.28  E-value=0.75  Score=43.70  Aligned_cols=104  Identities=9%  Similarity=-0.029  Sum_probs=82.7

Q ss_pred             cCCHHHHHHHHHHhHHcC-CCCC----CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCC
Q 023910          134 QNHCLLALKVFEDIRKEQ-WYKP----QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKL  208 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~-g~~p----~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~  208 (275)
                      .+.+.+|..+|..-.... ...+    -..+++.|-..|.+.++.++|+..|+.-..-  .+-|..||.++--.|...|+
T Consensus       427 ~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l--~~k~~~~~asig~iy~llgn  504 (611)
T KOG1173|consen  427 YEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL--SPKDASTHASIGYIYHLLGN  504 (611)
T ss_pred             HhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc--CCCchhHHHHHHHHHHHhcC
Confidence            467899999998776310 1111    2456888889999999999999999987642  56689999999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 023910          209 RDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM  241 (275)
Q Consensus       209 ~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~  241 (275)
                      ++.|.+.|.+  .-.+.||..+-..++..+...
T Consensus       505 ld~Aid~fhK--aL~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  505 LDKAIDHFHK--ALALKPDNIFISELLKLAIED  535 (611)
T ss_pred             hHHHHHHHHH--HHhcCCccHHHHHHHHHHHHh
Confidence            9999999997  457899988888888765543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=93.27  E-value=0.67  Score=31.14  Aligned_cols=53  Identities=6%  Similarity=-0.031  Sum_probs=27.7

Q ss_pred             HHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          166 VFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       166 ~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      .|.+.+++++|.+.++.+...  -+.+...|...=..|.+.|++++|.+.|+...
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            455555556666655555432  22344444445555555555555555555554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=93.16  E-value=0.88  Score=44.79  Aligned_cols=53  Identities=13%  Similarity=0.002  Sum_probs=27.6

Q ss_pred             HHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          200 LKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       200 I~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      |..|-+.|..++.+++.+.-.-..+   ..|--.+-.-|-..|++..|++-|-+..
T Consensus       857 iqmydk~~~~ddmirlv~k~h~d~l---~dt~~~f~~e~e~~g~lkaae~~flea~  909 (1636)
T KOG3616|consen  857 IQMYDKHGLDDDMIRLVEKHHGDHL---HDTHKHFAKELEAEGDLKAAEEHFLEAG  909 (1636)
T ss_pred             HHHHHhhCcchHHHHHHHHhChhhh---hHHHHHHHHHHHhccChhHHHHHHHhhh
Confidence            4555555555555555543221111   1233445555666777777777665543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.11  E-value=1.9  Score=37.35  Aligned_cols=102  Identities=12%  Similarity=0.123  Sum_probs=80.0

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhHhcC---CCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-hCCCCCCH-HHHH
Q 023910          158 SLYADMIQVFGTNGLFQHVEILYFYLKTEN---SLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-TVGCEPDR-SSYR  232 (275)
Q Consensus       158 ~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~---G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-~~g~~pd~-~ty~  232 (275)
                      ..|+.-++.|- +|++.+|..-|....+.+   -+.||..-|  |-.++...|+.++|..+|..+. +.+-.|-. ...-
T Consensus       143 ~~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdall  219 (262)
T COG1729         143 KLYNAALDLYK-SGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALL  219 (262)
T ss_pred             HHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHH
Confidence            36999888764 677999999999987531   244555444  7788999999999999999998 44444433 4666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          233 TVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       233 ~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      -|-....+.|+.++|...++++++.||...
T Consensus       220 Klg~~~~~l~~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         220 KLGVSLGRLGNTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence            777788899999999999999999999853

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.06  E-value=4.5  Score=33.52  Aligned_cols=139  Identities=14%  Similarity=0.058  Sum_probs=79.2

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH---h
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV---G  205 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~---~  205 (275)
                      .+...|++++|.+.|+.+..+....|- ....-.+..+|.+.|++++|...|++..+...-.|.. -+...+.|.+   .
T Consensus        14 ~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~g~~~~~~   92 (203)
T PF13525_consen   14 EALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYMLGLSYYKQ   92 (203)
T ss_dssp             HHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHHHHHHHHh
Confidence            344678888888888888775322221 2344456677778888888888888766543222322 1222222222   1


Q ss_pred             ----------CCChhHHHHHHHHHHh----CCCCCCHHHH------------HHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          206 ----------FKLRDLVVDCYELMKT----VGCEPDRSSY------------RTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       206 ----------~g~~~~A~~l~~~M~~----~g~~pd~~ty------------~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                                .+...+|...|+++.+    +...++....            -.+.+-|.+.|.+..|..-++.+++.||
T Consensus        93 ~~~~~~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp  172 (203)
T PF13525_consen   93 IPGILRSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARFYYKRGKYKAAIIRFQYVIENYP  172 (203)
T ss_dssp             HHHHH-TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHST
T ss_pred             CccchhcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC
Confidence                      1223456666666652    2222222211            2245668899999999999999999999


Q ss_pred             CccchHHHHH
Q 023910          260 DLEFLEEDEE  269 (275)
Q Consensus       260 ~~~~~~e~~~  269 (275)
                      .....+|...
T Consensus       173 ~t~~~~~al~  182 (203)
T PF13525_consen  173 DTPAAEEALA  182 (203)
T ss_dssp             TSHHHHHHHH
T ss_pred             CCchHHHHHH
Confidence            9877776543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.90  E-value=5.9  Score=34.53  Aligned_cols=131  Identities=6%  Similarity=-0.006  Sum_probs=94.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH---
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC---  202 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~---  202 (275)
                      .++..+.-.|.+.....++++..++ .-+.+.+.-..|.+.-.+.|+.+.|...|+..+++ .-+.|..+++.++.-   
T Consensus       182 ~~~~~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  182 SMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhhhh
Confidence            4444444457788888889988885 34667888888889899999999999999988776 356677777776643   


Q ss_pred             --HHhCCChhHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          203 --LVGFKLRDLVVDCYELMKTVG-CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       203 --~~~~g~~~~A~~l~~~M~~~g-~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                        |.-++++-.|...|++..... -.|-.+.--+|+..|  .|++.+|.+.++.|....|.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllY--lg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLY--LGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHH--HHHHHHHHHHHHHHhccCCc
Confidence              334668888888888876432 222222223555555  67999999999999887775

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=92.88  E-value=0.66  Score=31.18  Aligned_cols=62  Identities=16%  Similarity=0.074  Sum_probs=50.3

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHH
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQG  195 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~t  195 (275)
                      ..|.+.++++.|.++++.+.+.  -+.+...|...-..|.+.|++++|.+.|+...+   ..|+..+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~---~~p~~~~   64 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALE---LSPDDPD   64 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHH---HCCCcHH
Confidence            4678899999999999999884  234677787888899999999999999999874   3455443

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

Probab=92.75  E-value=2  Score=40.02  Aligned_cols=94  Identities=12%  Similarity=0.113  Sum_probs=76.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCC-CCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHH-HH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENS-LEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY-RT  233 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G-~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty-~~  233 (275)
                      =...|-++|+.--+..-++.|..+|-+..+. | +.+++..|+++|.-++ .|+...|..+|+.=..  .-||...| +-
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-GIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLL--KFPDSTLYKEK  471 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhcc-CCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHH--hCCCchHHHHH
Confidence            4678899999999998899999999999876 6 7899999999999877 6788899999985221  23565555 46


Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 023910          234 VINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       234 li~~~~~~g~~~~A~~l~~~  253 (275)
                      -+.-+.+.++-+.|..+|+.
T Consensus       472 yl~fLi~inde~naraLFet  491 (660)
T COG5107         472 YLLFLIRINDEENARALFET  491 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHH
Confidence            67778888998888888884

>PLN02789 farnesyltranstransferase

Probab=92.74  E-value=7.1  Score=35.00  Aligned_cols=146  Identities=8%  Similarity=-0.060  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHHhHH---HHHHHHHhcC-CHHHHHHHHHHhHHcCCCCCCHHHHHHHHH
Q 023910           90 EAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMI---AVLRELLRQN-HCLLALKVFEDIRKEQWYKPQVSLYADMIQ  165 (275)
Q Consensus        90 ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~~~~---~li~~~~~~g-~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~  165 (275)
                      ++...++.+.......+.....++..+. +.+.++.   ..-..+...| .+++++..++++.+.  -..+..+|+.---
T Consensus        38 ~a~~~~ra~l~~~e~serAL~lt~~aI~-lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~  114 (320)
T PLN02789         38 EAMDYFRAVYASDERSPRALDLTADVIR-LNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRW  114 (320)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHH-HCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHH
Confidence            6777777777666544444444444442 3333332   1112233345 578999999988774  2446667876655


Q ss_pred             HHHcCCCH--HHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 023910          166 VFGTNGLF--QHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM  241 (275)
Q Consensus       166 ~~~~~g~~--~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~  241 (275)
                      .+.+.|+.  ++++.+++++...  -.=|...|+-.--++.+.|+++++++.++++.+.+.. |...|+..-..+.+.
T Consensus       115 ~l~~l~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~  189 (320)
T PLN02789        115 LAEKLGPDAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRS  189 (320)
T ss_pred             HHHHcCchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhc
Confidence            55566653  6788888888643  3447888998888888999999999999999876544 334555444444444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.39  E-value=1.3  Score=39.98  Aligned_cols=128  Identities=13%  Similarity=0.089  Sum_probs=87.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH-HHHHh
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL-KCLVG  205 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI-~~~~~  205 (275)
                      +-+.+.-..++|+.+-.++..+. .=..-|.+.|| +-.+++--|.+.+|+++|-.+... .+ -|-++|-+++ .+|.+
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~-~i-kn~~~Y~s~LArCyi~  440 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIES-YFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGP-EI-KNKILYKSMLARCYIR  440 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcCh-hh-hhhHHHHHHHHHHHHh
Confidence            33444444567777777777666 22344555554 556777789999999999887532 12 4677787766 56789


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSY-RTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty-~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +++++-|++++-.|...   .+..+. ..+.+-|.+++.+=-|-+.|++++...|..
T Consensus       441 nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  441 NKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             cCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            99999998887665432   233333 455567889999999999998888776653

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

Probab=92.25  E-value=1  Score=43.98  Aligned_cols=126  Identities=13%  Similarity=0.141  Sum_probs=80.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc--C--CC------------
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE--N--SL------------  189 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~--~--G~------------  189 (275)
                      .+|.+|+..|+.+.|..+..+-.++   +||...|..|.+..-..--+++|.++++....+  +  |.            
T Consensus       429 ~vi~CY~~lg~~~kaeei~~q~lek---~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~  505 (777)
T KOG1128|consen  429 PVILCYLLLGQHGKAEEINRQELEK---DPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEAD  505 (777)
T ss_pred             HHHHHHHHhcccchHHHHHHHHhcC---CCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHH
Confidence            6899999999999999888887664   688888888888777766777777777754221  0  00            


Q ss_pred             ----------CcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          190 ----------EPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       190 ----------~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                                ..-..||-.+=.+..+.+++..|...|..-.  ...| +...||.+-.+|.+.++-.+|...+.+..+
T Consensus       506 ~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcv--tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlK  581 (777)
T KOG1128|consen  506 KHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCV--TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALK  581 (777)
T ss_pred             HHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHh--hcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhh
Confidence                      0011233333333344556666666655433  2334 344677777777777777777777777554

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

Probab=92.09  E-value=14  Score=37.31  Aligned_cols=120  Identities=6%  Similarity=-0.009  Sum_probs=86.7

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVD  214 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~  214 (275)
                      |+.++|.+++.+..++  -..+...|-+|-..|-+.|+.+++...+-..- + =.+-|..-|..+-.-..+.|.+++|.-
T Consensus       153 g~~eeA~~i~~EvIkq--dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAA-H-L~p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQ--DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAA-H-LNPKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             CCHHHHHHHHHHHHHh--CccchhhHHHHHHHHHHcccHHHHHHHHHHHH-h-cCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            8888888888888775  34567788888888888888888877665443 3 134456777777777778888888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          215 CYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       215 l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      +|.+-.+.. ++|...+--=...|-+.|+...|.+-|.++....|
T Consensus       229 cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p  272 (895)
T KOG2076|consen  229 CYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP  272 (895)
T ss_pred             HHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC
Confidence            888776542 23444444445567778888888888888877777

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.99  E-value=5.5  Score=40.92  Aligned_cols=137  Identities=17%  Similarity=0.189  Sum_probs=82.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH-----------------hH
Q 023910          122 FDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFY-----------------LK  184 (275)
Q Consensus       122 ~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~-----------------M~  184 (275)
                      +.|..+|+...+.|.+++-.+.+...+++ .-.|.+-  +.||-+|++.+++.+-+++..-                 |-
T Consensus      1134 s~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~gpN~A~i~~vGdrcf~~~~y 1210 (1666)
T KOG0985|consen 1134 SNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFIAGPNVANIQQVGDRCFEEKMY 1210 (1666)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhcCCCchhHHHHhHHHhhhhhh
Confidence            35678899999999999998888777774 4555544  5788999999988777665421                 00


Q ss_pred             hc-CCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH----------HHHHH
Q 023910          185 TE-NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSG----------IIRQD  253 (275)
Q Consensus       185 ~~-~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~----------~l~~~  253 (275)
                      +. +=+--++..|.-|-.-+++.|++..|..--..      .-+..||.-+-.+|...+.+..|.          +=+++
T Consensus      1211 ~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRK------Ans~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLee 1284 (1666)
T KOG0985|consen 1211 EAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARK------ANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEE 1284 (1666)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhh------ccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHH
Confidence            00 00112333444444444555555444443222      124567777777777777666553          23455


Q ss_pred             HHHHhCCccchHHH
Q 023910          254 AFKYYGDLEFLEED  267 (275)
Q Consensus       254 m~~~~~~~~~~~e~  267 (275)
                      +++.|-+-|.++|+
T Consensus      1285 li~~Yq~rGyFeEl 1298 (1666)
T KOG0985|consen 1285 LIEYYQDRGYFEEL 1298 (1666)
T ss_pred             HHHHHHhcCcHHHH
Confidence            55666666666664

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.98  E-value=4.9  Score=37.56  Aligned_cols=124  Identities=17%  Similarity=0.105  Sum_probs=76.9

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK  207 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g  207 (275)
                      -+.+++.+|.++|.+.-++.--.|.    .+.-+-+|++|..+ +.+.-.....+.....|-.|-...|-+|+.  -+.+
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~~~s~~l~LF~~L~~--Y~~k   93 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQFGKSAYLPLFKALVA--YKQK   93 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhcCCchHHHHHHHHHH--HHhh
Confidence            3567888888888887664211111    45567788888865 466666666666554444444444443332  4677


Q ss_pred             ChhHHHHHHHHHHhC--CCC------------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          208 LRDLVVDCYELMKTV--GCE------------PDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       208 ~~~~A~~l~~~M~~~--g~~------------pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      ..++|.+.+..=++.  +-+            +|..-=+..++++...|++.++..+++.+.+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~l  158 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERL  158 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence            788888777655432  221            333344677788888888888888888877653

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=91.88  E-value=5.5  Score=31.79  Aligned_cols=93  Identities=11%  Similarity=0.049  Sum_probs=72.3

Q ss_pred             HHHHcCCCHHHHHHHHHHhHhcCCCCcCHH-HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 023910          165 QVFGTNGLFQHVEILYFYLKTENSLEPEIQ-GFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE  243 (275)
Q Consensus       165 ~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~-tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~  243 (275)
                      .-+...|++++|..+|+..-.   +.|... -|-.|=-+|-..|++++|+..|.....-.. -|...|-.+-.++...|+
T Consensus        43 ~~ly~~G~l~~A~~~f~~L~~---~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         43 MQLMEVKEFAGAARLFQLLTI---YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCC
Confidence            345688999999999998853   445554 445555555668999999999999876553 466677788888999999


Q ss_pred             HHHHHHHHHHHHHHhCCc
Q 023910          244 VAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       244 ~~~A~~l~~~m~~~~~~~  261 (275)
                      .+.|.+-|+..+..-+..
T Consensus       119 ~~~A~~aF~~Ai~~~~~~  136 (157)
T PRK15363        119 VCYAIKALKAVVRICGEV  136 (157)
T ss_pred             HHHHHHHHHHHHHHhccC
Confidence            999999999988776543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=91.75  E-value=6.7  Score=32.50  Aligned_cols=127  Identities=8%  Similarity=-0.030  Sum_probs=80.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc--CCCCcCHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE--NSLEPEIQGFNALL  200 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~--~G~~pd~~tyn~lI  200 (275)
                      +-..|-+++.+.|+..+|...|++-.. .-+--|....-.+-++...-+++-.|..+++.+-+-  .+-.||..  -.+-
T Consensus        91 nr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~--Ll~a  167 (251)
T COG4700          91 NRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH--LLFA  167 (251)
T ss_pred             HHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch--HHHH
Confidence            445788888888888888888888876 234556666666777777778888888888876531  13445543  2344


Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          201 KCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      ..|...|+..+|..-|+...+.  -|+...-.---..+.+.|+.++|..=+.+.
T Consensus       168 R~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         168 RTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            5677788888888888877643  233222222223355677666665444433

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

Probab=91.70  E-value=3  Score=39.80  Aligned_cols=118  Identities=11%  Similarity=0.064  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHHhCCChhHHHHH
Q 023910          137 CLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLVGFKLRDLVVDC  215 (275)
Q Consensus       137 ~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~~~g~~~~A~~l  215 (275)
                      +....++|-++-...+.++|.-.++.|=-.|--.|.+++|++-|+....   ++| |..+||-|=..++-..+-++|++-
T Consensus       410 l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsA  486 (579)
T KOG1125|consen  410 LAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISA  486 (579)
T ss_pred             HHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHH
Confidence            4556678888877667667777778888888889999999999999874   445 568899999999999999999999


Q ss_pred             HHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          216 YELMKTVGCEPDR--SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       216 ~~~M~~~g~~pd~--~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |.+-.+  ++|+-  +=||.-|. |...|.+++|.+.|=+.+..-.+
T Consensus       487 Y~rALq--LqP~yVR~RyNlgIS-~mNlG~ykEA~~hlL~AL~mq~k  530 (579)
T KOG1125|consen  487 YNRALQ--LQPGYVRVRYNLGIS-CMNLGAYKEAVKHLLEALSMQRK  530 (579)
T ss_pred             HHHHHh--cCCCeeeeehhhhhh-hhhhhhHHHHHHHHHHHHHhhhc
Confidence            998764  44543  35666665 88999999999988887655443

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

Probab=91.55  E-value=13  Score=36.32  Aligned_cols=127  Identities=9%  Similarity=0.030  Sum_probs=68.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHH-HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVS-LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~-tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      -++..+-+.|+++.|....+....   -.|+.+ .|-+=-+.+.-+|++++|..++++-.+-  -.||...=.--.+-..
T Consensus       376 ~laqh~D~~g~~~~A~~yId~AId---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el--D~aDR~INsKcAKYmL  450 (700)
T KOG1156|consen  376 FLAQHYDKLGDYEVALEYIDLAID---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL--DTADRAINSKCAKYML  450 (700)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHhc---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc--cchhHHHHHHHHHHHH
Confidence            445555566777777777666644   244432 2222225566667777777777666431  2445544434555555


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHH----------HHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVI----------NGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li----------~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ++.+.++|..+.....+.|.  +...+-+-+          .+|.|.|++..|..=|.+..+.|.
T Consensus       451 rAn~i~eA~~~~skFTr~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~  513 (700)
T KOG1156|consen  451 RANEIEEAEEVLSKFTREGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYK  513 (700)
T ss_pred             HccccHHHHHHHHHhhhccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            66777777776666665554  322222111          235555666666665555555443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=91.50  E-value=1.6  Score=40.67  Aligned_cols=97  Identities=11%  Similarity=0.047  Sum_probs=71.2

Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH----HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHH
Q 023910          154 KPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI----QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRS  229 (275)
Q Consensus       154 ~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~----~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~  229 (275)
                      ..+...|+.+-.+|.+.|++++|+..|++-..   +.||.    .+|..+-.+|.+.|+.++|...++...+.+  +.  
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels--n~--  144 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY--NL--  144 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc--ch--
Confidence            34689999999999999999999999999653   56775    469999999999999999999999988752  11  


Q ss_pred             HHHHHHH--HHHhcCCHHHHHHHHHHHHHH
Q 023910          230 SYRTVIN--GLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       230 ty~~li~--~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      -|..+.+  .+....+..+..+++++..+.
T Consensus       145 ~f~~i~~DpdL~plR~~pef~eLlee~rk~  174 (453)
T PLN03098        145 KFSTILNDPDLAPFRASPEFKELQEEARKG  174 (453)
T ss_pred             hHHHHHhCcchhhhcccHHHHHHHHHHHHh
Confidence            2322221  122233445677777776543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.46  E-value=8.6  Score=33.17  Aligned_cols=65  Identities=8%  Similarity=-0.008  Sum_probs=35.7

Q ss_pred             HHhCCChhHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHH
Q 023910          203 LVGFKLRDLVVDCYELMKTV--GCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEED  267 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~--g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~  267 (275)
                      |.+.|.+..|..-+++|.+.  .-.-.....-.|..+|-+.|..++|.+.-+-+...||+..+.++.
T Consensus       177 Y~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~~~~~~  243 (254)
T COG4105         177 YLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQWYKDA  243 (254)
T ss_pred             HHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCcchhhh
Confidence            45566666666666666643  111122233445566666666666666666666666666554443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.23  E-value=7  Score=37.00  Aligned_cols=137  Identities=11%  Similarity=-0.023  Sum_probs=96.5

Q ss_pred             hhcHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-----HHHHHHHHHHHHc----CCCHHHHHHHHHHhHhcCC
Q 023910          118 RLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-----VSLYADMIQVFGT----NGLFQHVEILYFYLKTENS  188 (275)
Q Consensus       118 ~l~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-----~~tyn~Li~~~~~----~g~~~~A~~lf~~M~~~~G  188 (275)
                      .+.++.+..+++..+=.|+-+.+++.+.+-.+..|+.-.     ...|+..+..++-    ....+.|.++++.+..+  
T Consensus       185 SlLPp~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--  262 (468)
T PF10300_consen  185 SLLPPKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--  262 (468)
T ss_pred             HhCCHHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--
Confidence            355667778999999999999999999987664333322     3556666665554    45678999999999754  


Q ss_pred             CCcCHHHHHHHHHH-HHhCCChhHHHHHHHHHHhCC--CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          189 LEPEIQGFNALLKC-LVGFKLRDLVVDCYELMKTVG--CE-PDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       189 ~~pd~~tyn~lI~~-~~~~g~~~~A~~l~~~M~~~g--~~-pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                       -||...|.-.-.= +...|++++|.+.|+...+..  .+ .....|--+.-.+.-.+++++|.+.|..+.+.
T Consensus       263 -yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~  334 (468)
T PF10300_consen  263 -YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKE  334 (468)
T ss_pred             -CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhc
Confidence             5888877655443 345799999999999755311  11 12233333444477789999999999997753

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.

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

Probab=91.11  E-value=4.8  Score=37.95  Aligned_cols=129  Identities=11%  Similarity=-0.026  Sum_probs=92.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~  204 (275)
                      -+-..|....+.++..+.|++..+-..-  |.-+|-.=-..+.-.+++++|..=|++-.+   +.| ++..|-.+--+..
T Consensus       365 ~~a~~y~d~~~~~~~~~~F~~A~~ldp~--n~dvYyHRgQm~flL~q~e~A~aDF~Kai~---L~pe~~~~~iQl~~a~Y  439 (606)
T KOG0547|consen  365 KRAAAYADENQSEKMWKDFNKAEDLDPE--NPDVYYHRGQMRFLLQQYEEAIADFQKAIS---LDPENAYAYIQLCCALY  439 (606)
T ss_pred             HHHHHHhhhhccHHHHHHHHHHHhcCCC--CCchhHhHHHHHHHHHHHHHHHHHHHHHhh---cChhhhHHHHHHHHHHH
Confidence            4445666777888888888887763222  344455544555556678888888887653   333 4567777777777


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |.+.+++++..|++-+.. ++--...||..-..+...+++++|.+.++..+++=|.
T Consensus       440 r~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~  494 (606)
T KOG0547|consen  440 RQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPR  494 (606)
T ss_pred             HHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence            888999999999998743 4445568888888899999999999999988876554

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

Probab=90.73  E-value=12  Score=36.53  Aligned_cols=110  Identities=12%  Similarity=0.059  Sum_probs=77.7

Q ss_pred             CCCHHHHHH--HHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHH-HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHH
Q 023910          154 KPQVSLYAD--MIQVFGTNGLFQHVEILYFYLKTENSLEPEIQ-GFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSS  230 (275)
Q Consensus       154 ~p~~~tyn~--Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~-tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~t  230 (275)
                      .|....|+.  ++..|-+.|+++.|+...+.--   +..|+.+ .|-+=-..+.++|++++|..++++-.+-. .||...
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~I  441 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAI  441 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHH
Confidence            566666654  6788899999999999998875   3567654 33344477899999999999999877543 345444


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHh-CCccchHHH
Q 023910          231 YRTVINGLEAMEEVAFSGIIRQDAFKYY-GDLEFLEED  267 (275)
Q Consensus       231 y~~li~~~~~~g~~~~A~~l~~~m~~~~-~~~~~~~e~  267 (275)
                      -.-=.+-..++++.++|.++.....+.- +.++.+-||
T Consensus       442 NsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~m  479 (700)
T KOG1156|consen  442 NSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEM  479 (700)
T ss_pred             HHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHh
Confidence            3344455668999999999887755432 444555554

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

Probab=90.66  E-value=17  Score=35.67  Aligned_cols=133  Identities=7%  Similarity=-0.106  Sum_probs=86.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc-------------------
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE-------------------  186 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~-------------------  186 (275)
                      +-+.-.....+++.|..+|.+.+..   .|+...|.-=++.--..++.++|.+++++-.+.                   
T Consensus       623 aavKle~en~e~eraR~llakar~~---sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~  699 (913)
T KOG0495|consen  623 AAVKLEFENDELERARDLLAKARSI---SGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQME  699 (913)
T ss_pred             HHHHHhhccccHHHHHHHHHHHhcc---CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHH
Confidence            3444455566777777777777663   456666665555555566777777766653221                   


Q ss_pred             -------------CCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          187 -------------NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       187 -------------~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                                   +-|+-.+-.|-.|-+.=-+.|.+-+|..+|+.-+-.+ +-|...|-..|..=.|.|..+.|..+..+
T Consensus       700 ~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmak  778 (913)
T KOG0495|consen  700 NIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAK  778 (913)
T ss_pred             HHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHH
Confidence                         1122233444444444456677777888887765332 23667888999999999999999999999


Q ss_pred             HHHHhCCcc
Q 023910          254 AFKYYGDLE  262 (275)
Q Consensus       254 m~~~~~~~~  262 (275)
                      ....+|+-+
T Consensus       779 ALQecp~sg  787 (913)
T KOG0495|consen  779 ALQECPSSG  787 (913)
T ss_pred             HHHhCCccc
Confidence            888888754

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

Probab=90.37  E-value=5.3  Score=38.41  Aligned_cols=122  Identities=12%  Similarity=-0.044  Sum_probs=75.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      ++++=|+.+.+.|++++|.+.-+.....  .+-|...+.+=+=++.+.+++++|+.+.+.=.   +..-+.+-+  .=.+
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~--~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~---~~~~~~~~~--fEKA   86 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSI--VPDDEDAIRCKVVALIQLDKYEDALKLIKKNG---ALLVINSFF--FEKA   86 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhc--CCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcc---hhhhcchhh--HHHH
Confidence            3445566677788888888888888773  34455566666667777888888885543321   111111111  2455


Q ss_pred             HH--hCCChhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          203 LV--GFKLRDLVVDCYELMKTVGCEPDRS-SYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       203 ~~--~~g~~~~A~~l~~~M~~~g~~pd~~-ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      ||  +.++.|+|...++     |+.++.. +-..=-+.|.|.|++++|.++++++.+
T Consensus        87 Yc~Yrlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~k  138 (652)
T KOG2376|consen   87 YCEYRLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAK  138 (652)
T ss_pred             HHHHHcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            55  4778888888777     4444332 444444557788888888888888753

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=90.25  E-value=0.78  Score=27.86  Aligned_cols=31  Identities=6%  Similarity=0.076  Sum_probs=26.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          230 SYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       230 ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++..+-..|.+.|++++|.+++++..+..|+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~   33 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPD   33 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            5677888899999999999999999988886

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

Probab=89.83  E-value=2.3  Score=42.52  Aligned_cols=87  Identities=14%  Similarity=0.111  Sum_probs=72.6

Q ss_pred             cCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH--hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 023910          169 TNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV--GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAF  246 (275)
Q Consensus       169 ~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~--~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~  246 (275)
                      ..+++.+|........++.   ||. .|..++.|+.  |.|+.++|..+++.....+.. |..|..++-..|-+.|++|+
T Consensus        21 d~~qfkkal~~~~kllkk~---Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH---PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC---CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            4678899999998887653   443 3556666654  689999999999998865555 89999999999999999999


Q ss_pred             HHHHHHHHHHHhCC
Q 023910          247 SGIIRQDAFKYYGD  260 (275)
Q Consensus       247 A~~l~~~m~~~~~~  260 (275)
                      |..++++....||+
T Consensus        96 ~~~~Ye~~~~~~P~  109 (932)
T KOG2053|consen   96 AVHLYERANQKYPS  109 (932)
T ss_pred             HHHHHHHHHhhCCc
Confidence            99999999999998

>PRK04841 transcriptional regulator MalT; Provisional

Probab=89.79  E-value=12  Score=38.19  Aligned_cols=134  Identities=12%  Similarity=-0.005  Sum_probs=89.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHc---CC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCC--c-CHHHHH
Q 023910          128 LRELLRQNHCLLALKVFEDIRKE---QW-YKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLE--P-EIQGFN  197 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~---~g-~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~--p-d~~tyn  197 (275)
                      -..+...|++++|...+++....   .| ..+-..+++.+-..+...|++++|...+++...   +.|..  | ....+.
T Consensus       498 g~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  577 (903)
T PRK04841        498 GEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLR  577 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHH
Confidence            33456689999999999887642   11 111134555666778889999999998887543   11221  1 234455


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhC--CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKTV--GCEP--DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~~--g~~p--d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+-..+...|++++|...+.+....  ...+  ....+..+...+...|+.++|.+.+++....+...
T Consensus       578 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~  645 (903)
T PRK04841        578 IRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNG  645 (903)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcc
Confidence            5556677789999999998887531  1222  23345556667888999999999999987765543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=89.26  E-value=5.2  Score=30.71  Aligned_cols=86  Identities=6%  Similarity=0.001  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGL  238 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  238 (275)
                      ....+|..+.+.+..+....+++.+... | ..+...+|.+|..|++.. ..+..+.+..      .++.+....++..|
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~-~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c   79 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKL-N-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLC   79 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHcc-C-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHH
Confidence            3456888888889999999999998765 4 378889999999999874 3455555552      12223333455555


Q ss_pred             HhcCCHHHHHHHHHH
Q 023910          239 EAMEEVAFSGIIRQD  253 (275)
Q Consensus       239 ~~~g~~~~A~~l~~~  253 (275)
                      .+.+.++++.-++..
T Consensus        80 ~~~~l~~~~~~l~~k   94 (140)
T smart00299       80 EKAKLYEEAVELYKK   94 (140)
T ss_pred             HHcCcHHHHHHHHHh
Confidence            555555555555544

>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=88.94  E-value=15  Score=32.05  Aligned_cols=125  Identities=10%  Similarity=0.097  Sum_probs=58.6

Q ss_pred             hcCCHHHHHHHHHHhHHcC-CCCCC------HHHHHHHHHHHHcCCCHHHHHHHHHHhHh-------cCCCCcCH-----
Q 023910          133 RQNHCLLALKVFEDIRKEQ-WYKPQ------VSLYADMIQVFGTNGLFQHVEILYFYLKT-------ENSLEPEI-----  193 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~-g~~p~------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~-------~~G~~pd~-----  193 (275)
                      +.|+.+.|..++.+.+... ...|+      .+.||.=.+.+.+..++++|...+++-.+       -....|+.     
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~   84 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRL   84 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHH
Confidence            4566666666666654421 22333      34555555555555344444333332110       00122332     


Q ss_pred             HHHHHHHHHHHhCCCh---hHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          194 QGFNALLKCLVGFKLR---DLVVDCYELMK-TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~---~~A~~l~~~M~-~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      .+...++.+|...+..   ++|.++++.+. +.|-+|.  +|-.=++.+.+.++.+.+.+.+.+|+...+
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~--~~~L~l~il~~~~~~~~~~~~L~~mi~~~~  152 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPE--VFLLKLEILLKSFDEEEYEEILMRMIRSVD  152 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcH--HHHHHHHHHhccCChhHHHHHHHHHHHhcc
Confidence            4555555566555543   33444555554 3333333  333334444446666666666666665543

It is also involved in sporulation [].

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

Probab=88.79  E-value=31  Score=35.47  Aligned_cols=89  Identities=4%  Similarity=0.024  Sum_probs=59.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+++......++.....+.+.|..   +.-+...+-.|-.+|-+.|+.++|..+|+++.+-.  .-|....|.+-..|..
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~---~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n~~aLNn~AY~~ae  162 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILL---YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RDNPEIVKKLATSYEE  162 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHh---hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHH
Confidence            555555555666555555556655   22345567777788888888888888888887531  4466777777777777


Q ss_pred             CCChhHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMK  220 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~  220 (275)
                      . ++++|.+++..-.
T Consensus       163 ~-dL~KA~~m~~KAV  176 (906)
T PRK14720        163 E-DKEKAITYLKKAI  176 (906)
T ss_pred             h-hHHHHHHHHHHHH
Confidence            7 7888877766554

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

Probab=88.67  E-value=9.8  Score=35.29  Aligned_cols=54  Identities=9%  Similarity=0.156  Sum_probs=39.3

Q ss_pred             hCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++++|.=-|..-.  .+.| +...|.-|+.+|...|++.+|.-+-+..++.+|.
T Consensus       346 ~~~R~~~A~IaFR~Aq--~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~  400 (564)
T KOG1174|consen  346 ALERHTQAVIAFRTAQ--MLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQN  400 (564)
T ss_pred             hccchHHHHHHHHHHH--hcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhc
Confidence            3445555555555433  2333 6779999999999999999999988888877775

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

Probab=88.64  E-value=6.9  Score=35.07  Aligned_cols=100  Identities=15%  Similarity=0.013  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ..+.+..|.-+...|+...|.++-.+.+     .||-.-|-..|.+|+..++|++-..+-..    .-.|  +-|--.++
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk-----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----kKsP--IGyepFv~  245 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK-----VPDKRFWWLKIKALAENKDWDELEKFAKS----KKSP--IGYEPFVE  245 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC-----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----CCCC--CChHHHHH
Confidence            4466777888888999999988766552     47999999999999999999988776443    2233  78999999


Q ss_pred             HHHhcCCHHHHHHHHHHHH-----HHhCCccchHHH
Q 023910          237 GLEAMEEVAFSGIIRQDAF-----KYYGDLEFLEED  267 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~-----~~~~~~~~~~e~  267 (275)
                      .|.+.|...+|..++..+.     +.|-+++...|.
T Consensus       246 ~~~~~~~~~eA~~yI~k~~~~~rv~~y~~~~~~~~A  281 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPKIPDEERVEMYLKCGDYKEA  281 (319)
T ss_pred             HHHHCCCHHHHHHHHHhCChHHHHHHHHHCCCHHHH
Confidence            9999999999999987732     345455555544

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

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.24  E-value=5  Score=35.34  Aligned_cols=100  Identities=12%  Similarity=0.286  Sum_probs=59.5

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-HHHHHHHHHHHHhC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-IQGFNALLKCLVGF  206 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-~~tyn~lI~~~~~~  206 (275)
                      +-+.+.+++.+|+..|.+..+   +.| |.+-|.-=--+|++.|.++.|++=.+.-..   +-|+ ..+|..|=.+|.-.
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~  162 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLAL  162 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHcc
Confidence            344456677777777777665   233 455555556667777777777665544331   2222 35666777777777


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          207 KLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       207 g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      |++++|.+-|..-.  .+.|+..+|-.=|+
T Consensus       163 gk~~~A~~aykKaL--eldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  163 GKYEEAIEAYKKAL--ELDPDNESYKSNLK  190 (304)
T ss_pred             CcHHHHHHHHHhhh--ccCCCcHHHHHHHH
Confidence            77777777766533  45666666654443

>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=88.23  E-value=11  Score=30.53  Aligned_cols=98  Identities=13%  Similarity=0.052  Sum_probs=66.5

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc--CCCCcCHHHHH
Q 023910          122 FDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTE--NSLEPEIQGFN  197 (275)
Q Consensus       122 ~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~--~G~~pd~~tyn  197 (275)
                      ..+..+-+-|++.|+.+.|++.|.++++. ...|.  ...+-.+|....-.|++..+.....+.+.-  .|-.++...--
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            35568889999999999999999999884 23332  455667788888889998888887776531  12233333222


Q ss_pred             HHHHHH--HhCCChhHHHHHHHHHH
Q 023910          198 ALLKCL--VGFKLRDLVVDCYELMK  220 (275)
Q Consensus       198 ~lI~~~--~~~g~~~~A~~l~~~M~  220 (275)
                      .+..|+  ...|++.+|-++|-+..
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccC
Confidence            333332  24678999988887765

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=88.01  E-value=23  Score=36.16  Aligned_cols=133  Identities=8%  Similarity=-0.082  Sum_probs=79.8

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHH-----HHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC---HHHHHHHHH
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLY-----ADMIQVFGTNGLFQHVEILYFYLKTENSLEPE---IQGFNALLK  201 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~ty-----n~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd---~~tyn~lI~  201 (275)
                      .+...|+.+.|.+.+++...-..-......+     ...+..+...|+.+.|..++...... .....   ...+..+-.
T Consensus       621 ~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~-~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        621 ISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKP-EFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCC-CCccchhHHHHHHHHHH
Confidence            4445677777777776664310000000111     11223444567777777776665321 11111   111345666


Q ss_pred             HHHhCCChhHHHHHHHHHHh----CCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccc
Q 023910          202 CLVGFKLRDLVVDCYELMKT----VGCEPDR-SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEF  263 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~----~g~~pd~-~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~  263 (275)
                      ++...|+.++|..++++...    .|..++. .+...+-.++.+.|+.++|.+.+.+..+.....++
T Consensus       700 ~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~~~g~  766 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLANRTGF  766 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCccch
Confidence            77889999999999988763    3444332 35666777788999999999999999988776554

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=87.97  E-value=17  Score=32.02  Aligned_cols=119  Identities=10%  Similarity=0.049  Sum_probs=87.4

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHc-CC-CHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT-NG-LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLV  212 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~-~g-~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A  212 (275)
                      ..+-+|+++|+...-+..+--|..+-.-|++.... .+ ....-.++.+-+....|-.++..+-.++|..++..+++.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            44567777777332211245567777777776665 22 33444455555655667889999999999999999999999


Q ss_pred             HHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          213 VDCYELMKTV-GCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       213 ~~l~~~M~~~-g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      +++++.-... +..-|...|...|+.....|+..-...+.++
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            9999987743 6677889999999999999999877776655

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=87.91  E-value=3.8  Score=33.58  Aligned_cols=59  Identities=15%  Similarity=0.099  Sum_probs=39.3

Q ss_pred             hCCChhHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccc
Q 023910          205 GFKLRDLVVDCYELMK-TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEF  263 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~-~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~  263 (275)
                      ...+.+......+... -....|+..+|..++.++...|+.++|.++.+++...||..++
T Consensus       120 ~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~lyP~~~~  179 (193)
T PF11846_consen  120 LPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARRLYPADEF  179 (193)
T ss_pred             CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcHHH
Confidence            4444444444444433 2345678888888888888888888888888888888884433

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=87.74  E-value=1.6  Score=25.30  Aligned_cols=26  Identities=4%  Similarity=-0.124  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          230 SYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       230 ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      +|+.|-+.|.+.|++++|.+++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45667777777777777777777754

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.34  E-value=20  Score=31.74  Aligned_cols=118  Identities=19%  Similarity=0.237  Sum_probs=77.9

Q ss_pred             HHHHHHHHHHhHHcCCCCCCHHHHHHH--HHHHHcCCC----HHHHHHHHHHhHhcCCC--CcCHHHHHHHHHHHHhCCC
Q 023910          137 CLLALKVFEDIRKEQWYKPQVSLYADM--IQVFGTNGL----FQHVEILYFYLKTENSL--EPEIQGFNALLKCLVGFKL  208 (275)
Q Consensus       137 ~~~A~~lf~~m~~~~g~~p~~~tyn~L--i~~~~~~g~----~~~A~~lf~~M~~~~G~--~pd~~tyn~lI~~~~~~g~  208 (275)
                      +++...+++.|.+. |++-+..+|-+-  |.......+    ..+|..+|+.|++...+  .++.+.+.+|+..  ...+
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            45667889999985 899998888773  333322333    46899999999976432  4778899998876  3343


Q ss_pred             ----hhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCC---HHHHHHHHHHHHHH
Q 023910          209 ----RDLVVDCYELMKTVGCEPDRS-SYRTVINGLEAMEE---VAFSGIIRQDAFKY  257 (275)
Q Consensus       209 ----~~~A~~l~~~M~~~g~~pd~~-ty~~li~~~~~~g~---~~~A~~l~~~m~~~  257 (275)
                          .+++..+|+.+.+.|+..+.. -+.+-|=+++....   ..++.++++.+.+.
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~  211 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN  211 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc
Confidence                466778889999989876443 33444444443332   33556666666554

>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=87.16  E-value=14  Score=29.78  Aligned_cols=97  Identities=18%  Similarity=0.168  Sum_probs=53.5

Q ss_pred             HHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhC-
Q 023910          144 FEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTV-  222 (275)
Q Consensus       144 f~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-  222 (275)
                      ...+.+ .|+.|+...|.-||+.+.+.|++.....++     .+++-||.......+-.+..  ....+.++=-+|... 
T Consensus        17 irSl~~-~~i~~~~~L~~lli~lLi~~~~~~~L~qll-----q~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkRL   88 (167)
T PF07035_consen   17 IRSLNQ-HNIPVQHELYELLIDLLIRNGQFSQLHQLL-----QYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKRL   88 (167)
T ss_pred             HHHHHH-cCCCCCHHHHHHHHHHHHHcCCHHHHHHHH-----hhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHHh
Confidence            344444 467777777777777777777766554444     23466666555555433332  223344443333311 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          223 GCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       223 g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      |     ..|..+++.+...|++-+|..+.+.
T Consensus        89 ~-----~~~~~iievLL~~g~vl~ALr~ar~  114 (167)
T PF07035_consen   89 G-----TAYEEIIEVLLSKGQVLEALRYARQ  114 (167)
T ss_pred             h-----hhHHHHHHHHHhCCCHHHHHHHHHH
Confidence            1     1345566666666666666666655

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.15  E-value=11  Score=32.80  Aligned_cols=95  Identities=13%  Similarity=0.146  Sum_probs=71.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcC---CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH-HHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQ---WYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI-QGFNAL  199 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~---g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~-~tyn~l  199 (275)
                      |..-++. .+.|++..|...|....+..   -+.||..=|  |-..+...|++++|..+|..+.++++-.|-. .+.--|
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            3334443 37899999999999998852   123334333  7899999999999999999998765444444 556666


Q ss_pred             HHHHHhCCChhHHHHHHHHHHh
Q 023910          200 LKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       200 I~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      -....+.|+.++|..+|++..+
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHH
Confidence            6778889999999999999874

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=86.85  E-value=1.2  Score=25.75  Aligned_cols=23  Identities=9%  Similarity=0.241  Sum_probs=12.5

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHH
Q 023910          160 YADMIQVFGTNGLFQHVEILYFY  182 (275)
Q Consensus       160 yn~Li~~~~~~g~~~~A~~lf~~  182 (275)
                      |+.|-+.|.+.|++++|+++|++
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            45555555555555555555555

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

Probab=86.66  E-value=4.6  Score=39.70  Aligned_cols=114  Identities=12%  Similarity=0.074  Sum_probs=83.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-+.+...|-...|..+|+....          |--.|.+|+..|+.++|..+...-.+   -+||...|..+-+....
T Consensus       403 ~laell~slGitksAl~I~Erlem----------w~~vi~CY~~lg~~~kaeei~~q~le---k~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFERLEM----------WDPVILCYLLLGQHGKAEEINRQELE---KDPDPRLYCLLGDVLHD  469 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHhHHH----------HHHHHHHHHHhcccchHHHHHHHHhc---CCCcchhHHHhhhhccC
Confidence            456667778999999999998755          67788899999999999888776643   37899999999998888


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ..-+++|.++++.-...    -...++-+   ..+.++++++.+.|+.-.+.+|
T Consensus       470 ~s~yEkawElsn~~sar----A~r~~~~~---~~~~~~fs~~~~hle~sl~~np  516 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR----AQRSLALL---ILSNKDFSEADKHLERSLEINP  516 (777)
T ss_pred             hHHHHHHHHHhhhhhHH----HHHhhccc---cccchhHHHHHHHHHHHhhcCc
Confidence            88899999998875422    00111111   2236777777777777555443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.59  E-value=0.94  Score=25.06  Aligned_cols=27  Identities=15%  Similarity=0.004  Sum_probs=22.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          234 VINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       234 li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +-.++.+.|+.++|.+.|+++++.||+
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            445667789999999999999999886

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

Probab=86.57  E-value=6.3  Score=37.69  Aligned_cols=127  Identities=15%  Similarity=0.139  Sum_probs=93.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHH-----------HHHHcCCCHHHHHHHHHHhHhcCCCCcCHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMI-----------QVFGTNGLFQHVEILYFYLKTENSLEPEIQ  194 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li-----------~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~  194 (275)
                      +|--.|...|.-..|++.++...+.+   |-   |-.+.           +.+.....+.+..++|-++-.+.+-++|..
T Consensus       358 aLAVSytNeg~q~~Al~~L~~Wi~~~---p~---y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~Dpd  431 (579)
T KOG1125|consen  358 ALAVSYTNEGLQNQALKMLDKWIRNK---PK---YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPD  431 (579)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHhC---cc---chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChh
Confidence            44445666777778888887765521   11   11111           222333445677888888877667556777


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .++.|=-.|.-.|++++|...|+....  ++| |...||-|=-.++...+-++|..-+++..++.|.
T Consensus       432 vQ~~LGVLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~  496 (579)
T KOG1125|consen  432 VQSGLGVLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPG  496 (579)
T ss_pred             HHhhhHHHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCC
Confidence            777777778889999999999998763  566 6778999999999999999999999999998774

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.55  E-value=2.2  Score=24.84  Aligned_cols=32  Identities=13%  Similarity=0.073  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          229 SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       229 ~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+++.|-..|...|++++|.+++++..+.+-+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~   34 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEIRER   34 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHHHHH
Confidence            46777777888888888888888877665443

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=86.36  E-value=14  Score=29.01  Aligned_cols=100  Identities=13%  Similarity=0.070  Sum_probs=72.3

Q ss_pred             HhHHcCCCCCCH--HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCC--C--CcCHHHHHHHHHHHHhCCC-hhHHHHHHHH
Q 023910          146 DIRKEQWYKPQV--SLYADMIQVFGTNGLFQHVEILYFYLKTENS--L--EPEIQGFNALLKCLVGFKL-RDLVVDCYEL  218 (275)
Q Consensus       146 ~m~~~~g~~p~~--~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G--~--~pd~~tyn~lI~~~~~~g~-~~~A~~l~~~  218 (275)
                      -|+++ +..+++  ...|++++-...-+...-.+.+++.+..-.+  +  .-|-.+|++++++.+.... --.+..+|+-
T Consensus        27 y~~~~-~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~  105 (145)
T PF13762_consen   27 YMQEE-NASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNF  105 (145)
T ss_pred             Hhhhc-ccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHH
Confidence            34443 555554  5578888888888888888888887742100  0  2344579999999977766 5667889999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 023910          219 MKTVGCEPDRSSYRTVINGLEAMEEVAF  246 (275)
Q Consensus       219 M~~~g~~pd~~ty~~li~~~~~~g~~~~  246 (275)
                      |++.+.+++..-|..||.++.+....+.
T Consensus       106 Lk~~~~~~t~~dy~~li~~~l~g~~~~~  133 (145)
T PF13762_consen  106 LKKNDIEFTPSDYSCLIKAALRGYFHDS  133 (145)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHcCCCCcc
Confidence            9988889999999999998887654443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=86.34  E-value=16  Score=32.28  Aligned_cols=88  Identities=11%  Similarity=-0.054  Sum_probs=40.6

Q ss_pred             cCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHH
Q 023910          169 TNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFS  247 (275)
Q Consensus       169 ~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A  247 (275)
                      +.+++++|+..|.+-..-  .+-|.+-|..=-.+|++.|..+.|++=.+.-..  +-| -..+|..|=-+|...|++++|
T Consensus        93 ~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   93 KNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcHHHH
Confidence            455555555555554321  122334444444455555555555544333221  112 123455555555555555555


Q ss_pred             HHHHHHHHHHhCC
Q 023910          248 GIIRQDAFKYYGD  260 (275)
Q Consensus       248 ~~l~~~m~~~~~~  260 (275)
                      .+.|++.++++|.
T Consensus       169 ~~aykKaLeldP~  181 (304)
T KOG0553|consen  169 IEAYKKALELDPD  181 (304)
T ss_pred             HHHHHhhhccCCC
Confidence            5555555555554

>PLN02789 farnesyltranstransferase

Probab=86.22  E-value=25  Score=31.55  Aligned_cols=64  Identities=13%  Similarity=-0.025  Sum_probs=32.8

Q ss_pred             HHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          138 LLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       138 ~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      +.+..+++.+.+.  -.-|..+|+..--.+.+.|++++|++.++++.+.  -.-|...|+..-..+.+
T Consensus       125 ~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~  188 (320)
T PLN02789        125 NKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITR  188 (320)
T ss_pred             HHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHh
Confidence            4455555555542  1235556666665666666666666666666532  12344445544444433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.99  E-value=25  Score=31.38  Aligned_cols=85  Identities=2%  Similarity=-0.169  Sum_probs=42.4

Q ss_pred             HHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 023910          167 FGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAF  246 (275)
Q Consensus       167 ~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~  246 (275)
                      +.+.|+.+.|.+-+-.|.-+.....|.+|...+--.= ..|++.+..+=+.-+.+.+-. -..||..++-.||+..-++.
T Consensus       251 eyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P~ETFANlLllyCKNeyf~l  328 (459)
T KOG4340|consen  251 EYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-PPETFANLLLLYCKNEYFDL  328 (459)
T ss_pred             hhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-ChHHHHHHHHHHhhhHHHhH
Confidence            4566777777777777753333445555554432111 123333333333333322111 22366666666666666666


Q ss_pred             HHHHHHH
Q 023910          247 SGIIRQD  253 (275)
Q Consensus       247 A~~l~~~  253 (275)
                      |-+++.+
T Consensus       329 AADvLAE  335 (459)
T KOG4340|consen  329 AADVLAE  335 (459)
T ss_pred             HHHHHhh
Confidence            6665554

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

Probab=85.86  E-value=27  Score=34.31  Aligned_cols=144  Identities=8%  Similarity=0.027  Sum_probs=88.4

Q ss_pred             hHHHHHHHHhhhcHH---hHHH-HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHh
Q 023910          108 LDHVFNSKFRRLLKF---DMIA-VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYL  183 (275)
Q Consensus       108 ~~~~~~~~~~~l~~~---~~~~-li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M  183 (275)
                      ...+|++.+.++-..   .... .|.-.-..+-++.+..++....+-     +...-+--|..+++.+++++|-+.+...
T Consensus       121 tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~-----~P~~~eeyie~L~~~d~~~eaa~~la~v  195 (835)
T KOG2047|consen  121 TRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV-----APEAREEYIEYLAKSDRLDEAAQRLATV  195 (835)
T ss_pred             HHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc-----CHHHHHHHHHHHHhccchHHHHHHHHHh
Confidence            344555555444322   1222 333333456677788888877662     3444677778888888888888877766


Q ss_pred             Hhc-----CCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-hCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          184 KTE-----NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-TVGCEPDRS--SYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       184 ~~~-----~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-~~g~~pd~~--ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      ..+     .--+-+-..|+-+-+..+++-+.-.-.++=.-|+ -.+.-||..  .|++|.+-|.+.|.++.|.+++++.+
T Consensus       196 ln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai  275 (835)
T KOG2047|consen  196 LNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAI  275 (835)
T ss_pred             cCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            432     1135566677777666666554333222222222 123346654  67899999999999999999999955


Q ss_pred             H
Q 023910          256 K  256 (275)
Q Consensus       256 ~  256 (275)
                      .
T Consensus       276 ~  276 (835)
T KOG2047|consen  276 Q  276 (835)
T ss_pred             H
Confidence            3

>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=85.77  E-value=0.28  Score=38.03  Aligned_cols=86  Identities=12%  Similarity=0.104  Sum_probs=58.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+|+.+.+.+.+.....+++.+... +...+....|.|+..|++.+..++.+++++..  . .     .-...++..|-+
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~--~-~-----yd~~~~~~~c~~   82 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLEFLKTS--N-N-----YDLDKALRLCEK   82 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS--S-S-----S-CTHHHHHHHT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHHHcccc--c-c-----cCHHHHHHHHHh
Confidence            5677777777888888888888764 44556777888888888887777777777622  1 1     333456777777


Q ss_pred             CCChhHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMK  220 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~  220 (275)
                      .|.+++|.-++..+.
T Consensus        83 ~~l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   83 HGLYEEAVYLYSKLG   97 (143)
T ss_dssp             TTSHHHHHHHHHCCT
T ss_pred             cchHHHHHHHHHHcc
Confidence            787777777777654

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=85.59  E-value=3.2  Score=23.21  Aligned_cols=32  Identities=16%  Similarity=0.052  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          229 SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       229 ~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+|..+-..|...|++++|.+.+++.++..|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            35666777777777777777777777776653

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=85.21  E-value=14  Score=35.42  Aligned_cols=63  Identities=14%  Similarity=-0.063  Sum_probs=53.4

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          155 PQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       155 p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      .+...|.++--.+...|++++|...|++...   ..|+...|..+-..|...|+.++|.+.+++-.
T Consensus       418 ~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~---L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~  480 (517)
T PRK10153        418 VLPRIYEILAVQALVKGKTDEAYQAINKAID---LEMSWLNYVLLGKVYELKGDNRLAADAYSTAF  480 (517)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3456777775556667999999999999874   56899999999999999999999999998865

>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=85.19  E-value=0.22  Score=38.65  Aligned_cols=83  Identities=10%  Similarity=0.026  Sum_probs=50.3

Q ss_pred             HHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 023910          163 MIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME  242 (275)
Q Consensus       163 Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g  242 (275)
                      +|+.|-+.+.++....+++.+..+ +-.-+....|.++..|++.+..++..++++...  +     +-...+++.|.+.|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~--~-----yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN--N-----YDLDKALRLCEKHG   84 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS--S-----S-CTHHHHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHHHccccc--c-----cCHHHHHHHHHhcc
Confidence            455666677777777777777644 344567777777777777777777777766211  1     22245556666666


Q ss_pred             CHHHHHHHHHH
Q 023910          243 EVAFSGIIRQD  253 (275)
Q Consensus       243 ~~~~A~~l~~~  253 (275)
                      .+++|.-++..
T Consensus        85 l~~~a~~Ly~~   95 (143)
T PF00637_consen   85 LYEEAVYLYSK   95 (143)
T ss_dssp             SHHHHHHHHHC
T ss_pred             hHHHHHHHHHH
Confidence            66666666655

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.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=85.17  E-value=24  Score=30.48  Aligned_cols=146  Identities=12%  Similarity=0.042  Sum_probs=83.1

Q ss_pred             CCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHH
Q 023910           84 GRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADM  163 (275)
Q Consensus        84 ~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~L  163 (275)
                      .+... +|..-++.+......            +.+.+...+.++-++-+.++.++|...+++..+.++-.||+- |-.-
T Consensus        47 ~gn~~-~A~~~fe~l~~~~p~------------s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~Y  112 (254)
T COG4105          47 KGNYE-EAIKYFEALDSRHPF------------SPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYY  112 (254)
T ss_pred             cCCHH-HHHHHHHHHHHcCCC------------CcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHH
Confidence            34455 777777777655442            123344566788888899999999999999988777666642 4444


Q ss_pred             HHHHHc---C----CCHHHHHHHHHHhH---hcCCCCcCHHHHHHHHHHHHhCCChhHHH---HHHHHHHhCCCCCCHHH
Q 023910          164 IQVFGT---N----GLFQHVEILYFYLK---TENSLEPEIQGFNALLKCLVGFKLRDLVV---DCYELMKTVGCEPDRSS  230 (275)
Q Consensus       164 i~~~~~---~----g~~~~A~~lf~~M~---~~~G~~pd~~tyn~lI~~~~~~g~~~~A~---~l~~~M~~~g~~pd~~t  230 (275)
                      |.|++.   -    .+...+..-|..|+   .+   -||+             .-..+|.   ..+..... |      .
T Consensus       113 lkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r---yPnS-------------~Ya~dA~~~i~~~~d~LA-~------~  169 (254)
T COG4105         113 LKGLSYFFQIDDVTRDQSAARAAFAAFKELVQR---YPNS-------------RYAPDAKARIVKLNDALA-G------H  169 (254)
T ss_pred             HHHHHHhccCCccccCHHHHHHHHHHHHHHHHH---CCCC-------------cchhhHHHHHHHHHHHHH-H------H
Confidence            444442   2    22233333333333   22   1332             1111222   22222211 0      1


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHH
Q 023910          231 YRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEE  266 (275)
Q Consensus       231 y~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e  266 (275)
                      =-.+-+-|.+.|.+.-|..-+++|++.|++-...+|
T Consensus       170 Em~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~e  205 (254)
T COG4105         170 EMAIARYYLKRGAYVAAINRFEEVLENYPDTSAVRE  205 (254)
T ss_pred             HHHHHHHHHHhcChHHHHHHHHHHHhccccccchHH
Confidence            134566788888888888888888888777554444

>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=85.16  E-value=7.2  Score=31.71  Aligned_cols=103  Identities=14%  Similarity=0.098  Sum_probs=72.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC--HHHHHHHHHHHHhCCChhHHHHHHHHHH---hCCCCCCHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE--IQGFNALLKCLVGFKLRDLVVDCYELMK---TVGCEPDRSSY  231 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd--~~tyn~lI~~~~~~g~~~~A~~l~~~M~---~~g~~pd~~ty  231 (275)
                      ...+..+-+.|++.|+.++|++.|.++... ...|.  ...+-.+|....-.|++..+....++..   +.|..++...-
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nr  114 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNR  114 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHH
Confidence            367888999999999999999999999753 23333  3556778888889999999998887776   34433333322


Q ss_pred             HHHHHH--HHhcCCHHHHHHHHHHHHHHhCC
Q 023910          232 RTVING--LEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       232 ~~li~~--~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      -.+..|  +...+++..|-++|-+....|+.
T Consensus       115 lk~~~gL~~l~~r~f~~AA~~fl~~~~t~~~  145 (177)
T PF10602_consen  115 LKVYEGLANLAQRDFKEAAELFLDSLSTFTS  145 (177)
T ss_pred             HHHHHHHHHHHhchHHHHHHHHHccCcCCCC
Confidence            222232  22467899999888887766654

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.

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

Probab=83.40  E-value=41  Score=33.14  Aligned_cols=139  Identities=10%  Similarity=0.041  Sum_probs=91.9

Q ss_pred             HHHhcCCCCchHHHHHHHHhhhcHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcC-----CCCCCHHHHHHHHHHHHcCCC
Q 023910           98 LKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQ-----WYKPQVSLYADMIQVFGTNGL  172 (275)
Q Consensus        98 m~~~~~~~~~~~~~~~~~~~~l~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~-----g~~p~~~tyn~Li~~~~~~g~  172 (275)
                      ..+....+.....+|+..+. +.+......|.-+++.+++++|-+.+.....+.     --+.+...|+-+-+..+++-+
T Consensus       147 Fv~~~~lPets~rvyrRYLk-~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~  225 (835)
T KOG2047|consen  147 FVESHGLPETSIRVYRRYLK-VAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPD  225 (835)
T ss_pred             HHHhCCChHHHHHHHHHHHh-cCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcc
Confidence            33333333345566665543 444556678888899999999998887664321     125567888888888887755


Q ss_pred             HH---HHHHHHHHhHhcCCCCcCH--HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 023910          173 FQ---HVEILYFYLKTENSLEPEI--QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME  242 (275)
Q Consensus       173 ~~---~A~~lf~~M~~~~G~~pd~--~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g  242 (275)
                      .-   ....++..+.   +.-||-  ..|++|-+-|.+.|.+++|..+|++-...-  .+..-|+.+.++|+...
T Consensus       226 ~~~slnvdaiiR~gi---~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FE  295 (835)
T KOG2047|consen  226 KVQSLNVDAIIRGGI---RRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFE  295 (835)
T ss_pred             hhcccCHHHHHHhhc---ccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHH
Confidence            43   3444555543   234554  678999999999999999999998866432  23445667777776543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.82  E-value=25  Score=32.08  Aligned_cols=116  Identities=9%  Similarity=-0.001  Sum_probs=82.2

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHH-HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSL-YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVV  213 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~t-yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~  213 (275)
                      ..+..|.+.|+-.-+ .+..-|++. --++-+++.-..++++++-.++.++.- =..-|...|| +-.+++..|...+|.
T Consensus       337 eHlKiAqqffqlVG~-Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N-~AQAk~atgny~eaE  413 (557)
T KOG3785|consen  337 EHLKIAQQFFQLVGE-SALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLN-LAQAKLATGNYVEAE  413 (557)
T ss_pred             HHHHHHHHHHHHhcc-cccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhH-HHHHHHHhcChHHHH
Confidence            457778888877655 355544332 234555666667889999999888753 2334555554 678899999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHH
Q 023910          214 DCYELMKTVGCEPDRSSYR-TVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       214 ~l~~~M~~~g~~pd~~ty~-~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      ++|-......++ |.++|. .|..+|.++++...|++++-.+
T Consensus       414 elf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~  454 (557)
T KOG3785|consen  414 ELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKT  454 (557)
T ss_pred             HHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhc
Confidence            999877655454 556775 5567889999999999988664

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=82.76  E-value=4.9  Score=22.17  Aligned_cols=31  Identities=3%  Similarity=-0.098  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          230 SYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       230 ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|..+-..+.+.|++++|.+.+++..+..|+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            4556667788888888888888888877764

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.97  E-value=34  Score=29.76  Aligned_cols=120  Identities=9%  Similarity=0.098  Sum_probs=89.6

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHH
Q 023910          134 QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVV  213 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~  213 (275)
                      .|.+++|.++++...++.  +.|.++|--=|-..-..|+.-+|++-+++..+.  +.-|...|--+-..|...|++++|.
T Consensus        99 ~~~~~~A~e~y~~lL~dd--pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~  174 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDD--PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAA  174 (289)
T ss_pred             hhchhhHHHHHHHHhccC--cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHH
Confidence            588999999999998852  557788876666666667777899888888753  8889999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHH-HHHHHHHHHH---hcCCHHHHHHHHHHHHHHhC
Q 023910          214 DCYELMKTVGCEPDRS-SYRTVINGLE---AMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       214 ~l~~~M~~~g~~pd~~-ty~~li~~~~---~~g~~~~A~~l~~~m~~~~~  259 (275)
                      -.+++|.-  +.|-.. -+.-+-+.+.   -..+++.|.+++....++-|
T Consensus       175 fClEE~ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  175 FCLEELLL--IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            99999983  234332 3333333333   34467777788877766655

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=81.68  E-value=14  Score=35.10  Aligned_cols=75  Identities=15%  Similarity=0.082  Sum_probs=46.9

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      .++-+.|+.++|.+.|.+|.+.....-+....-.||++|-..+.+.++..++.+-.+...-+--...|++.+--+
T Consensus       267 mCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLka  341 (539)
T PF04184_consen  267 MCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKA  341 (539)
T ss_pred             HHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHH
Confidence            344456888888888888876432222445666788888888888888888877642211122346677655433

The molecular function of this protein is uncertain.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=81.63  E-value=21  Score=32.79  Aligned_cols=129  Identities=12%  Similarity=0.082  Sum_probs=78.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCC----CCC---------CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHH
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQW----YKP---------QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQ  194 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g----~~p---------~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~  194 (275)
                      =+.|.+.|++..|..-|+...+-.+    ..+         -..+++.|--+|.+.+++.+|++.-+.....  -++|+.
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~--~~~N~K  292 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLEL--DPNNVK  292 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhc--CCCchh
Confidence            3567778888888888776443211    111         1566777777788888888888877776532  244555


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCC-HHHHHHHHHHHHHHhCC
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEA-MEE-VAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~-~g~-~~~A~~l~~~m~~~~~~  260 (275)
                      ..--==.+|...|+++.|...|..+.+  +.|+...-+.=|..|.+ ... .+...+++..|....++
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k~~~  358 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAKLAE  358 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            544445566677788888888887764  45655555444444433 222 33335666666655444

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=81.54  E-value=11  Score=27.58  Aligned_cols=44  Identities=7%  Similarity=-0.007  Sum_probs=24.8

Q ss_pred             HHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          140 ALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       140 A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      +.+-++.+-. ..+.|+....++-+++|-+.+++.-|+++|+-.+
T Consensus        26 ~rr~mN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          26 LRRGLNNLFG-YDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444444434 3456666666666666666666666666666555

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=81.26  E-value=16  Score=26.95  Aligned_cols=32  Identities=28%  Similarity=0.188  Sum_probs=15.7

Q ss_pred             CCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          189 LEPEIQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       189 ~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      +.|+.....+.+.||-|.+++..|.++|+-.+
T Consensus        41 lVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   41 LVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             B---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             cCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            55555555555555555555555555555554

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.83  E-value=26  Score=27.76  Aligned_cols=98  Identities=13%  Similarity=0.089  Sum_probs=56.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..++..-...++++++..+++.|+--..-.|...++-..|  +.+.|++++|.++|.+...+.    ....|..-+.++|
T Consensus        14 i~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~----~~~p~~kAL~A~C   87 (153)
T TIGR02561        14 IEVLMYALRSADPYDAQAMLDALRVLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSA----GAPPYGKALLALC   87 (153)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccC----CCchHHHHHHHHH
Confidence            3445555557888899999988876212223344444444  456788999999998887542    1124555666666


Q ss_pred             hCCChhHHHHHHH-HHHhCCCCCCH
Q 023910          205 GFKLRDLVVDCYE-LMKTVGCEPDR  228 (275)
Q Consensus       205 ~~g~~~~A~~l~~-~M~~~g~~pd~  228 (275)
                      -...-|-..+.+- ++.+.|-.|+.
T Consensus        88 L~al~Dp~Wr~~A~~~le~~~~~~a  112 (153)
T TIGR02561        88 LNAKGDAEWHVHADEVLARDADADA  112 (153)
T ss_pred             HHhcCChHHHHHHHHHHHhCCCHhH
Confidence            5544444444432 33344444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=80.55  E-value=7.2  Score=23.43  Aligned_cols=25  Identities=12%  Similarity=0.090  Sum_probs=13.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          160 YADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       160 yn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      |..+-..|...|++++|+++|++..
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l   28 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRAL   28 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444455555555555555555554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.33  E-value=11  Score=33.83  Aligned_cols=48  Identities=6%  Similarity=-0.020  Sum_probs=24.2

Q ss_pred             CHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          136 HCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       136 ~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      ++.+++-+...=.. .|+-||-+|++.||+.+-+.+++.+|..+..+|.
T Consensus       115 ~pq~~i~~l~npIq-YGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQ-YGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             ChHHHHHHHhCcch-hccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            34444444444333 4555555555555555555555555555544443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=80.30  E-value=41  Score=29.66  Aligned_cols=101  Identities=7%  Similarity=-0.060  Sum_probs=70.5

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC---CChhHHHHHHHHHHhCCCCC-CHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF---KLRDLVVDCYELMKTVGCEP-DRSSY  231 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~---g~~~~A~~l~~~M~~~g~~p-d~~ty  231 (275)
                      |...|--|=..|.+.|+.+.|..-|.+-.+-.|-  |...+..+-.++...   .+-.++..+|+++...  .| |..+-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~--n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral  230 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGD--NPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRAL  230 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHH
Confidence            6788888888899999999998888887643333  334444444443332   2456788888888743  33 44455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          232 RTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       232 ~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .-|--.+...|++.+|...++.|.+..|.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            55666788889999999999988888776

---

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	275
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-04
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-05

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 52.9 bits (126), Expect = 5e-08
 Identities = 47/321 (14%), Positives = 90/321 (28%), Gaps = 89/321 (27%)

Query: 12  QQDIYCIAWLLSLARC---DRKGIMMSSSVAKSASWSDVKV-KPWHNTQKQQVTATR--- 64
           + + Y   +L+S  +        +       +   ++D +V   ++ ++ Q     R   
Sbjct: 88  RIN-Y--KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQAL 144

Query: 65  -------------------SMLVIE-MRDRGQNRKP------LQRGR----NLSIEAIQA 94
                              + + ++         K       L           +E +Q 
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204

Query: 95  VQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQ---NHCLLAL---------K 142
           + +    +  S   DH  N K R      + A LR LL+     +CLL L          
Sbjct: 205 LLYQIDPNWTSRS-DHSSNIKLR---IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260

Query: 143 VFE---------------DIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE- 186
            F                D          +SL          +   +   +L  YL    
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTT-HISL-DHHSMTLTPD---EVKSLLLKYLDCRP 315

Query: 187 NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAF 246
             L  E+   N     ++   +RD  +  ++  K V C+   +   + +N LE  E    
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDG-LATWDNWKHVNCDKLTTIIESSLNVLEPAE---- 370

Query: 247 SGIIRQDAFKYYGDLEFLEED 267
               R+     +  L      
Sbjct: 371 ---YRK----MFDRLSVFPPS 384

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.8 bits (92), Expect = 8e-04
 Identities = 31/197 (15%), Positives = 57/197 (28%), Gaps = 38/197 (19%)

Query: 87  LSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVF-E 145
             +  I     ++      +   HV   K   +++   + VL     +      L VF  
Sbjct: 328 RRLSIIAES--IRDGLATWDNWKHVNCDKLTTIIESS-LNVLEPAEYR-KMFDRLSVFPP 383

Query: 146 DIR-KEQ-----WYKPQVSLYADMIQVFGTNGL-FQHVEILYFYLKTENSLEPEIQGFNA 198
                       W+    S    ++       L  +  +     +       P I     
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI-------PSIY-LEL 435

Query: 199 LLKCLVGFKLRDLVVDCYELMKTV---GCEP---DRSSYRTV---INGLEAMEEVA-FSG 248
            +K    + L   +VD Y + KT       P   D+  Y  +   +  +E  E +  F  
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM 495

Query: 249 IIRQDAFKYYGDLEFLE 265
           +        + D  FLE
Sbjct: 496 V--------FLDFRFLE 504

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.9 bits (99), Expect = 8e-05
 Identities = 22/189 (11%), Positives = 55/189 (29%), Gaps = 11/189 (5%)

Query: 67  LVIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSN--------PLDHVFNSKFRR 118
           L  + R +    + L+    +  ++ +     +R  +            L+         
Sbjct: 30  LEKDKRTQQMRMQRLKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAPES 89

Query: 119 LLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEI 178
             +  +  +L+E   +    +         + Q    Q  L A   +             
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLA-FFKCCLLTDQLPLAHH 148

Query: 179 L--YFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN 236
           L    + + +      +  +NA++           +V    ++K  G  PD  SY   + 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 237 GLEAMEEVA 245
            +   ++ A
Sbjct: 209 CMGRQDQDA 217

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	275
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.91
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.46
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.42
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.11
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.98
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.93
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.92
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.89
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.89
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.86
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.84
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.82
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.79
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.79
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.78
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.71
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.71
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.71
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.63
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.62
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.61
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.61
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.6
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.6
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.58
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.57
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.54
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.52
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.51
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.51
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.51
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.49
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.49
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.46
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.45
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.43
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.42
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.42
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.41
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.39
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.39
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.36
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.36
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.34
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.32
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.31
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.3
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.29
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.27
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.24
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.24
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.24
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.24
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.23
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.21
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.2
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.2
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.2
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.2
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.15
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.13
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.13
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.11
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.1
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.1
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.09
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.08
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.06
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.06
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.05
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.04
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.04
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.03
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.03
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.02
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.02
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.02
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.01
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.01
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.01
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.98
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.97
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.97
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.97
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.97
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.95
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.93
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.93
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.91
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.91
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.91
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.89
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.89
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.88
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.88
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.88
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.87
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.87
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.85
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.85
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.85
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.84
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.83
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.82
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.79
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.79
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.76
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.75
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.73
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.73
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.71
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.69
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.69
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.68
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.67
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.66
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.65
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.63
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.63
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.63
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.56
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.56
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.56
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.52
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.51
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.5
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.49
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.49
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.48
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.48
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.46
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.45
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.44
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.44
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.42
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.41
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.41
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.4
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.4
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.37
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.36
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.35
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.34
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.32
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.26
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.24
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.23
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.21
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.16
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.13
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.09
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.08
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.06
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.05
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.04
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.02
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.99
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.98
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	96.96
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	96.94
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.92
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	96.87
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	96.84
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.75
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.73
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	96.72
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.72
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.69
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.67
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.64
4g1t_A	472	Interferon-induced protein with tetratricopeptide	96.61
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.54
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.53
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.52
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.51
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.49
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.48
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.39
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.34
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.32
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.27
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.19
4g1t_A	472	Interferon-induced protein with tetratricopeptide	96.14
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.05
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.71
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.31
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	95.08
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	94.96
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	94.81
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	94.77
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	94.65
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	94.61
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	94.07
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	94.06
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	93.85
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	93.63
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.09
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	93.03
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	92.76
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.83
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	91.51
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	91.46
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.41
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.16
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.08
1klx_A	138	Cysteine rich protein B; structural genomics, heli	90.96
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	90.82
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	90.81
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	90.21
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	88.34
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	87.93
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	86.96
1pc2_A	152	Mitochondria fission protein; unknown function; NM	86.8
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	86.76
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	85.35
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.73
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	83.34
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	82.19
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	80.86
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	80.82
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	80.68

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=1.9e-29  Score=236.99  Aligned_cols=167  Identities=8%  Similarity=0.039  Sum_probs=150.1

Q ss_pred             hhhhccCCCCCcccccCCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHHhHHHHHHHHHhcC---------CHH
Q 023910           68 VIEMRDRGQNRKPLQRGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQN---------HCL  138 (275)
Q Consensus        68 ~i~~~~~~~~~~~l~~~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~~~~~li~~~~~~g---------~~~  138 (275)
                      +|+++++.         +.+. +|++++++|.+.|.  .|+..+|+.++            ++|++.+         .++
T Consensus        32 ~id~c~k~---------G~~~-~A~~lf~~M~~~Gv--~pd~~tyn~Li------------~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A           32 KLDMCSKK---------GDVL-EALRLYDEARRNGV--QLSQYHYNVLL------------YVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             HHHHTTTS---------CCHH-HHHHHHHHHHHHTC--CCCHHHHHHHH------------HHHTTCCCCSSSSCCHHHH
T ss_pred             HHHHHHhC---------CCHH-HHHHHHHHHHHcCC--CCCHhHHHHHH------------HHHHhCCchhhhhhcchHH
Confidence            56776543         3555 99999999999998  88888888765            4455544         478


Q ss_pred             HHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHH
Q 023910          139 LALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYEL  218 (275)
Q Consensus       139 ~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~  218 (275)
                      .|.++|++|.++ |+.||.+|||+||++|++.|++++|.++|++|+.. |+.||.+|||+||.+|++.|++++|.++|++
T Consensus        88 ~A~~lf~~M~~~-G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~  165 (501)
T 4g26_A           88 RGFDIFKQMIVD-KVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAF-GIQPRLRSYGPALFGFCRKGDADKAYEVDAH  165 (501)
T ss_dssp             HHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCccceehHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999995 99999999999999999999999999999999975 9999999999999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          219 MKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       219 M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |.+.|+.||..||++||++|++.|++++|.+++++|.+.-.+
T Consensus       166 M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~  207 (501)
T 4g26_A          166 MVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQ  207 (501)
T ss_dssp             HHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSS
T ss_pred             HHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999999999999999876433

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=1.3e-27  Score=224.57  Aligned_cols=131  Identities=14%  Similarity=0.159  Sum_probs=124.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCC---------HHHHHHHHHHhHhcCCCCcCHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL---------FQHVEILYFYLKTENSLEPEIQG  195 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~---------~~~A~~lf~~M~~~~G~~pd~~t  195 (275)
                      ..+|++||+.|++++|+++|++|+++ |+.||.+|||+||++|++.+.         +++|.++|++|... |+.||.+|
T Consensus        30 ~~~id~c~k~G~~~~A~~lf~~M~~~-Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~-G~~Pd~~t  107 (501)
T 4g26_A           30 KQKLDMCSKKGDVLEALRLYDEARRN-GVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVD-KVVPNEAT  107 (501)
T ss_dssp             HHHHHHTTTSCCHHHHHHHHHHHHHH-TCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHT-TCCCCHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHh-CCCCCHHH
Confidence            46689999999999999999999996 999999999999999998765         68999999999975 99999999


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          196 FNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       196 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      ||+||++|++.|++++|.++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~  169 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVES  169 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999998764

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.91  E-value=2.6e-25  Score=218.04  Aligned_cols=127  Identities=14%  Similarity=0.249  Sum_probs=115.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHc--CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKE--QWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL  200 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~--~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI  200 (275)
                      .+.++|++||++|++++|.++|++|.+.  .|+.||++|||+||+|||+.|++++|.++|++|+.. |+.||++|||+||
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~-G~~PDvvTYntLI  207 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA-GLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCcHHHHHHHH
Confidence            6789999999999999999999888641  389999999999999999999999999999999875 9999999999999


Q ss_pred             HHHHhCCCh-hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 023910          201 KCLVGFKLR-DLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGII  250 (275)
Q Consensus       201 ~~~~~~g~~-~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l  250 (275)
                      ++||+.|+. ++|.++|++|.+.|+.||.+||+++++++.+.+-++...++
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv  258 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh
Confidence            999999985 78999999999999999999999999988887655544433

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=3.3e-21  Score=189.18  Aligned_cols=103  Identities=11%  Similarity=0.018  Sum_probs=96.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHh--cCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKT--ENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRT  233 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~--~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~  233 (275)
                      -.+|||+||++||+.|++++|.++|++|.+  ..|+.||++|||+||+|||+.|++++|.++|++|++.|+.||.+|||+
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            468999999999999999999999988763  238999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCH-HHHHHHHHHHHHHh
Q 023910          234 VINGLEAMEEV-AFSGIIRQDAFKYY  258 (275)
Q Consensus       234 li~~~~~~g~~-~~A~~l~~~m~~~~  258 (275)
                      ||++||+.|+. ++|.++|++|.+.-
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG  231 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEG  231 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcC
Confidence            99999999985 78999999999763

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.46  E-value=5.2e-12  Score=118.76  Aligned_cols=130  Identities=4%  Similarity=-0.080  Sum_probs=79.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .++..|.+.|++++|.++|++|.+.  ...+..+|+.+..+|.+.|++++|.++|++|...  .+.+..+|+.++.+|.+
T Consensus       412 ~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~  487 (597)
T 2xpi_A          412 GFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFN  487 (597)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHH
Confidence            5555666666666666666666552  2335566666666666666666666666666532  23356666666666666


Q ss_pred             CCChhHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          206 FKLRDLVVDCYELMKTV----GCEPD--RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~----g~~pd--~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      .|++++|.++|++|.+.    +..|+  ..+|+.+..+|.+.|++++|.++++++.+..|
T Consensus       488 ~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  547 (597)
T 2xpi_A          488 KSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLST  547 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS
T ss_pred             hCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            66666666666666543    55665  56666666666666666666666666665544

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.42  E-value=1.8e-11  Score=115.05  Aligned_cols=135  Identities=8%  Similarity=-0.028  Sum_probs=121.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCcC--HHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEPE--IQGFNA  198 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~pd--~~tyn~  198 (275)
                      +..+...|.+.|++++|.++|+++.+.  ...+..+|+.+...|.+.|++++|+++|++|...   .|..|+  ..+|+.
T Consensus       444 ~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~  521 (597)
T 2xpi_A          444 YLFLGMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWAN  521 (597)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHH
Confidence            447889999999999999999999885  3457999999999999999999999999999742   156888  899999


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          199 LLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       199 lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +..+|.+.|++++|.++|+++.+.+ +.+..+|..+..+|.+.|++++|.++++++.+..|+-
T Consensus       522 l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~  583 (597)
T 2xpi_A          522 LGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNE  583 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCC
Confidence            9999999999999999999998654 4488999999999999999999999999999998874

>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=99.11  E-value=1e-08  Score=75.89  Aligned_cols=131  Identities=8%  Similarity=-0.004  Sum_probs=112.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|++++|.++|+++.+.  ...+..+|..+...|...|++++|..+|+++...  .+.+...|..+...|.
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHH
Confidence            35567788899999999999999874  2447888999999999999999999999998754  3556788999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|++++|..+++++.+.. +.+..++..+...+.+.|++++|.+.++++.+..|.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            9999999999999998643 335778889999999999999999999999887664

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=98.98  E-value=2.4e-08  Score=88.85  Aligned_cols=131  Identities=11%  Similarity=0.006  Sum_probs=110.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...|.+.|++++|.+.|+++.+.  -..+..+|+.+...|.+.|++++|++.|+++...  .+.+..+|+.+...|.
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~  316 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHH
Confidence            36777888899999999999999874  2335778999999999999999999999998754  5678889999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|++++|..+|+++.+. .+.+..+|..+...|.+.|++++|.+.++++.+..|.
T Consensus       317 ~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~  371 (388)
T 1w3b_A          317 EQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT  371 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT
T ss_pred             HcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            999999999999998753 2345778999999999999999999999999887775

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=98.93  E-value=7.6e-08  Score=86.85  Aligned_cols=132  Identities=8%  Similarity=-0.031  Sum_probs=111.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      ....+...+.+.|++++|.++|+++.+.  ...+..+|+.+...|.+.|++++|++.|+++...  .+.+..+|+.+...
T Consensus       145 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~  220 (450)
T 2y4t_A          145 RLRSQALNAFGSGDYTAAIAFLDKILEV--CVWDAELRELRAECFIKEGEPRKAISDLKAASKL--KNDNTEAFYKISTL  220 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH--HCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            3445566688999999999999999885  3557899999999999999999999999999753  35578999999999


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCC-HHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPD-RSSYRTV------------INGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~l------------i~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |.+.|++++|...|+++.+.  .|+ ...+..+            ...|.+.|++++|.++++++.+..|.
T Consensus       221 ~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~  289 (450)
T 2y4t_A          221 YYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS  289 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            99999999999999999843  343 3344444            78899999999999999999988776

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.92  E-value=1.9e-07  Score=75.63  Aligned_cols=133  Identities=4%  Similarity=-0.157  Sum_probs=112.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHhHhcCCCCc-CHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN-GLFQHVEILYFYLKTENSLEP-EIQGFNALL  200 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~-g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI  200 (275)
                      .+..+...|...|++++|.++|++..+.  ...+..+|..+...|... |++++|...|+++.. .+..| +...|..+.
T Consensus        44 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~  120 (225)
T 2vq2_A           44 AWLVRAEIYQYLKVNDKAQESFRQALSI--KPDSAEINNNYGWFLCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKG  120 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHH
Confidence            3456777888999999999999999874  344788899999999999 999999999999875 23334 468889999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          201 KCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ..|.+.|++++|...|+++.+.. +.+...+..+...+.+.|++++|.++++++.+..|
T Consensus       121 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  178 (225)
T 2vq2_A          121 ICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVE  178 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999988542 23577888999999999999999999999999888

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.89  E-value=3.4e-07  Score=79.24  Aligned_cols=143  Identities=9%  Similarity=0.072  Sum_probs=115.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHH---HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSL---YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL  200 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~t---yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI  200 (275)
                      +..+...|.+.|++++|.+.|+.+.+.   .|+...   ..++++.+...|++++|..+|+++...  .+.+...|+.+-
T Consensus       133 ~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la  207 (291)
T 3mkr_A          133 MAMTVQILLKLDRLDLARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQA  207 (291)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHH
Confidence            346778889999999999999999885   355332   233455566679999999999999865  577899999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHHhCCccchHHHHHHHh
Q 023910          201 KCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAF-SGIIRQDAFKYYGDLEFLEEDEEDIA  272 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~-A~~l~~~m~~~~~~~~~~~e~~~~~~  272 (275)
                      .+|.+.|++++|...|++..+.. +-|..++..++..+...|+.++ +.++++++.+..|+-.++..+.++..
T Consensus       208 ~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d~~~~~~  279 (291)
T 3mkr_A          208 ACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEYRAKEN  279 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            99999999999999999977432 2266688899999999999976 67999999999999777766666554

>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=98.89  E-value=1.9e-07  Score=73.04  Aligned_cols=132  Identities=8%  Similarity=-0.039  Sum_probs=114.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|++++|.+.|++..+.  ...+...|..+...|...|++++|.+.|++....  .+.+...+..+...|.
T Consensus        46 ~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~  121 (186)
T 3as5_A           46 LHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALD  121 (186)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHH
Confidence            45566778899999999999999885  3457889999999999999999999999998754  4567889999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +.|++++|..++++..+.. ..+...+..+...+.+.|++++|.+.+++..+..|+-
T Consensus       122 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  177 (186)
T 3as5_A          122 NLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANELDEGA  177 (186)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC
T ss_pred             HcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCc
Confidence            9999999999999988543 3467889999999999999999999999999887764

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=98.86  E-value=1.6e-07  Score=84.69  Aligned_cols=131  Identities=8%  Similarity=0.015  Sum_probs=88.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHH------------HHHHHcCCCHHHHHHHHHHhHhcCCCCcC
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADM------------IQVFGTNGLFQHVEILYFYLKTENSLEPE  192 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~L------------i~~~~~~g~~~~A~~lf~~M~~~~G~~pd  192 (275)
                      ..+...|.+.|++++|.+.|+++.+.  ...+...+..+            ...|.+.|++++|+..|+++...   .|+
T Consensus       215 ~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~  289 (450)
T 2y4t_A          215 YKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPS  289 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCc
Confidence            35666677777777777777777663  12234444444            66777777777777777777642   344


Q ss_pred             -----HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          193 -----IQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       193 -----~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                           ...|..+..+|.+.|++++|...++++.+.. +.+...|..+..+|...|++++|.+.++++.+..|+-
T Consensus       290 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~  362 (450)
T 2y4t_A          290 IAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNEND  362 (450)
T ss_dssp             SHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSC
T ss_pred             chHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcch
Confidence                 4467777777777777777777777766431 2356777777777777777777777777777776663

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=98.84  E-value=1.7e-07  Score=77.83  Aligned_cols=152  Identities=9%  Similarity=-0.063  Sum_probs=123.4

Q ss_pred             CchHHHHHHHHhhh--cHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHh
Q 023910          106 NPLDHVFNSKFRRL--LKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYL  183 (275)
Q Consensus       106 ~~~~~~~~~~~~~l--~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M  183 (275)
                      ......+...+...  ....+..+...|.+.|++++|.+.|++..+.  ...+...|..+...|...|++++|.+.|++.
T Consensus        54 ~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  131 (252)
T 2ho1_A           54 EQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALAS--DSRNARVLNNYGGFLYEQKRYEEAYQRLLEA  131 (252)
T ss_dssp             GGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            44556666665432  1223457778889999999999999999884  2447889999999999999999999999998


Q ss_pred             HhcCCCCc-CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          184 KTENSLEP-EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       184 ~~~~G~~p-d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .. .+..| +...|..+...|.+.|++++|..+|++..+.. +.+...+..+...+.+.|++++|.++++++.+..|..
T Consensus       132 ~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~  208 (252)
T 2ho1_A          132 SQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQN  208 (252)
T ss_dssp             TT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCC
T ss_pred             Hh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCc
Confidence            75 23445 66788999999999999999999999988543 2357889999999999999999999999998877753

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=98.82  E-value=3.7e-07  Score=81.02  Aligned_cols=130  Identities=12%  Similarity=0.059  Sum_probs=93.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+...|++++|...|++..+.  -..+..+|+.+...|.+.|++++|++.|+++...  -+-+..+|+.+..+|.+
T Consensus       208 ~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~  283 (388)
T 1w3b_A          208 NLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHH
Confidence            3444555566666666666666553  1224677888888888888888888888887643  23346678888888888


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|...|+++.+. .+.+..+|+.+...+.+.|++++|.++++++.+..|.
T Consensus       284 ~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  337 (388)
T 1w3b_A          284 KGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE  337 (388)
T ss_dssp             HSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTT
T ss_pred             cCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            88888888888888754 3456778888888888888888888888887766554

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.79  E-value=4.7e-07  Score=78.35  Aligned_cols=124  Identities=10%  Similarity=-0.007  Sum_probs=102.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHH---HHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGF---NALLKC  202 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~ty---n~lI~~  202 (275)
                      .+-..|...|++++|.+.|++       ..+...+..+...|.+.|++++|.+.|+++...   .|+...+   .+.+..
T Consensus       106 ~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l  175 (291)
T 3mkr_A          106 MAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ---DEDATLTQLATAWVSL  175 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHH
Confidence            334667889999999999987       247889999999999999999999999999754   3654322   234455


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +...|++++|..+|+++.+. .+.+...|+.+..++.+.|++++|.+.+++..+..|.
T Consensus       176 ~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~  232 (291)
T 3mkr_A          176 AAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSG  232 (291)
T ss_dssp             HHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            55669999999999999965 4568889999999999999999999999998887665

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.79  E-value=6.6e-07  Score=72.32  Aligned_cols=136  Identities=8%  Similarity=-0.139  Sum_probs=114.6

Q ss_pred             HHHHHHHHHhc-CCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          124 MIAVLRELLRQ-NHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       124 ~~~li~~~~~~-g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      +..+...+... |++++|.+.|+.+.+ .+..|+ ...|..+...|.+.|++++|+..|+++...  .+.+...+..+..
T Consensus        79 ~~~l~~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~  155 (225)
T 2vq2_A           79 NNNYGWFLCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELAR  155 (225)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHH
Confidence            44677888899 999999999999987 333443 788999999999999999999999998754  3446889999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      .|.+.|++++|..++++..+..-..+...+..+...+...|+.+.|..+++.+.+.+|.-.
T Consensus       156 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~  216 (225)
T 2vq2_A          156 TKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSE  216 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCH
Confidence            9999999999999999988643224677888888889999999999999999988888753

>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=98.78  E-value=3e-07  Score=71.78  Aligned_cols=130  Identities=9%  Similarity=-0.068  Sum_probs=112.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+...+...|++++|.+.|+++.+.  ...+..+|..+...|...|++++|...|++....  .+.+...|..+...|..
T Consensus        13 ~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           13 DKGISHAKAGRYSQAVMLLEQVYDA--DAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTTTCCT--TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh--CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHH
Confidence            4556677889999999999998763  3457889999999999999999999999998754  35578899999999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|..+|++..+. .+.+...+..+...+.+.|++++|.++++++.+..|.
T Consensus        89 ~~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~  142 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEA-NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN  142 (186)
T ss_dssp             HTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hcCHHHHHHHHHHHHhc-CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc
Confidence            99999999999998854 2346788899999999999999999999999887665

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.77  E-value=5.8e-07  Score=73.79  Aligned_cols=132  Identities=9%  Similarity=-0.061  Sum_probs=112.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...|...|++++|.+.|++..+.  ...+...|..+...|.+.|++++|+..|++....  .+.+...+..+...|.
T Consensus        95 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~  170 (243)
T 2q7f_A           95 YGAGNVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLA  170 (243)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHH
Confidence            35566778899999999999999885  3457888999999999999999999999998754  3457889999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +.|++++|...|++..+.. ..+..++..+...|.+.|++++|.+.++++.+..|+-
T Consensus       171 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~  226 (243)
T 2q7f_A          171 NEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDH  226 (243)
T ss_dssp             HHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTC
T ss_pred             HcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcch
Confidence            9999999999999987542 3357789999999999999999999999999888874

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=98.76  E-value=7e-07  Score=74.05  Aligned_cols=134  Identities=9%  Similarity=-0.086  Sum_probs=114.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ..+...|...|++++|.++|++..+ .+..| +...|..+...|.+.|++++|...|++....  .+.+...+..+...|
T Consensus       109 ~~la~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~  185 (252)
T 2ho1_A          109 NNYGGFLYEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLL  185 (252)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHH
Confidence            3566778889999999999999977 23455 5678899999999999999999999998754  344688999999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      .+.|++++|..+|++..+. ...+...+..+...+.+.|+.++|.++++++.+.+|+-.
T Consensus       186 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~  243 (252)
T 2ho1_A          186 YKEREYVPARQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSL  243 (252)
T ss_dssp             HHTTCHHHHHHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSH
T ss_pred             HHcCCHHHHHHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCH
Confidence            9999999999999998754 235677888999999999999999999999999988753

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.71  E-value=1.2e-06  Score=71.86  Aligned_cols=131  Identities=11%  Similarity=-0.014  Sum_probs=113.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+.+.|++++|.+.|++..+.  ...+..+|..+...|...|++++|.+.|++....  .+.+...|..+...|.
T Consensus        61 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~  136 (243)
T 2q7f_A           61 INFANLLSSVNELERALAFYDKALEL--DSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLV  136 (243)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc--CCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            35566778899999999999999885  3447889999999999999999999999998754  4557888999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|++++|..++++..+.. ..+...+..+...+.+.|++++|.+.++++.+..|.
T Consensus       137 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  191 (243)
T 2q7f_A          137 KLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPG  191 (243)
T ss_dssp             HTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTT
T ss_pred             HhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            9999999999999988542 236778899999999999999999999998887665

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=98.71  E-value=4.2e-07  Score=79.54  Aligned_cols=131  Identities=11%  Similarity=-0.038  Sum_probs=111.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK  207 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g  207 (275)
                      +..+...|++++|...|+++.+...-.++..+|+.+...|.+.|++++|+..|++....  .+.+..+|+.+...|.+.|
T Consensus       188 ~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g  265 (368)
T 1fch_A          188 LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGN  265 (368)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcC
Confidence            44455889999999999999885222225899999999999999999999999998753  3456889999999999999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          208 LRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       208 ~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ++++|...|++..+.. +.+..+|..+...|.+.|++++|.+.++++.+..|+.
T Consensus       266 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  318 (368)
T 1fch_A          266 QSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKS  318 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999988542 3467889999999999999999999999999887764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.71  E-value=2.2e-07  Score=81.77  Aligned_cols=130  Identities=9%  Similarity=-0.071  Sum_probs=109.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK  207 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g  207 (275)
                      ...+.+.|++++|.++|+++.+...-.++..+|+.+...|.+.|++++|++.|++....  .+.+..+|+.+..+|.+.|
T Consensus       184 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g  261 (365)
T 4eqf_A          184 SKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGD  261 (365)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            56777889999999999999885322236899999999999999999999999998754  4557899999999999999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          208 LRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       208 ~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++++|...|++..+.. +-+..+|..+...|.+.|++++|.+.++++.+..|+
T Consensus       262 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  313 (365)
T 4eqf_A          262 RSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRK  313 (365)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc
Confidence            9999999999988642 234788999999999999999999999999988876

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.63  E-value=1.4e-06  Score=72.78  Aligned_cols=154  Identities=7%  Similarity=-0.128  Sum_probs=119.4

Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHc
Q 023910           90 EAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT  169 (275)
Q Consensus        90 ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~  169 (275)
                      +|+..++.+........|..           ...+..+...+...|++++|.+.|++..+.  ...+..+|..+...|..
T Consensus        23 ~A~~~~~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~   89 (275)
T 1xnf_A           23 VILARMEQILASRALTDDER-----------AQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQ   89 (275)
T ss_dssp             HHHHHHHHHHTSSCCCHHHH-----------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccCchh-----------HHHHHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHH
Confidence            78888877776533111111           112335566788899999999999999885  24468999999999999


Q ss_pred             CCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 023910          170 NGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGI  249 (275)
Q Consensus       170 ~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~  249 (275)
                      .|++++|++.|++....  .+.+...|..+...|.+.|++++|...|+++.+.  .|+...+..++..+...|++++|..
T Consensus        90 ~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~  165 (275)
T 1xnf_A           90 AGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKE  165 (275)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHhc--CccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHH
Confidence            99999999999998753  3446789999999999999999999999999863  4555556666666778899999999


Q ss_pred             HHHHHHHHhCC
Q 023910          250 IRQDAFKYYGD  260 (275)
Q Consensus       250 l~~~m~~~~~~  260 (275)
                      .+++.....+.
T Consensus       166 ~~~~~~~~~~~  176 (275)
T 1xnf_A          166 VLKQHFEKSDK  176 (275)
T ss_dssp             HHHHHHHHSCC
T ss_pred             HHHHHHhcCCc
Confidence            99888776554

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=98.62  E-value=4.6e-07  Score=77.62  Aligned_cols=132  Identities=8%  Similarity=-0.056  Sum_probs=99.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...|.+.|++++|.+.|++..+.  ...+..+|..+...|.+.|++++|...|++....  .+.+..+|..+...|.
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~  251 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYS  251 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHH
Confidence            35666777888888888888888774  2345778888888888888888888888887643  3446778888888888


Q ss_pred             hCCChhHHHHHHHHHHhCCCCC-----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEP-----------DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~p-----------d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|++++|...|++..+..-..           +..+|..+..++.+.|+.++|.+++++..+.+++
T Consensus       252 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~  318 (327)
T 3cv0_A          252 NMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPFAK  318 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcch
Confidence            8888888888888876422111           4667888888888888888888888776655554

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=98.61  E-value=1.1e-05  Score=68.93  Aligned_cols=132  Identities=11%  Similarity=-0.103  Sum_probs=110.1

Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          124 MIAVLRELLRQN-HCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       124 ~~~li~~~~~~g-~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      +..+-..+...| ++++|.+.|+...+.  ...+...|..+...|...|++++|+..|++....  .+.+...+..+...
T Consensus        93 ~~~l~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~  168 (330)
T 3hym_B           93 WFAVGCYYLMVGHKNEHARRYLSKATTL--EKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQL--MKGCHLPMLYIGLE  168 (330)
T ss_dssp             HHHHHHHHHHSCSCHHHHHHHHHHHHTT--CTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--ccccHHHHHHHHHH
Confidence            345667778889 999999999999774  2345788999999999999999999999998754  33456778889999


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |...|++++|...|++..+.. +.+...+..+...+.+.|++++|.+.+++..+..++
T Consensus       169 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  225 (330)
T 3hym_B          169 YGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKA  225 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhh
Confidence            999999999999999988543 346788999999999999999999999999887643

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.61  E-value=1.4e-06  Score=76.51  Aligned_cols=151  Identities=8%  Similarity=-0.106  Sum_probs=105.8

Q ss_pred             chHHHHHHHHhhhc--HHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          107 PLDHVFNSKFRRLL--KFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       107 ~~~~~~~~~~~~l~--~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      .....|...+..-.  ...+..+...|.+.|++++|.+.|++..+.  ...+..+|+.+...|.+.|++++|+..|+++.
T Consensus        83 ~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  160 (365)
T 4eqf_A           83 VTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLEL--QPNNLKALMALAVSYTNTSHQQDACEALKNWI  160 (365)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHccccHHHHHHHHHHHH
Confidence            34455655554221  124557888899999999999999999884  24468999999999999999999999999987


Q ss_pred             hcC----CC-------------------------------------Cc---CHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          185 TEN----SL-------------------------------------EP---EIQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       185 ~~~----G~-------------------------------------~p---d~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      ...    ..                                     .|   +..+|+.+...|.+.|++++|..+|++..
T Consensus       161 ~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  240 (365)
T 4eqf_A          161 KQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAAL  240 (365)
T ss_dssp             HHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            531    00                                     01   45666666667777777777777777666


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          221 TVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       221 ~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.. +.+..+|+.+...|.+.|++++|.+.++++.+..|.
T Consensus       241 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  279 (365)
T 4eqf_A          241 TVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG  279 (365)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            431 235666677777777777777777777777666665

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=98.60  E-value=5.3e-06  Score=72.46  Aligned_cols=150  Identities=11%  Similarity=-0.007  Sum_probs=109.0

Q ss_pred             hHHHHHHHHhhh--cHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh
Q 023910          108 LDHVFNSKFRRL--LKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT  185 (275)
Q Consensus       108 ~~~~~~~~~~~l--~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~  185 (275)
                      ....|...+..-  ....+..+...|.+.|++++|.+.|++..+.  ...+..+|..+...|...|++++|++.|+++..
T Consensus        83 A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  160 (368)
T 1fch_A           83 AVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNESLQRQACEILRDWLR  160 (368)
T ss_dssp             HHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555554321  1123457778888999999999999999884  244788999999999999999999999999875


Q ss_pred             cCCC----------------------------------------------Cc---CHHHHHHHHHHHHhCCChhHHHHHH
Q 023910          186 ENSL----------------------------------------------EP---EIQGFNALLKCLVGFKLRDLVVDCY  216 (275)
Q Consensus       186 ~~G~----------------------------------------------~p---d~~tyn~lI~~~~~~g~~~~A~~l~  216 (275)
                      ...-                                              .|   +..+|+.+...|.+.|++++|...|
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~  240 (368)
T 1fch_A          161 YTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCF  240 (368)
T ss_dssp             TSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3100                                              11   4667777777788888888888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          217 ELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       217 ~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++..+.. +.+..+|..+...+.+.|++++|.+.++++.+..|.
T Consensus       241 ~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  283 (368)
T 1fch_A          241 TAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG  283 (368)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            7776532 335677777778888888888888888887777665

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=98.60  E-value=1.8e-06  Score=73.90  Aligned_cols=131  Identities=5%  Similarity=-0.153  Sum_probs=77.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+...+...|++++|.+.|++..+.  ...+..++..+...|...|++++|.+.|++....  .+.+...++.+...|.+
T Consensus       130 ~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~  205 (330)
T 3hym_B          130 AYGHSFAVESEHDQAMAAYFTAAQL--MKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSI--APEDPFVMHEVGVVAFQ  205 (330)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--TTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHH
Confidence            4455555666666666666666553  1223455555666666666666666666666532  34445666666666666


Q ss_pred             CCChhHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVG--------CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g--------~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|...|++..+..        ...+..+|..+...+.+.|++++|.+.+++..+..|+
T Consensus       206 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  268 (330)
T 3hym_B          206 NGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQ  268 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             cccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCcc
Confidence            666666666666655310        1223456666666666666666666666666655544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.58  E-value=2.7e-06  Score=69.97  Aligned_cols=129  Identities=8%  Similarity=-0.103  Sum_probs=106.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC-----------CCHHHHHHHHHHhHhcCCCCcCHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN-----------GLFQHVEILYFYLKTENSLEPEIQ  194 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~-----------g~~~~A~~lf~~M~~~~G~~pd~~  194 (275)
                      .+-..+.+.|++++|...|++..+.  -+.+...|..+-..|.+.           |++++|+..|++....  -+-+..
T Consensus        44 ~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~  119 (217)
T 2pl2_A           44 WLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAP  119 (217)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHH
Confidence            3445667889999999999998874  233577888888889988           9999999999988643  233567


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|..+-..|...|++++|...|++..+..  .+...+..+-..|...|++++|...+++..+..|.
T Consensus       120 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~  183 (217)
T 2pl2_A          120 LHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPK  183 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            88888888999999999999999988766  67888889999999999999999999998888775

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.57  E-value=3.8e-06  Score=69.25  Aligned_cols=130  Identities=8%  Similarity=-0.041  Sum_probs=105.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCC-----------------------CCC-CHHHHHHHHHHHHcCCCHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQW-----------------------YKP-QVSLYADMIQVFGTNGLFQHVEILYF  181 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g-----------------------~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~  181 (275)
                      .+...|.+.|++++|.+.|++..+...                       ..| +...|..+...|...|++++|+..|+
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  163 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYT  163 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            445566667777777777776655210                       122 45678889999999999999999999


Q ss_pred             HhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          182 YLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       182 ~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      +....  .+.+..+|..+...|.+.|++++|...|++..+.. +.+...|..+...+.+.|++++|.+.+++..+..
T Consensus       164 ~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          164 EMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            98754  35578899999999999999999999999988643 3357789999999999999999999999999988

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=98.54  E-value=1.7e-06  Score=73.97  Aligned_cols=125  Identities=9%  Similarity=-0.023  Sum_probs=109.9

Q ss_pred             HHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChh
Q 023910          131 LLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       131 ~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~  210 (275)
                      +...|++++|.+.|++..+.  ...+..++..+...|.+.|++++|.+.|++....  .+.+..+|..+...|.+.|+++
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  223 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEM--NPNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQ  223 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHH
Confidence            66778899999999999885  3447899999999999999999999999998754  3456889999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          211 LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       211 ~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +|...|++..+.. +.+..+|..+...+.+.|++++|.+.++++.+..|.
T Consensus       224 ~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  272 (327)
T 3cv0_A          224 EALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVG  272 (327)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc
Confidence            9999999987542 336778999999999999999999999999998887

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.52  E-value=1e-05  Score=63.91  Aligned_cols=131  Identities=8%  Similarity=-0.115  Sum_probs=110.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+-..|.+.|++++|...+......  ...+...+..+-..+...++++.|...+.+....  .+-+...+..+-..|.
T Consensus        43 ~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~  118 (184)
T 3vtx_A           43 LKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILGSANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYD  118 (184)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHH
Confidence            34556778899999999999999874  3446778888888999999999999999988753  3556788999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|++++|.+.|++..+.. +-+..+|..+-..|.+.|++++|.+.+++.++..|+
T Consensus       119 ~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  173 (184)
T 3vtx_A          119 SMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKKALEKEEK  173 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTHH
T ss_pred             HhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhCCcc
Confidence            9999999999999987542 236678899999999999999999999999887664

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.51  E-value=2.5e-05  Score=67.32  Aligned_cols=131  Identities=7%  Similarity=-0.050  Sum_probs=108.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|++++|.++|++..+.  ...+...|..+...|...|++++|+..|++....  .+.+..+|..+...|.
T Consensus       124 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~  199 (359)
T 3ieg_A          124 RSQALDAFDGADYTAAITFLDKILEV--CVWDAELRELRAECFIKEGEPRKAISDLKAASKL--KSDNTEAFYKISTLYY  199 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            34567888999999999999999885  3457889999999999999999999999999753  4567899999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHH------------HHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYR------------TVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~------------~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++++|...|++..+.. +.+...+.            .+...+.+.|++++|.+.++++.+..|+
T Consensus       200 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~  266 (359)
T 3ieg_A          200 QLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS  266 (359)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS
T ss_pred             HcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            9999999999999988532 11222222            2366689999999999999999988776

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.51  E-value=1.9e-06  Score=72.02  Aligned_cols=126  Identities=10%  Similarity=-0.100  Sum_probs=106.6

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChh
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKP--QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p--~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~  210 (275)
                      ..|++++|...|+++.+.....+  +..+|..+...|...|++++|...|++....  .+.+..+|..+...|.+.|+++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHccCHH
Confidence            35789999999999987411111  4788999999999999999999999998754  3457899999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          211 LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       211 ~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +|...|++..+.. +.+...|..+...|.+.|++++|.+.++++.+..|..
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  144 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPND  144 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCC
Confidence            9999999998642 2256789999999999999999999999999988764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.51  E-value=1.5e-05  Score=62.81  Aligned_cols=132  Identities=8%  Similarity=-0.020  Sum_probs=110.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+=..|.+.|++++|.+.|++..+.  -+-+..+|..+-..|.+.|++++|+..+......  ..-+...+..+-..+
T Consensus         8 y~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~   83 (184)
T 3vtx_A            8 YMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHHHHH
Confidence            345556777889999999999999884  2346889999999999999999999999998754  345677788888889


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ...++++.|...+.+..+.. +-+...+..+-..|.+.|++++|.+.+++..+..|.
T Consensus        84 ~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~  139 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG  139 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch
Confidence            99999999999999887532 235678889999999999999999999999888765

>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=98.49  E-value=7.6e-06  Score=62.90  Aligned_cols=133  Identities=8%  Similarity=-0.021  Sum_probs=106.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+-..+...|++++|...|++..+.  ...+..+|..+-..|...|++++|+..|++....  .+.+...|..+-..|
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            345566777899999999999999874  2447889999999999999999999999998753  345678899999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSY--RTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty--~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+.|++++|...|++..+..- -+...+  -.+...+.+.|++++|.+.+......+.+.
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~  150 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSL  150 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHHhccc
Confidence            999999999999999885421 133344  444455778899999999999888776554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.49  E-value=3.3e-06  Score=69.59  Aligned_cols=153  Identities=10%  Similarity=-0.013  Sum_probs=115.1

Q ss_pred             hHHHHHHHHhhhc-HHhHHHHHHHHHhcCCHHHHHHHHHHhHHcC-CCCCC----HHHHHHHHHHHHcCCCHHHHHHHHH
Q 023910          108 LDHVFNSKFRRLL-KFDMIAVLRELLRQNHCLLALKVFEDIRKEQ-WYKPQ----VSLYADMIQVFGTNGLFQHVEILYF  181 (275)
Q Consensus       108 ~~~~~~~~~~~l~-~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~-g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~  181 (275)
                      ....|...+.... ...+..+...|...|++++|.+.|+...+.. ...|+    ..+|..+...|.+.|++++|...|+
T Consensus        24 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  103 (258)
T 3uq3_A           24 AIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQ  103 (258)
T ss_dssp             HHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            3455555544331 1234567778888999999999999887631 11122    5889999999999999999999999


Q ss_pred             HhHhcC------------------------CCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 023910          182 YLKTEN------------------------SLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVING  237 (275)
Q Consensus       182 ~M~~~~------------------------G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  237 (275)
                      +.....                        -.+.+...|..+...|.+.|++++|...|++..+.. +.+..+|..+...
T Consensus       104 ~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~  182 (258)
T 3uq3_A          104 KSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAA  182 (258)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHH
Confidence            987521                        022345678888888999999999999999987542 3367788999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          238 LEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |.+.|++++|.+.+++..+..|..
T Consensus       183 ~~~~~~~~~A~~~~~~al~~~~~~  206 (258)
T 3uq3_A          183 LAKLMSFPEAIADCNKAIEKDPNF  206 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHhCCHHHHHHHHHHHHHhCHHH
Confidence            999999999999999999888763

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.46  E-value=2.2e-06  Score=72.76  Aligned_cols=137  Identities=9%  Similarity=0.028  Sum_probs=106.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcC-----CC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc--C---CCCc-
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQ-----WY-KPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE--N---SLEP-  191 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~-----g~-~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~--~---G~~p-  191 (275)
                      +..+...|...|++++|.+.|++..+..     +- .....+|+.+-..|...|++++|++.|++....  .   +-.| 
T Consensus       114 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  193 (311)
T 3nf1_A          114 LNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPN  193 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHH
Confidence            3456677888999999999999987631     11 224577888999999999999999999987642  0   1133 


Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhC------------------------------------------------C
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTV------------------------------------------------G  223 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~------------------------------------------------g  223 (275)
                      ...+++.+...|.+.|++++|..+|++..+.                                                .
T Consensus       194 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  273 (311)
T 3nf1_A          194 VAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVD  273 (311)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCC
Confidence            3468899999999999999999999988742                                                1


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          224 CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       224 ~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      -..+..+|..+...|.+.|++++|.+++++..+..++
T Consensus       274 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          274 SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            1234567889999999999999999999999887654

>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=98.45  E-value=1.8e-05  Score=63.84  Aligned_cols=129  Identities=8%  Similarity=-0.121  Sum_probs=109.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+...|++++|.+.|++.     +.|+...|..+-..|.+.|++++|+..|++....  .+.+...|..+-.+|.+
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHH
Confidence            4455677899999999999876     3568899999999999999999999999998754  35577899999999999


Q ss_pred             CCChhHHHHHHHHHHhCC--------------CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          206 FKLRDLVVDCYELMKTVG--------------CEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g--------------~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .|++++|...|+...+..              ..| +...+..+-..|.+.|++++|.+.++...+..|+.
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            999999999999988532              222 23677888899999999999999999999988864

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=7.9e-06  Score=59.21  Aligned_cols=101  Identities=8%  Similarity=0.012  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ..+|..+...|...|++++|.++|+++...  .+.+..++..+...|.+.|++++|..+|+++.+.. +.+..++..+..
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            344555555555555555555555555432  22344555555555555566666655555555321 223445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.+.|++++|.+.++++.+..|.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~  109 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELDPN  109 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCC
Confidence            555666666666666555555443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.43  E-value=7.1e-08  Score=88.25  Aligned_cols=118  Identities=15%  Similarity=0.199  Sum_probs=60.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .++.+|.+.|+++++.++++        .|+..+|+.+.+.|...|++++|..+|..+          ..|+.|..++++
T Consensus        99 ~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~  160 (449)
T 1b89_A           99 ELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVH  160 (449)
T ss_dssp             ----------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT----------TCHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHH
Confidence            55667777777776666653        245567777777777777777777777665          147777777777


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH----------HHHHHhCCccchHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQ----------DAFKYYGDLEFLEED  267 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~----------~m~~~~~~~~~~~e~  267 (275)
                      .|++++|.+.+..+      -+..||..++.+|+..|+++.|.....          ++.+.|-+.|..+|.
T Consensus       161 Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l~~lv~~Yek~G~~eEa  226 (449)
T 1b89_A          161 LGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEEL  226 (449)
T ss_dssp             TTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhHHHHHHHHHHCCCHHHH
Confidence            77777777777766      266788888888888888888764332          344455555555554

>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=98.42  E-value=5.5e-06  Score=60.70  Aligned_cols=99  Identities=8%  Similarity=-0.005  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGL  238 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  238 (275)
                      .|+.+...|...|++++|..+|+++...  .+.+...|..+...+...|++++|..+|+++.+.+ +.+...+..+...+
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            5788899999999999999999999754  34578889999999999999999999999998643 34677888999999


Q ss_pred             HhcCCHHHHHHHHHHHHHHhCC
Q 023910          239 EAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       239 ~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ...|++++|.++++++.+..|.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~  101 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPR  101 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCC
Confidence            9999999999999999887765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.42  E-value=1.5e-05  Score=68.66  Aligned_cols=132  Identities=8%  Similarity=-0.015  Sum_probs=110.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC----CHHHHHHH------------HHHHHcCCCHHHHHHHHHHhHhcC
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKP----QVSLYADM------------IQVFGTNGLFQHVEILYFYLKTEN  187 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p----~~~tyn~L------------i~~~~~~g~~~~A~~lf~~M~~~~  187 (275)
                      +..+...+.+.|++++|.+.|++..+.   .|    +...+..+            ...+...|++++|++.|++.... 
T Consensus        74 ~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-  149 (359)
T 3ieg_A           74 RLQRGHLLLKQGKLDEAEDDFKKVLKS---NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV-  149 (359)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhc---CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-
Confidence            345667778889999999999999773   45    44555554            57889999999999999998754 


Q ss_pred             CCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          188 SLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       188 G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                       .+.+...+..+-..|.+.|++++|...+++..+.. +.+..++..+...+...|++++|.+.+++..+..|..
T Consensus       150 -~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  221 (359)
T 3ieg_A          150 -CVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDH  221 (359)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC
T ss_pred             -CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccc
Confidence             45678899999999999999999999999998642 4477889999999999999999999999999887764

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.41  E-value=2.1e-05  Score=56.92  Aligned_cols=110  Identities=7%  Similarity=0.022  Sum_probs=87.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+...+.+.|++++|.++|+++.+.  ...+..+|..+...|.+.|++++|...|+++...  .+.+..++..+...|
T Consensus        12 ~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~   87 (125)
T 1na0_A           12 WYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHH
Confidence            345567788899999999999999885  2457889999999999999999999999998754  355788999999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGL  238 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  238 (275)
                      .+.|++++|...|+++.+.. +-+...+..+-..+
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  121 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK  121 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            99999999999999987542 12334444444443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.39  E-value=5.8e-07  Score=82.22  Aligned_cols=124  Identities=10%  Similarity=-0.004  Sum_probs=87.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      .+..+.+.|...|++++|...|..+.          .|+.|.+++.+.|++++|++.+.++  .     ++.||..++.+
T Consensus       124 a~~~IGd~~~~~g~yeeA~~~Y~~a~----------n~~~LA~~L~~Lg~yq~AVea~~KA--~-----~~~~Wk~v~~a  186 (449)
T 1b89_A          124 HIQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKA--N-----STRTWKEVCFA  186 (449)
T ss_dssp             -------------CTTTHHHHHHHTT----------CHHHHHHHHHTTTCHHHHHHHHHHH--T-----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhh----------hHHHHHHHHHHhccHHHHHHHHHHc--C-----CchhHHHHHHH
Confidence            45688889999999999999999871          4999999999999999999999887  1     78999999999


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC-ccchHHHH
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD-LEFLEEDE  268 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~-~~~~~e~~  268 (275)
                      |+..|+++.|......+   .+.|+  ....++..|.+.|++++|..+++.....-+. ++++.|+-
T Consensus       187 Cv~~~ef~lA~~~~l~L---~~~ad--~l~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~  248 (449)
T 1b89_A          187 CVDGKEFRLAQMCGLHI---VVHAD--ELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELA  248 (449)
T ss_dssp             HHHTTCHHHHHHTTTTT---TTCHH--HHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHH---HhCHh--hHHHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            99999999996554432   23444  4557889999999999999999987655544 35555553

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.39  E-value=1.1e-05  Score=73.45  Aligned_cols=130  Identities=8%  Similarity=-0.092  Sum_probs=94.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|++++|..+|++..+.   .|+..+|..+...|...|++++|...|++....  .+.+...|..+...|.
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~  315 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIEL---FPRVNSYIYMALIMADRNDSTEYYNYFDKALKL--DSNNSSVYYHRGQMNF  315 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTT--CTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhh---CccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhc--CcCCHHHHHHHHHHHH
Confidence            35566677788888888888888774   234777778888888888888888888877642  3446677777888888


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++++|...|++..+.. +.+...+..+...+.+.|++++|.++++++.+..|.
T Consensus       316 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  370 (514)
T 2gw1_A          316 ILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE  370 (514)
T ss_dssp             HTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc
Confidence            8888888888888776542 224556777777777788888888888777766554

>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=98.36  E-value=5.1e-06  Score=69.19  Aligned_cols=135  Identities=10%  Similarity=-0.003  Sum_probs=107.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcC-----CC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc------CCCCcC
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQ-----WY-KPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE------NSLEPE  192 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~-----g~-~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~------~G~~pd  192 (275)
                      ..+-..|...|++++|...|++..+..     +- .....+|+.+-..|...|++++|++.|++....      ......
T Consensus        47 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  126 (283)
T 3edt_B           47 NILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDV  126 (283)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHH
Confidence            345667788999999999999887631     11 224678999999999999999999999987642      111334


Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          193 IQGFNALLKCLVGFKLRDLVVDCYELMKTV------GCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       193 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~------g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ..+|..+-..|...|++++|..+|++..+.      +-.| +..++..+...|.+.|++++|.+++++..+..+
T Consensus       127 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~  200 (283)
T 3edt_B          127 AKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAH  200 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            688999999999999999999999998753      2233 456888999999999999999999999988744

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.36  E-value=6.2e-06  Score=69.93  Aligned_cols=137  Identities=9%  Similarity=0.013  Sum_probs=107.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHc------CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC-----CC-Cc
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKE------QWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTEN-----SL-EP  191 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~------~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~-----G~-~p  191 (275)
                      +..+-..|...|++++|...|++..+.      ........+|+.+...|...|++++|.+.|++.....     +- ..
T Consensus        72 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  151 (311)
T 3nf1_A           72 LNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPD  151 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChH
Confidence            345667788899999999999988663      1112246788999999999999999999999876421     12 33


Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTV------GCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~------g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ....++.+-..|...|++++|.++|++..+.      +-.| ...++..+...|.+.|++++|.++++++.+..++
T Consensus       152 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  227 (311)
T 3nf1_A          152 VAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHE  227 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            4577889999999999999999999998743      2233 3457888999999999999999999999876543

>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=98.34  E-value=5.9e-06  Score=68.83  Aligned_cols=134  Identities=10%  Similarity=-0.002  Sum_probs=104.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcC-----C-CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc----C-CCCc-
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQ-----W-YKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE----N-SLEP-  191 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~-----g-~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~----~-G~~p-  191 (275)
                      +..+-..|...|++++|.+.|++..+..     . -.....+|..+-..|...|++++|+..|++....    . +-.| 
T Consensus        88 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  167 (283)
T 3edt_B           88 LNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPN  167 (283)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHH
Confidence            3456677888999999999999886630     1 1224678899999999999999999999987642    0 1133 


Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhC------------------------------------------------C
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTV------------------------------------------------G  223 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~------------------------------------------------g  223 (275)
                      +..++..+-..|.+.|++++|..+|++..+.                                                .
T Consensus       168 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (283)
T 3edt_B          168 VAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD  247 (283)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC
Confidence            4578999999999999999999999988742                                                1


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          224 CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       224 ~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      ...+..++..+...|.+.|++++|.+++++..+.
T Consensus       248 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          248 SPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            1223457888999999999999999999987754

>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=98.32  E-value=1.8e-05  Score=72.76  Aligned_cols=127  Identities=8%  Similarity=-0.137  Sum_probs=64.3

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKL  208 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~  208 (275)
                      ..|...|++++|.+.|++..+.  ...+..+|..+...|...|++++|+..|++....  .+-+...|..+...|.+.|+
T Consensus       284 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~  359 (537)
T 3fp2_A          284 LTLADKENSQEFFKFFQKAVDL--NPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL--NPENVYPYIQLACLLYKQGK  359 (537)
T ss_dssp             HHTCCSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHHHHHHhcc--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            3344445555555555555442  1223455555555555555555555555555432  12233455555555555555


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          209 RDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       209 ~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +++|..+|++..+.. +.+...|..+...+.+.|++++|.+.++++.+..|.
T Consensus       360 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  410 (537)
T 3fp2_A          360 FTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEV  410 (537)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCc
Confidence            555555555554321 123345555555555555555555555555555443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.32  E-value=2.5e-05  Score=67.43  Aligned_cols=132  Identities=10%  Similarity=0.041  Sum_probs=102.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHH-HcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVF-GTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~-~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ..+...+.+.|++++|.++|++..+.  ..++...|....... ...|+.++|..+|+...+.  .+-+...|..++..+
T Consensus       138 ~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~  213 (308)
T 2ond_A          138 IQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYL  213 (308)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHH
Confidence            35556667788899999999988773  123444554443332 2368999999999887653  334678899999999


Q ss_pred             HhCCChhHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVG-CEP--DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g-~~p--d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|++++|..+|+...+.. +.|  +...|..++..+.+.|+.+.|..+++++.+.+|+
T Consensus       214 ~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~  273 (308)
T 2ond_A          214 SHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  273 (308)
T ss_dssp             HTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTT
T ss_pred             HHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc
Confidence            99999999999999998763 565  4668888899999999999999999999999997

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.31  E-value=9.3e-06  Score=74.00  Aligned_cols=132  Identities=7%  Similarity=-0.029  Sum_probs=83.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC----HHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE----IQGFNALLK  201 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd----~~tyn~lI~  201 (275)
                      .+...|.+.|++++|..+|++..+.  ...+..+|..+...|.+.|++++|...|+++.....-.|+    ...|..+..
T Consensus       343 ~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~  420 (514)
T 2gw1_A          343 QLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKAT  420 (514)
T ss_dssp             HHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHH
Confidence            4455555667777777777776653  2234566666777777777777777777666432111112    336777777


Q ss_pred             HHHh---CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          202 CLVG---FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       202 ~~~~---~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|.+   .|++++|...|+...+.. +.+..++..+...|.+.|++++|.+.+++..+..|+
T Consensus       421 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  481 (514)
T 2gw1_A          421 LLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLART  481 (514)
T ss_dssp             HHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             HHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccc
Confidence            7777   777777777777766432 224556667777777777777777777777776665

>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=98.30  E-value=3.5e-05  Score=63.01  Aligned_cols=130  Identities=5%  Similarity=-0.084  Sum_probs=105.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      ..-..+.+.|++++|...|++..+. .-.++...|..+-..|.+.|++++|++.|++....  -+-+...|..+-..|.+
T Consensus        12 ~~g~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~   88 (228)
T 4i17_A           12 NEGNDALNAKNYAVAFEKYSEYLKL-TNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKSAAYRD   88 (228)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHhc-cCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHHHHHHH
Confidence            4445677889999999999999884 22268888888999999999999999999998743  23356788999999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCC-H-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPD-R-------SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd-~-------~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|...|++..+.  .|+ .       ..|..+-..+.+.|++++|.+.+++..+..|.
T Consensus        89 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  149 (228)
T 4i17_A           89 MKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSK  149 (228)
T ss_dssp             TTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCH
T ss_pred             cccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCC
Confidence            99999999999988753  233 3       45777888888999999999999998877665

>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=98.29  E-value=1.2e-05  Score=73.94  Aligned_cols=131  Identities=7%  Similarity=-0.076  Sum_probs=113.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+-..+...|++++|.+.|++..+.   .|+..+|..+-..|...|++++|...|++....  .+.+..+|..+...|
T Consensus       246 ~~~~g~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~  320 (537)
T 3fp2_A          246 LCYTGIFHFLKNNLLDAQVLLQESINL---HPTPNSYIFLALTLADKENSQEFFKFFQKAVDL--NPEYPPTYYHRGQMY  320 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc--CCCCHHHHHHHHHHH
Confidence            345566788899999999999999884   567889999999999999999999999998754  345688999999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|++++|...|++..+.. +-+...|..+...+.+.|++++|.++++++.+..|.
T Consensus       321 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~  376 (537)
T 3fp2_A          321 FILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT  376 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999998543 224578899999999999999999999999988776

>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=98.27  E-value=2e-05  Score=61.85  Aligned_cols=124  Identities=7%  Similarity=-0.035  Sum_probs=91.9

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH-HHhCCCh--
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC-LVGFKLR--  209 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~-~~~~g~~--  209 (275)
                      ..|++++|...|+...+.  ...+...|..+-..|...|++++|+..|++....  .+.+...|..+-.+ |...|++  
T Consensus        22 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             -----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcch
Confidence            457778888888887664  2346788888888898999999999999887643  23366777777777 7788888  


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          210 DLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       210 ~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ++|...|++..+.. +-+...+..+...|...|++++|.+.+++..+..|.-
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            99999988887542 2245677788888889999999999999988888764

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.24  E-value=1.7e-05  Score=73.30  Aligned_cols=132  Identities=7%  Similarity=-0.118  Sum_probs=111.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC---------CCHHHHHHHHHHhHhcCCCCcCHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN---------GLFQHVEILYFYLKTENSLEPEIQG  195 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~---------g~~~~A~~lf~~M~~~~G~~pd~~t  195 (275)
                      ..+-..|.+.|++++|.+.|++..+   ..|+...|..+-..|...         |++++|++.|++....  -+-+...
T Consensus       141 ~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~  215 (474)
T 4abn_A          141 NQLGEVYWKKGDVTSAHTCFSGALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRS  215 (474)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHH
Confidence            3556677888999999999999977   368889999999999999         9999999999998753  3446788


Q ss_pred             HHHHHHHHHhC--------CChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          196 FNALLKCLVGF--------KLRDLVVDCYELMKTVGC--EPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       196 yn~lI~~~~~~--------g~~~~A~~l~~~M~~~g~--~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |..+-.+|...        |++++|...|++..+..-  .-+...|..+-..|.+.|++++|.+.+++..+..|..
T Consensus       216 ~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~  291 (474)
T 4abn_A          216 WYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAW  291 (474)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            99999999988        999999999999885421  1378889999999999999999999999998887763

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.24  E-value=4.5e-05  Score=66.61  Aligned_cols=147  Identities=9%  Similarity=-0.045  Sum_probs=109.5

Q ss_pred             hHHHHHHHHhhh--cHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          108 LDHVFNSKFRRL--LKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWY-KPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       108 ~~~~~~~~~~~l--~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~-~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      ....+..++..-  .......+-..+...|+.++|++++.+-... |- .-+...+-.++..|.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~-~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDN-DEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhcc-CCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            345555554321  1223345667788899999999999987553 21 1267888889999999999999999999997


Q ss_pred             hcCCCCc-----CHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          185 TENSLEP-----EIQGFNALLKCLVG----FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       185 ~~~G~~p-----d~~tyn~lI~~~~~----~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      .   ..|     +..+...|..++..    .++..+|+.+|+++.+.  .|+..+-..++.++.+.|++++|++.++.+.
T Consensus       164 ~---~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 N---AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             H---HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             h---cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4   467     36666667766333    34999999999999754  3665566677779999999999999999988


Q ss_pred             HHhCC
Q 023910          256 KYYGD  260 (275)
Q Consensus       256 ~~~~~  260 (275)
                      +.||+
T Consensus       239 ~~~p~  243 (310)
T 3mv2_B          239 SDYYS  243 (310)
T ss_dssp             SHHHH
T ss_pred             Hhccc
Confidence            88754

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.24  E-value=6e-05  Score=61.70  Aligned_cols=127  Identities=13%  Similarity=-0.011  Sum_probs=107.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|++++|...|++..+.  -..+...|..+-..|.+.|++++|+..|++....  -+-+...|..+-..|.+
T Consensus        10 ~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~   85 (217)
T 2pl2_A           10 RLGVQLYALGRYDAALTLFERALKE--NPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVLSEAYVA   85 (217)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHH
Confidence            4455677899999999999999874  2446888999999999999999999999998753  24467889999999999


Q ss_pred             C-----------CChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          206 F-----------KLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       206 ~-----------g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      .           |++++|...|++..+.  .| +...|..+-..|...|++++|.+.+++..+..
T Consensus        86 ~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  148 (217)
T 2pl2_A           86 LYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE  148 (217)
T ss_dssp             HHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc
Confidence            9           9999999999998753  34 56788888999999999999999999987764

>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=98.24  E-value=6.1e-05  Score=73.40  Aligned_cols=130  Identities=12%  Similarity=0.012  Sum_probs=87.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      +..+-..|.+.|++++|.+.|++..+.   .| +...|+.|-..|.+.|++++|++.|++..+.  -+-+...|+.+-.+
T Consensus        46 ~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~  120 (723)
T 4gyw_A           46 HSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASI  120 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            345566666777777777777777663   33 4667777777777777777777777766532  12245677777777


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |.+.|++++|...|++..+.  .| +...|..+...|...|++++|.+.+++..+..++
T Consensus       121 ~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~~~~~kal~l~~~  177 (723)
T 4gyw_A          121 HKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYDERMKKLVSIVAD  177 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHHHHHHHHHHhChh
Confidence            77777777777777776542  23 3556677777777777777777777777666554

>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=98.23  E-value=9.3e-05  Score=63.29  Aligned_cols=135  Identities=10%  Similarity=-0.069  Sum_probs=103.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC----HHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQV----SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE----IQGFN  197 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~----~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd----~~tyn  197 (275)
                      ..+..+.+.|++++|.+++++..+.....|+.    ..|..+...|...|++++|+..|++.....--.+|    ..+|+
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            45778889999999999999998743333442    24445777788888999999999998752111233    34799


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHh----C-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKT----V-GCEPDR-SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~----~-g~~pd~-~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+-..|...|++++|...|++..+    . +..+.. .+|..+...|.+.|++++|.+.+++.++..++
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~  228 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCR  228 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998873    2 333333 37888999999999999999999998876543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.21  E-value=7.7e-05  Score=62.11  Aligned_cols=130  Identities=8%  Similarity=-0.079  Sum_probs=77.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      +...|.+.|++++|.+.|++..+. +-.|+  ..+|..+-..|.+.|++++|++.|++....  .+-+...|..+-..|.
T Consensus        43 l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~  119 (272)
T 3u4t_A           43 RAVCYYELAKYDLAQKDIETYFSK-VNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDR--DTTRLDMYGQIGSYFY  119 (272)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT-SCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhc-cCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CcccHHHHHHHHHHHH
Confidence            344556667777777777776652 22222  334666777777777777777777766542  2334466777777777


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++++|...|++..+. -+-+...|..+-..+...+++++|.+.++++.+..|.
T Consensus       120 ~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~  174 (272)
T 3u4t_A          120 NKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELKPN  174 (272)
T ss_dssp             HTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcc
Confidence            777777777777665543 1223444444442333445777777777776666554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.20  E-value=2.9e-05  Score=64.77  Aligned_cols=131  Identities=9%  Similarity=0.027  Sum_probs=106.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC--HHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE--IQGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd--~~tyn~lI~~~  203 (275)
                      ..-..+.+.|++++|..+|++..+.  ...+...|..+...|.+.|++++|+..|++.... +-.|+  ...|..+-..|
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAK--KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSK-VNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHT--TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTT-SCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-cCchhHHHHHHHHHHHHH
Confidence            4456777899999999999999884  2234558888999999999999999999998752 32222  34589999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|++++|...|+...+.. +-+..+|..+-..|...|++++|.+.+++..+..|.
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~  140 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT  140 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC
T ss_pred             HHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC
Confidence            99999999999999988532 224578999999999999999999999987766554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.20  E-value=9.6e-05  Score=53.73  Aligned_cols=115  Identities=6%  Similarity=-0.017  Sum_probs=82.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|++++|...|++..+.  ...+...|..+...|...|++++|++.|++....  .+.+...|..+-..|.
T Consensus        16 ~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           16 KTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHHHHHH
Confidence            34556666788888888888888764  2346777888888888888888888888887643  3345677888888888


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEV  244 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~  244 (275)
                      +.|++++|...|++..+.. +.+...+..+...+.+.|++
T Consensus        92 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            8888888888888776432 12455666666666666553

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.20  E-value=3.9e-05  Score=67.03  Aligned_cols=141  Identities=11%  Similarity=0.018  Sum_probs=105.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-----CHHHHHHHHHHHHc----CCCHHHHHHHHHHhHhcCCCCcCHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKP-----QVSLYADMIQVFGT----NGLFQHVEILYFYLKTENSLEPEIQ  194 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-----~~~tyn~Li~~~~~----~g~~~~A~~lf~~M~~~~G~~pd~~  194 (275)
                      +...+..+.+.|+.+.|.++++.|.+.   .|     +..+...|..++..    .++.++|..+|+++...   .|+..
T Consensus       139 ~~l~vqi~L~~~r~d~A~k~l~~~~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~  212 (310)
T 3mv2_B          139 LLLAIEVALLNNNVSTASTIFDNYTNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWK  212 (310)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcc
Confidence            346788899999999999999999874   56     35555666656332    34899999999999643   46655


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhC-----CC---CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchH
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTV-----GC---EP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLE  265 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~-----g~---~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~  265 (275)
                      +-..+++++.+.|++++|..+++.+.+.     +-   .| |..+...+|......|+  +|.++++++.+..|+--++.
T Consensus       213 ~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~  290 (310)
T 3mv2_B          213 TQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIK  290 (310)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHH
T ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHH
Confidence            5566666899999999999999977632     11   23 55566456655666776  89999999999999987777


Q ss_pred             HHHHHHh
Q 023910          266 EDEEDIA  272 (275)
Q Consensus       266 e~~~~~~  272 (275)
                      ..+++.+
T Consensus       291 d~~~k~~  297 (310)
T 3mv2_B          291 HHQEIDA  297 (310)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.20  E-value=0.00017  Score=60.32  Aligned_cols=141  Identities=10%  Similarity=0.019  Sum_probs=104.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHc--------CCCHHHHHHHHHHhHhcCCCCcCHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGT--------NGLFQHVEILYFYLKTENSLEPEIQG  195 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~--------~g~~~~A~~lf~~M~~~~G~~pd~~t  195 (275)
                      ..+-..|.+.|++++|...|+...+...-.|+ ...+..+-..|.+        .|++++|+..|++.....  +-+...
T Consensus        56 ~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~  133 (261)
T 3qky_A           56 FYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELV  133 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTH
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhH
Confidence            45556778899999999999999885222223 4567777788888        999999999999987542  212233


Q ss_pred             H-----------------HHHHHHHHhCCChhHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhc----------CCHHH
Q 023910          196 F-----------------NALLKCLVGFKLRDLVVDCYELMKTVG-CEP-DRSSYRTVINGLEAM----------EEVAF  246 (275)
Q Consensus       196 y-----------------n~lI~~~~~~g~~~~A~~l~~~M~~~g-~~p-d~~ty~~li~~~~~~----------g~~~~  246 (275)
                      .                 ..+-..|.+.|++++|...|++..+.. -.| ....+..+..+|.+.          |++++
T Consensus       134 ~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~  213 (261)
T 3qky_A          134 DDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRR  213 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHH
Confidence            3                 455677899999999999999988532 112 345677777778766          89999


Q ss_pred             HHHHHHHHHHHhCCccchHHH
Q 023910          247 SGIIRQDAFKYYGDLEFLEED  267 (275)
Q Consensus       247 A~~l~~~m~~~~~~~~~~~e~  267 (275)
                      |.+.++++.+.+|+-....+.
T Consensus       214 A~~~~~~~~~~~p~~~~~~~a  234 (261)
T 3qky_A          214 AVELYERLLQIFPDSPLLRTA  234 (261)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHH
T ss_pred             HHHHHHHHHHHCCCChHHHHH
Confidence            999999999999986444433

>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=98.15  E-value=7.6e-05  Score=54.41  Aligned_cols=92  Identities=8%  Similarity=0.067  Sum_probs=40.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC-CCCcC----HHHHHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTEN-SLEPE----IQGFNALLK  201 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~-G~~pd----~~tyn~lI~  201 (275)
                      +-..+...|++++|...|++..+.  ...+...|..+-..|...|++++|...|++..... ...++    ..+|..+-.
T Consensus        10 l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~   87 (131)
T 1elr_A           10 LGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHH
Confidence            334444455555555555554442  12234444444455555555555555554443210 00111    344444444


Q ss_pred             HHHhCCChhHHHHHHHHHH
Q 023910          202 CLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~  220 (275)
                      .|.+.|++++|...|+...
T Consensus        88 ~~~~~~~~~~A~~~~~~~~  106 (131)
T 1elr_A           88 SYFKEEKYKDAIHFYNKSL  106 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHH
Confidence            4444455555554444444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.13  E-value=5.9e-05  Score=55.36  Aligned_cols=102  Identities=12%  Similarity=0.029  Sum_probs=63.8

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVI  235 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li  235 (275)
                      +...|..+-..|.+.|++++|+..|++....  .+.+...|..+-..|...|++++|...|++..+.. ..+...+..+.
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            4566666666666677777777777666532  23355666666666666777777777766665421 22455666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          236 NGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       236 ~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..+.+.|++++|.+.+++..+..|.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p~  116 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDSS  116 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCCC
Confidence            6667777777777777766666554

>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=98.13  E-value=0.0011  Score=55.36  Aligned_cols=121  Identities=9%  Similarity=-0.055  Sum_probs=75.2

Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHhHhcCCCCcCHHHHH
Q 023910          126 AVLRELLR----QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT----NGLFQHVEILYFYLKTENSLEPEIQGFN  197 (275)
Q Consensus       126 ~li~~~~~----~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~----~g~~~~A~~lf~~M~~~~G~~pd~~tyn  197 (275)
                      .+-..|..    .+++++|.+.|++..+. +   +..++..|-..|..    .|++++|+..|++.... +   +...+.
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~  150 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDL-K---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHc-C---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHH
Confidence            44445555    66667777766666653 2   56666666666666    66677777766666543 3   455555


Q ss_pred             HHHHHHHh----CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHH
Q 023910          198 ALLKCLVG----FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEA----MEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       198 ~lI~~~~~----~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~----~g~~~~A~~l~~~m~~~  257 (275)
                      .+-..|..    .+++++|...|+...+.+   +...+..+-..|.+    .+++++|.+.++...+.
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~  215 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACEL  215 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhC
Confidence            66666665    666777777776666553   34555666666666    67777777777666554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.11  E-value=0.00039  Score=58.00  Aligned_cols=137  Identities=11%  Similarity=0.032  Sum_probs=103.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-HHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-IQGFNALLKC  202 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-~~tyn~lI~~  202 (275)
                      ..+-..+.+.|++++|...|++..+...-.|. ...+..+-..|.+.|++++|+..|+.......-.|+ ...+..+-.+
T Consensus        19 ~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~   98 (261)
T 3qky_A           19 FERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMC   98 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHH
Confidence            34455677899999999999999885211111 678888899999999999999999998754211222 4567777788


Q ss_pred             HHh--------CCChhHHHHHHHHHHhCC-CCCCHH-HH--------------HHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          203 LVG--------FKLRDLVVDCYELMKTVG-CEPDRS-SY--------------RTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       203 ~~~--------~g~~~~A~~l~~~M~~~g-~~pd~~-ty--------------~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      |.+        .|++++|...|++..+.. -.+... ..              ..+-..|.+.|++++|...++++.+.+
T Consensus        99 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~  178 (261)
T 3qky_A           99 YYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAY  178 (261)
T ss_dssp             HHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            888        999999999999988432 222222 11              455777899999999999999999999


Q ss_pred             CCc
Q 023910          259 GDL  261 (275)
Q Consensus       259 ~~~  261 (275)
                      |+-
T Consensus       179 p~~  181 (261)
T 3qky_A          179 PDT  181 (261)
T ss_dssp             TTS
T ss_pred             CCC
Confidence            874

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.10  E-value=7.7e-05  Score=58.09  Aligned_cols=108  Identities=9%  Similarity=-0.032  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ...|..+-..|.+.|++++|+..|+.....  -+-+...|..+-.+|.+.|++++|...|+...+.. +-+...|..+-.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            445666666777777777777777777643  23356677777777777777777777777776422 113456666777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCCccchHHH
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGDLEFLEED  267 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~  267 (275)
                      +|.+.|++++|.+.|+...+..|.-...+..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~~~~~~~~~A  143 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHSNDEKLKIKA  143 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            7777777777777777777777765433333

>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=98.10  E-value=0.00016  Score=67.76  Aligned_cols=130  Identities=8%  Similarity=-0.125  Sum_probs=110.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..|.+.|++++|.+.|++..+.  -..+...|..+-..|.+.|++++|.+.|++....  -+-+...|..+-.+|.+
T Consensus        28 ~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~  103 (568)
T 2vsy_A           28 MLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVLLQQASDA--APEHPGIALWLGHALED  103 (568)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHH
Confidence            4455677889999999999999874  2346889999999999999999999999998753  34467899999999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM---EEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~---g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|.+.|++..+.. .-+...+..+...+...   |+.++|.+.+++..+..|+
T Consensus       104 ~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p~  160 (568)
T 2vsy_A          104 AGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGVG  160 (568)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTCC
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCCc
Confidence            999999999999987542 23567888999999999   9999999999999988776

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.09  E-value=0.00011  Score=53.36  Aligned_cols=103  Identities=9%  Similarity=-0.103  Sum_probs=89.0

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVI  235 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li  235 (275)
                      +...|..+...+...|++++|+..|++....  .+.+...|..+...|...|++++|...++...+.. +.+...+..+.
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            4677888889999999999999999998754  34578899999999999999999999999988542 23577888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          236 NGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       236 ~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ..+.+.|++++|.+.+++..+..|+.
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~p~~  113 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELDPDN  113 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCccc
Confidence            99999999999999999999988764

>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=98.08  E-value=8.5e-05  Score=53.05  Aligned_cols=99  Identities=6%  Similarity=-0.158  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGL  238 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  238 (275)
                      .|..+...+...|++++|...|++....  .+.+...+..+-..|.+.|++++|...+++..+.. +.+...+..+...+
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            3444444444555555555555544322  12234444444444555555555555554444321 11334444444555


Q ss_pred             HhcCCHHHHHHHHHHHHHHhCC
Q 023910          239 EAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       239 ~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ...|++++|.+.+++..+..|.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~  104 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEAN  104 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHhhHHHHHHHHHHHHHcCCC
Confidence            5555555555555554444443

>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=98.06  E-value=0.00025  Score=57.77  Aligned_cols=129  Identities=6%  Similarity=-0.180  Sum_probs=104.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH-------HHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI-------QGFNA  198 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~-------~tyn~  198 (275)
                      +-..+.+.|++++|.+.|++..+.   .| +...|..+-..|...|++++|+..|++....  .+-+.       ..|..
T Consensus        48 ~~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~  122 (228)
T 4i17_A           48 CGVCADNIKKYKEAADYFDIAIKK---NYNLANAYIGKSAAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLK  122 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHT---TCSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcHHHHHHHHHHHHHh---CcchHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHH
Confidence            445677889999999999999874   34 5678999999999999999999999998753  22234       45777


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCH---------------------------HHHH
Q 023910          199 LLKCLVGFKLRDLVVDCYELMKTVGCEPD---RSSYRTVINGLEAMEEV---------------------------AFSG  248 (275)
Q Consensus       199 lI~~~~~~g~~~~A~~l~~~M~~~g~~pd---~~ty~~li~~~~~~g~~---------------------------~~A~  248 (275)
                      +=..+...|++++|...|++..+.  .|+   ...|..+-..|...|+.                           ++|.
T Consensus       123 ~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~  200 (228)
T 4i17_A          123 EGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAV  200 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHH
Confidence            778888999999999999998754  565   46777777888888877                           8899


Q ss_pred             HHHHHHHHHhCCcc
Q 023910          249 IIRQDAFKYYGDLE  262 (275)
Q Consensus       249 ~l~~~m~~~~~~~~  262 (275)
                      ..+++..+..|+-.
T Consensus       201 ~~~~~a~~l~p~~~  214 (228)
T 4i17_A          201 DYLGEAVTLSPNRT  214 (228)
T ss_dssp             HHHHHHHHHCTTCH
T ss_pred             HHHHHHhhcCCCCH
Confidence            99999999988753

>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=0.00018  Score=55.39  Aligned_cols=101  Identities=12%  Similarity=0.003  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ...+..+-..+.+.|++++|+..|+.....  -+.+...|..+-.+|.+.|++++|...|+...+.. +-+...|..+-.
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            344455555566666666666666665432  23355555566666666666666666666655321 113345555566


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +|...|++++|.+.++...+..|.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~~p~  121 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQELIAN  121 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcC
Confidence            666666666666666666665554

>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=98.05  E-value=0.00025  Score=52.65  Aligned_cols=103  Identities=8%  Similarity=-0.066  Sum_probs=78.5

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 023910          155 PQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTV  234 (275)
Q Consensus       155 p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l  234 (275)
                      .+...|..+-..|.+.|++++|+..|+.....  .+-+...|..+-.+|.+.|++++|...|+...+.. +-+...|..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            36777888888888888888888888877643  23456778888888888888888888888777532 2256677788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          235 INGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       235 i~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      -..|...|++++|.+.+++..+..|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHChh
Confidence            88888888888888888888877765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.04  E-value=0.00029  Score=52.68  Aligned_cols=102  Identities=10%  Similarity=-0.066  Sum_probs=80.4

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC----HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE----IQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY  231 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd----~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty  231 (275)
                      +...|..+-..+.+.|++++|+..|++...   ..|+    ...|..+-..|.+.|++++|...+++..+.. ..+...|
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            577788888888888888888888888763   3565    6778888888888888888888888876431 2256677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          232 RTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       232 ~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ..+-..+...|++++|.+.+++..+..|..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~p~~  132 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLEPKN  132 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCc
Confidence            788888888899999999998888887764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.04  E-value=0.00018  Score=54.53  Aligned_cols=100  Identities=8%  Similarity=-0.070  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 023910          158 SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVING  237 (275)
Q Consensus       158 ~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  237 (275)
                      ..+..+-..+.+.|++++|+..|+.....  -+-+...|..+-.+|.+.|++++|...|+...+.. +-+...|..+-.+
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            33444455566666666666666665532  23355556666666666666666666666665321 1133455556666


Q ss_pred             HHhcCCHHHHHHHHHHHHHHhCC
Q 023910          238 LEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |...|++++|.+.++...+..|.
T Consensus        96 ~~~~g~~~~A~~~~~~al~~~p~  118 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSARALAAA  118 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC
Confidence            66666666666666666666553

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.03  E-value=0.00011  Score=63.24  Aligned_cols=127  Identities=6%  Similarity=-0.026  Sum_probs=100.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-H-HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-V-SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~-~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      ..+...+.+.|++++|.++|++..+.   .|+ . ..|..+...+.+.|++++|..+|++....  .+++...|......
T Consensus       103 ~~~~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~  177 (308)
T 2ond_A          103 FAYADYEESRMKYEKVHSIYNRLLAI---EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALM  177 (308)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTS---SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhc---cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHH
Confidence            35566677899999999999999873   454 3 38999999999999999999999998743  23455556544443


Q ss_pred             HH-hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          203 LV-GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       203 ~~-~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      .. ..|+.++|..+|+...+.. +-+...|..++..+.+.|++++|..+|+...+.
T Consensus       178 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~  232 (308)
T 2ond_A          178 EYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  232 (308)
T ss_dssp             HHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHS
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            32 3799999999999987431 225678899999999999999999999999884

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.03  E-value=7.6e-05  Score=52.88  Aligned_cols=102  Identities=15%  Similarity=0.015  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC-CCCHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGC-EPDRSSYRTVI  235 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~-~pd~~ty~~li  235 (275)
                      ...|..+-..|.+.|++++|...|++....  .+.+...|..+-..|.+.|++++|...|++..+..- ..+...+..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            344556666677777777777777776543  233556667777777777777777777777664321 11456667777


Q ss_pred             HHHHhc-CCHHHHHHHHHHHHHHhCC
Q 023910          236 NGLEAM-EEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       236 ~~~~~~-g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..+.+. |++++|.+.+++..+..|.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcccC
Confidence            777777 7777777777776665553

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.02  E-value=0.00021  Score=52.29  Aligned_cols=114  Identities=13%  Similarity=0.042  Sum_probs=88.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+-..+.+.|++++|.+.|++..+.  ...+...|..+-..|...|++++|+..|++....  .+.+...|..+-..|
T Consensus        19 ~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~   94 (133)
T 2lni_A           19 VKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHHHHHHH
Confidence            345566778899999999999999774  2347889999999999999999999999998754  344678999999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME  242 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g  242 (275)
                      .+.|++++|...|++..+..- -+...+..+-..+.+.|
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDS-SCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCG-GGTHHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHhc
Confidence            999999999999998875321 12344555555554443

>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=98.02  E-value=0.00065  Score=56.86  Aligned_cols=140  Identities=6%  Similarity=-0.086  Sum_probs=114.2

Q ss_pred             chHHHHHHHHhhhcHHhHHHHHHHHHh----cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHc----CCCHHHHHH
Q 023910          107 PLDHVFNSKFRRLLKFDMIAVLRELLR----QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT----NGLFQHVEI  178 (275)
Q Consensus       107 ~~~~~~~~~~~~l~~~~~~~li~~~~~----~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~----~g~~~~A~~  178 (275)
                      .....|...+..-....+..+-..|..    .+++++|.+.|++..+. +   +..++..|-..|..    .+++++|+.
T Consensus        24 ~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~g~~~~~~~~~A~~   99 (273)
T 1ouv_A           24 QAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL-N---YSNGCHLLGNLYYSGQGVSQNTNKALQ   99 (273)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHhCCCCcccCHHHHHH
Confidence            344556655553333345566677778    99999999999999884 4   78889999999999    999999999


Q ss_pred             HHHHhHhcCCCCcCHHHHHHHHHHHHh----CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHH
Q 023910          179 LYFYLKTENSLEPEIQGFNALLKCLVG----FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEA----MEEVAFSGII  250 (275)
Q Consensus       179 lf~~M~~~~G~~pd~~tyn~lI~~~~~----~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~----~g~~~~A~~l  250 (275)
                      .|++.... +   +...+..+-..|..    .|++++|...|++..+.+   +...+..+-..|..    .+++++|.+.
T Consensus       100 ~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~  172 (273)
T 1ouv_A          100 YYSKACDL-K---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALAS  172 (273)
T ss_dssp             HHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHc-C---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            99998754 3   78889999999999    999999999999998876   56677788888888    9999999999


Q ss_pred             HHHHHHH
Q 023910          251 RQDAFKY  257 (275)
Q Consensus       251 ~~~m~~~  257 (275)
                      +++..+.
T Consensus       173 ~~~a~~~  179 (273)
T 1ouv_A          173 YDKACDL  179 (273)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHC
Confidence            9998765

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.02  E-value=0.00021  Score=53.38  Aligned_cols=101  Identities=12%  Similarity=-0.020  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 023910          158 SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVING  237 (275)
Q Consensus       158 ~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  237 (275)
                      ..|..+=+.|.+.|++++|++.|++....  -+-+...|..+-.+|.+.|++++|...|+...+.. +.+...|..+-.+
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~   90 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHH
Confidence            44555666677777777777777776532  23456677777777777777777777777766431 2245567777777


Q ss_pred             HHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          238 LEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |...|++++|.+.|++..+..|+-
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~P~~  114 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVDPSN  114 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHCCCHHHHHHHHHHHHHHCcCC
Confidence            777777777777777777777663

>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=98.01  E-value=0.00017  Score=70.32  Aligned_cols=128  Identities=12%  Similarity=0.099  Sum_probs=110.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKC  202 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~  202 (275)
                      ..+=..|.+.|++++|.+.|++..+.   .| +..+|+.|-..|.+.|++++|++.|++..+-   .| +...|+.+-.+
T Consensus        13 ~nLG~~~~~~G~~~eAi~~~~kAl~l---~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~nLg~~   86 (723)
T 4gyw_A           13 NNLANIKREQGNIEEAVRLYRKALEV---FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHH
Confidence            34556778899999999999999884   34 5889999999999999999999999998643   34 57899999999


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |.+.|++++|.+.|++..+.  .| +...|+.+-..|.+.|++++|.+.+++..+..|+
T Consensus        87 l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~  143 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD  143 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999988753  34 5678999999999999999999999999888765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.01  E-value=0.00016  Score=61.87  Aligned_cols=145  Identities=10%  Similarity=0.008  Sum_probs=106.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcC--CCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhH---hcCCCCc--CHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQ--WYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLK---TENSLEP--EIQGFN  197 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~--g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~---~~~G~~p--d~~tyn  197 (275)
                      +...+...|++++|...|++..+..  ...+.  ..+|+.+-..|...|++++|+..|++..   ...+-.+  +..+|+
T Consensus       121 ~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~  200 (293)
T 2qfc_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHH
Confidence            4445667889999999999886521  11122  5589999999999999999999999875   2211122  226899


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCCHHHH-HHHHHHHHHHhCCc---cchHHHH
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKT----VGCEPD-RSSYRTVINGLEAMEEVAFS-GIIRQDAFKYYGDL---EFLEEDE  268 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~----~g~~pd-~~ty~~li~~~~~~g~~~~A-~~l~~~m~~~~~~~---~~~~e~~  268 (275)
                      .+-..|.+.|++++|...+++..+    .+.... ..+|..+-..|.+.|++++| ...+++....+...   .+.++++
T Consensus       201 nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~~~~~~~~~~~~  280 (293)
T 2qfc_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILEMHAYKEALV  280 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCcHhhHHHHH
Confidence            999999999999999999998752    222222 56888899999999999999 88888877665443   3555554


Q ss_pred             HHH
Q 023910          269 EDI  271 (275)
Q Consensus       269 ~~~  271 (275)
                      ..+
T Consensus       281 ~~~  283 (293)
T 2qfc_A          281 NKI  283 (293)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.01  E-value=0.00015  Score=56.18  Aligned_cols=101  Identities=7%  Similarity=-0.088  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ...|..+-..|.+.|++++|+..|++....  .+-+...|..+-.+|.+.|++++|...|+...+.. .-+...|..+-.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            344555555555556666666655555432  12245555555555556666666666655554321 113445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|.+.|++++|.+.+++..+..|+
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~  111 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGN  111 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC
Confidence            566666666666666665555554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.98  E-value=8.6e-05  Score=55.95  Aligned_cols=137  Identities=9%  Similarity=-0.084  Sum_probs=102.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCc-CHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEP-EIQGF  196 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~p-d~~ty  196 (275)
                      ..+-..+...|++++|...|++..+...-.++    ..+++.+-..|...|++++|.+.|++....   .+-.+ ....+
T Consensus        13 ~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   92 (164)
T 3ro3_A           13 GNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSC   92 (164)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            34555677889999999999887652100112    257888999999999999999999986531   11111 25678


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          197 NALLKCLVGFKLRDLVVDCYELMKT----VGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       197 n~lI~~~~~~g~~~~A~~l~~~M~~----~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ..+-..|...|++++|...+++..+    .+-.+ ....+..+-..+...|++++|.+.+++..+...+.
T Consensus        93 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  162 (164)
T 3ro3_A           93 YSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREV  162 (164)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHh
Confidence            8888899999999999999988762    23222 24567888889999999999999999998877654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.97  E-value=0.00032  Score=51.46  Aligned_cols=93  Identities=9%  Similarity=-0.044  Sum_probs=48.7

Q ss_pred             HHHHcCCCHHHHHHHHHHhHhcCCCCcCH---HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCC----HHHHHHHHHH
Q 023910          165 QVFGTNGLFQHVEILYFYLKTENSLEPEI---QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPD----RSSYRTVING  237 (275)
Q Consensus       165 ~~~~~~g~~~~A~~lf~~M~~~~G~~pd~---~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd----~~ty~~li~~  237 (275)
                      ..+.+.|++++|...|+......  +.+.   ..+..+-.+|.+.|++++|...|+...+..  |+    ...+..+-.+
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~   85 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHH
Confidence            34445555666666555554321  1111   244455555555666666666665554321  21    3344555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          238 LEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +.+.|++++|.+.+++..+.+|.-
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p~~  109 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYPGS  109 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTS
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCC
Confidence            666666666666666666666654

>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=97.97  E-value=0.00012  Score=53.32  Aligned_cols=103  Identities=10%  Similarity=-0.105  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCC--CCCC----HHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVG--CEPD----RSS  230 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g--~~pd----~~t  230 (275)
                      ...|..+-..|...|++++|...|++....  .+.+...|..+-..|.+.|++++|...+++..+..  ..++    ..+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            456888889999999999999999998754  35578889999999999999999999999987432  2233    678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          231 YRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       231 y~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |..+...+.+.|++++|.+.+++..+..+..
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  112 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAEHRTP  112 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCH
Confidence            8899999999999999999999999988764

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=97.97  E-value=0.0002  Score=64.32  Aligned_cols=166  Identities=7%  Similarity=-0.091  Sum_probs=118.2

Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHH---hHHHHHHHHHhcCC-HHHHHHHHHHhHHcCCCCCCHHHHHHHHH
Q 023910           90 EAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKF---DMIAVLRELLRQNH-CLLALKVFEDIRKEQWYKPQVSLYADMIQ  165 (275)
Q Consensus        90 ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~---~~~~li~~~~~~g~-~~~A~~lf~~m~~~~g~~p~~~tyn~Li~  165 (275)
                      ++...+..+.............|+..+. +.+.   .+..+-..|.+.|+ +++|+..|++..+.  -.-+...|+.+-.
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~-l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l--~P~~~~a~~~~g~  174 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIE-LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHH-HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHH-hCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            3333333333333322344455555543 2222   23456667777886 99999999998884  2336788999999


Q ss_pred             HHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCCH
Q 023910          166 VFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEA-MEEV  244 (275)
Q Consensus       166 ~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~-~g~~  244 (275)
                      .|.+.|++++|+..|++....  -.-|...|+.+-.++.+.|++++|+..|+++.+..- -+...|+.+-..+.+ .|..
T Consensus       175 ~~~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcc
Confidence            999999999999999988753  244778899999999999999999999999885432 266788888888888 6666


Q ss_pred             HHH-----HHHHHHHHHHhCCc
Q 023910          245 AFS-----GIIRQDAFKYYGDL  261 (275)
Q Consensus       245 ~~A-----~~l~~~m~~~~~~~  261 (275)
                      ++|     .+.+++.++..|.-
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~~  273 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPHN  273 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTC
T ss_pred             hHHHHHHHHHHHHHHHHHCCCC
Confidence            777     58888888888876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.97  E-value=8.3e-05  Score=68.58  Aligned_cols=128  Identities=13%  Similarity=-0.060  Sum_probs=110.0

Q ss_pred             HHHHHHHhcCCH-HHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHC-LLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~-~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      .+-..|...|++ ++|.+.|++..+.  -.-+...|+.|-..|.+.|++++|++.|++...   ..|+...|..+-..|.
T Consensus       107 ~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~lg~~~~  181 (474)
T 4abn_A          107 LKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTCFSGALT---HCKNKVSLQNLSMVLR  181 (474)
T ss_dssp             HHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCHHHHHHHHHHHH
Confidence            455566778999 9999999999884  233588999999999999999999999999873   5688899999999999


Q ss_pred             hC---------CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHHHhC
Q 023910          205 GF---------KLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM--------EEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       205 ~~---------g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~--------g~~~~A~~l~~~m~~~~~  259 (275)
                      ..         |++++|...|++..+.. +-+...|..+-.+|...        |++++|.+.+++..+..|
T Consensus       182 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p  252 (474)
T 4abn_A          182 QLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDR  252 (474)
T ss_dssp             TCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCG
T ss_pred             HhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCC
Confidence            99         99999999999988542 23577888999999988        999999999999998877

>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=97.95  E-value=0.0003  Score=52.56  Aligned_cols=103  Identities=12%  Similarity=0.012  Sum_probs=63.4

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhC--CCCCC----HHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTV--GCEPD----RSS  230 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~--g~~pd----~~t  230 (275)
                      ..++.-|=+.|.+.|++++|++.|++...-  -+-+...|+.+-.+|.+.|++++|+..|+...+.  ...++    ..+
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHH
Confidence            345555666666777777777777665532  2334566666666777777777777776665421  11112    134


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          231 YRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       231 y~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |..+-..+...|++++|.+.+++..+..+.-
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~~~~~  116 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSEFRDP  116 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSCCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcCH
Confidence            5556666777777777777777777766653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.93  E-value=7.5e-05  Score=64.02  Aligned_cols=137  Identities=7%  Similarity=-0.095  Sum_probs=101.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcC-CCHHHHHHHHHHhHhc---CCCCcC-HH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTN-GLFQHVEILYFYLKTE---NSLEPE-IQ  194 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~-g~~~~A~~lf~~M~~~---~G~~pd-~~  194 (275)
                      +..+-..|.+.|++++|...|++..+-..-..+    ..+|+.+-..|... |++++|+..|++-..-   .|-.+. ..
T Consensus        80 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~  159 (292)
T 1qqe_A           80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHH
Confidence            345667788899999999999887652100012    46888999999996 9999999999986531   111111 46


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDR------SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~------~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +|+.+-..|.+.|++++|...|++..+..-....      .+|..+..++...|++++|...+++..+..|.
T Consensus       160 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~  231 (292)
T 1qqe_A          160 CFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPN  231 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            7899999999999999999999998864432221      25677888899999999999999998776665

>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=97.93  E-value=0.00043  Score=50.88  Aligned_cols=98  Identities=9%  Similarity=-0.095  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 023910          158 SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVING  237 (275)
Q Consensus       158 ~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  237 (275)
                      ..|..+-..+.+.|++++|+..|++....  -+.+...|..+-.+|.+.|++++|...|+...+.. +-+...|..+-.+
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            34555555666666777777666665532  23355666666666666777777777666665421 1235566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHHh
Q 023910          238 LEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      +...|++++|.+.+++..+..
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhC
Confidence            777777777777777766666

>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=97.91  E-value=0.00076  Score=57.50  Aligned_cols=135  Identities=11%  Similarity=-0.027  Sum_probs=104.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cC-CCCcCH-HHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKT---EN-SLEPEI-QGFN  197 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~-G~~pd~-~tyn  197 (275)
                      +...+...|++++|...|++..+...-.++    ..+|+.|-..|...|++++|+..|++...   .. +..+.. .+|+
T Consensus       121 l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  200 (293)
T 3u3w_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHH
T ss_pred             HHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHH
Confidence            445556678999999999999873111233    34799999999999999999999998763   11 223333 4889


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHH----hCCCCCC-HHHHHHHHHHHHhcCC-HHHHHHHHHHHHHHhCCc
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMK----TVGCEPD-RSSYRTVINGLEAMEE-VAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~----~~g~~pd-~~ty~~li~~~~~~g~-~~~A~~l~~~m~~~~~~~  261 (275)
                      .+-..|.+.|++++|...+++..    +.+..+. ...|..+-..+.+.|+ +++|.+.+++....+...
T Consensus       201 nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i~~~~  270 (293)
T 3u3w_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDIL  270 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999998765    3443443 6788899999999995 699999999988776544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.91  E-value=5.2e-05  Score=64.35  Aligned_cols=137  Identities=9%  Similarity=-0.066  Sum_probs=100.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCc-CHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEP-EIQGFN  197 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~p-d~~tyn  197 (275)
                      .+-..+...|++++|.+.|++..+...-.++    ..+|..+...|...|++++|...|++....   .+-.+ ...++.
T Consensus       188 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  267 (338)
T 3ro2_A          188 NLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCY  267 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHH
Confidence            5566777889999999999987652100112    348888999999999999999999986531   11111 157888


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKTV----GCE-PDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~~----g~~-pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      .+-..|.+.|++++|...+++..+.    +-. ....++..+...|.+.|++++|.+.+++..+.+++++
T Consensus       268 ~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~  337 (338)
T 3ro2_A          268 SLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVG  337 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhhc
Confidence            8999999999999999999987632    211 1245778899999999999999999999998776653

>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=97.91  E-value=0.0003  Score=61.82  Aligned_cols=128  Identities=5%  Similarity=-0.060  Sum_probs=106.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----------------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCC
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----------------VSLYADMIQVFGTNGLFQHVEILYFYLKTENSL  189 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----------------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~  189 (275)
                      .+-..|.+.|++++|...|++..+.   .|+                ..+|+.+-..|.+.|++++|+..|++....  -
T Consensus       152 ~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~  226 (336)
T 1p5q_A          152 ERGTVYFKEGKYKQALLQYKKIVSW---LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL--D  226 (336)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH---TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH---hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            4556777899999999999999884   333                589999999999999999999999998753  3


Q ss_pred             CcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHHHHhC
Q 023910          190 EPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFS-GIIRQDAFKYYG  259 (275)
Q Consensus       190 ~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A-~~l~~~m~~~~~  259 (275)
                      +-+...|..+-.+|.+.|++++|...|++..+.. +-+...+..+-..+.+.|+.++| ..+++.|...+.
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  296 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFERLA  296 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4578899999999999999999999999987542 23567888899999999999999 567777765543

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=97.89  E-value=0.00017  Score=67.66  Aligned_cols=122  Identities=6%  Similarity=-0.137  Sum_probs=89.1

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHH
Q 023910          134 QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVV  213 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~  213 (275)
                      .|++++|.+.|++..+.  -.-+...|..+-..|.+.|++++|++.|++....  -+-+...|..+-..|.+.|++++|.
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~   77 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAA   77 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            47889999999998763  2335888999999999999999999999998743  3446789999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          214 DCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       214 ~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++..+.. .-+...|..+-..|.+.|++++|.+.+++..+..|+
T Consensus        78 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  123 (568)
T 2vsy_A           78 VLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE  123 (568)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            9999987542 235678899999999999999999999999888775

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=97.89  E-value=0.00043  Score=52.80  Aligned_cols=102  Identities=4%  Similarity=-0.152  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ...|..+-..|...|++++|...|++....  .+.+...|..+-..|.+.|++++|...|++..+.. +.+...|..+..
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            456788888999999999999999998753  34478899999999999999999999999987542 336778889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+.+.|++++|.+.+++..+..|+.
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~  114 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHD  114 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999887763

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=97.88  E-value=0.0013  Score=46.55  Aligned_cols=94  Identities=13%  Similarity=-0.028  Sum_probs=80.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+...+...|++++|.+.|+...+.  ...+...|..+-..|.+.|++++|...+++....  .+.+...|..+-.+|.
T Consensus         8 ~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            8 KEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHHHHHH
Confidence            45566777899999999999999884  2447888999999999999999999999998753  3446888999999999


Q ss_pred             hCCChhHHHHHHHHHHhC
Q 023910          205 GFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~  222 (275)
                      +.|++++|...|++..+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTT
T ss_pred             HHhhHHHHHHHHHHHHHc
Confidence            999999999999998754

>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=97.88  E-value=8.2e-05  Score=57.34  Aligned_cols=121  Identities=8%  Similarity=-0.025  Sum_probs=79.1

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHH
Q 023910          134 QNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLV  212 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A  212 (275)
                      .|+++.|++.|......   .| +...+-.|-..|.+.|++++|++.|++..+.  -+-+..+|..+-..|.+.|++++|
T Consensus        10 ~~~~e~ai~~~~~a~~~---~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A           10 KADVERYIASVQGSTPS---PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             HHHHHHHHHHHHHHSCS---HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cChHHHHHHHHHHhccc---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchHHH
Confidence            35666777766665331   22 2344555667777778888888877776542  233567777777777778888888


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHHhCCc
Q 023910          213 VDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGII-RQDAFKYYGDL  261 (275)
Q Consensus       213 ~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l-~~~m~~~~~~~  261 (275)
                      ...|+...+.  .| +...|..+-..|.+.|++++|.+. ++...+..|+-
T Consensus        85 ~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~  133 (150)
T 4ga2_A           85 VECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGS  133 (150)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCC
Confidence            8777776642  33 455677777777777777665543 57777777764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.88  E-value=0.00022  Score=57.92  Aligned_cols=127  Identities=6%  Similarity=-0.070  Sum_probs=95.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF  206 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~  206 (275)
                      +-..|.+.|++++|...|++..+.  -+-+...|..+-..|...|++++|+..|++....  -+-+..+|..+-..|...
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQK--APNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHH
Confidence            666788899999999999999885  2346889999999999999999999999998753  234677888888888766


Q ss_pred             CC--hhHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          207 KL--RDLVVDCYELMKTVGCEPDRS--SYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       207 g~--~~~A~~l~~~M~~~g~~pd~~--ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |.  .+.+...++...    .|+..  .+..+-.++...|++++|.+.|++.++.+|..
T Consensus       136 ~~~~~~~~~~~~~~~~----~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          136 AEQEKKKLETDYKKLS----SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             hHHHHHHHHHHHHHHh----CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            54  344555555432    34433  33334445666899999999999999999974

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.87  E-value=0.00022  Score=56.50  Aligned_cols=137  Identities=9%  Similarity=-0.029  Sum_probs=102.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHH---cCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCc--CHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRK---EQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEP--EIQGF  196 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~---~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~p--d~~ty  196 (275)
                      .+-..+...|++++|...|++..+   +.|..| ...+++.+-..|...|++++|.+.|++....   .|-.|  ....+
T Consensus        31 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  110 (203)
T 3gw4_A           31 MLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANA  110 (203)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHH
Confidence            444567788999999999998766   111112 3567888889999999999999999876532   22122  24668


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          197 NALLKCLVGFKLRDLVVDCYELMKT----VGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       197 n~lI~~~~~~g~~~~A~~l~~~M~~----~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      +.+-..|...|++++|...+++..+    .+-.+ -..++..+-..+...|++++|.+.+++..+.+.+.+
T Consensus       111 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  181 (203)
T 3gw4_A          111 YEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDIFAELE  181 (203)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcC
Confidence            8888899999999999999988762    22211 133467888889999999999999999988877664

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.87  E-value=0.0025  Score=52.03  Aligned_cols=134  Identities=10%  Similarity=-0.068  Sum_probs=77.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH-HHHHHHHHHHHc------------------CCCHHHHHHHHHHhH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQV-SLYADMIQVFGT------------------NGLFQHVEILYFYLK  184 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~-~tyn~Li~~~~~------------------~g~~~~A~~lf~~M~  184 (275)
                      +..+...|.+.|++++|...|++..+...-.+.. ..+-.+-..|.+                  .|+.++|+..|++..
T Consensus        44 ~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l  123 (225)
T 2yhc_A           44 QLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLV  123 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHH
Confidence            4456667777777777777777776642212221 133333333332                  456777777777776


Q ss_pred             hcCCCCcCH-HHH-----------------HHHHHHHHhCCChhHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCH
Q 023910          185 TENSLEPEI-QGF-----------------NALLKCLVGFKLRDLVVDCYELMKTVG-CEP-DRSSYRTVINGLEAMEEV  244 (275)
Q Consensus       185 ~~~G~~pd~-~ty-----------------n~lI~~~~~~g~~~~A~~l~~~M~~~g-~~p-d~~ty~~li~~~~~~g~~  244 (275)
                      +.   -|+. ..+                 -.+-..|.+.|++++|...|+++.+.- -.| ....+..+..++.+.|+.
T Consensus       124 ~~---~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~  200 (225)
T 2yhc_A          124 RG---YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMN  200 (225)
T ss_dssp             TT---CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCH
T ss_pred             HH---CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCc
Confidence            43   2332 111                 123345666777777777777776421 111 124566677777777777


Q ss_pred             HHHHHHHHHHHHHhCC
Q 023910          245 AFSGIIRQDAFKYYGD  260 (275)
Q Consensus       245 ~~A~~l~~~m~~~~~~  260 (275)
                      ++|.+.++.+...+|+
T Consensus       201 ~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          201 AQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHhhCCC
Confidence            7777777777666665

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.85  E-value=0.00049  Score=51.37  Aligned_cols=95  Identities=17%  Similarity=0.138  Sum_probs=80.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF  206 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~  206 (275)
                      .=+.|.+.|++++|++.|++..+.  -..+..+|..+-..|.+.|++++|+..|++..+-  -+.+...|..+-.+|...
T Consensus        19 ~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~   94 (126)
T 4gco_A           19 KGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRL--DSKFIKGYIRKAACLVAM   94 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHh--hhhhhHHHHHHHHHHHHC
Confidence            445678899999999999998874  2447899999999999999999999999998753  244678999999999999


Q ss_pred             CChhHHHHHHHHHHhCCCCCC
Q 023910          207 KLRDLVVDCYELMKTVGCEPD  227 (275)
Q Consensus       207 g~~~~A~~l~~~M~~~g~~pd  227 (275)
                      |++++|.+.|++..+.  .|+
T Consensus        95 ~~~~~A~~~~~~al~l--~P~  113 (126)
T 4gco_A           95 REWSKAQRAYEDALQV--DPS  113 (126)
T ss_dssp             TCHHHHHHHHHHHHHH--CTT
T ss_pred             CCHHHHHHHHHHHHHH--CcC
Confidence            9999999999988753  454

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.85  E-value=0.00052  Score=48.37  Aligned_cols=93  Identities=9%  Similarity=-0.081  Sum_probs=78.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc--CHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP--EIQGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p--d~~tyn~lI~~~  203 (275)
                      .+-..+.+.|++++|...|++..+.  ...+...|..+-..|...|++++|+..|++....  ...  +...|..+-..|
T Consensus        11 ~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A           11 LEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINV--IEDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--SCCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccchHHHHHHHHHHH
Confidence            3445677899999999999999874  2447888999999999999999999999998753  233  588999999999


Q ss_pred             HhC-CChhHHHHHHHHHHhC
Q 023910          204 VGF-KLRDLVVDCYELMKTV  222 (275)
Q Consensus       204 ~~~-g~~~~A~~l~~~M~~~  222 (275)
                      .+. |++++|.+.++...+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHhCCHHHHHHHHHHHhhc
Confidence            999 9999999999998754

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.85  E-value=0.001  Score=54.40  Aligned_cols=137  Identities=11%  Similarity=0.029  Sum_probs=98.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH-HHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI-QGFNALLKC  202 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~-~tyn~lI~~  202 (275)
                      ..+-..+.+.|++++|...|+++.+...-.|. ...+..+...|.+.|++++|+..|++..+...-.|.. ..+-.+-.+
T Consensus         8 ~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~   87 (225)
T 2yhc_A            8 YATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLT   87 (225)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHH
Confidence            34445677889999999999999885322232 4678888999999999999999999987542122222 234333344


Q ss_pred             HHh------------------CCChhHHHHHHHHHHhCCCCCCHH-HH-----------------HHHHHHHHhcCCHHH
Q 023910          203 LVG------------------FKLRDLVVDCYELMKTVGCEPDRS-SY-----------------RTVINGLEAMEEVAF  246 (275)
Q Consensus       203 ~~~------------------~g~~~~A~~l~~~M~~~g~~pd~~-ty-----------------~~li~~~~~~g~~~~  246 (275)
                      +.+                  .|+.++|...|++..+.  .|+.. .+                 -.+-..|.+.|++++
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~  165 (225)
T 2yhc_A           88 NMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVA  165 (225)
T ss_dssp             HHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHH
Confidence            433                  67999999999999853  23221 11                 245667899999999


Q ss_pred             HHHHHHHHHHHhCCccc
Q 023910          247 SGIIRQDAFKYYGDLEF  263 (275)
Q Consensus       247 A~~l~~~m~~~~~~~~~  263 (275)
                      |...++++++.||+-..
T Consensus       166 A~~~~~~~l~~~p~~~~  182 (225)
T 2yhc_A          166 VVNRVEGMLRDYPDTQA  182 (225)
T ss_dssp             HHHHHHHHHHHSTTSHH
T ss_pred             HHHHHHHHHHHCcCCCc
Confidence            99999999999987543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.84  E-value=0.00016  Score=63.41  Aligned_cols=138  Identities=8%  Similarity=-0.091  Sum_probs=105.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCcC-HHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEPE-IQGF  196 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~pd-~~ty  196 (275)
                      ..+-..|...|++++|.+.|++..+...-.++    ..+|+.+-..|...|++++|...|++....   .+-.+. ..++
T Consensus       191 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  270 (406)
T 3sf4_A          191 GNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSC  270 (406)
T ss_dssp             HHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHH
Confidence            35566777889999999999988652111122    348888999999999999999999986531   111111 5788


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          197 NALLKCLVGFKLRDLVVDCYELMKT----VGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       197 n~lI~~~~~~g~~~~A~~l~~~M~~----~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      ..+-..|.+.|++++|...|++..+    .+-.+ ...++..+-..|.+.|++++|.+.+++..+...+.+
T Consensus       271 ~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  341 (406)
T 3sf4_A          271 YSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVG  341 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999998763    22222 155788889999999999999999999888766553

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.83  E-value=0.0013  Score=55.94  Aligned_cols=136  Identities=10%  Similarity=-0.046  Sum_probs=101.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC--CCCcC--HHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTEN--SLEPE--IQG  195 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~--G~~pd--~~t  195 (275)
                      +...+..+...|++++|.+.+.+..+.....++    ...+..+...|...|++++|+..|++.....  ...+.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            446678888999999999999988774211111    1234456667788899999999999875321  11222  458


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHh----CCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          196 FNALLKCLVGFKLRDLVVDCYELMKT----VGCEP--DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       196 yn~lI~~~~~~g~~~~A~~l~~~M~~----~g~~p--d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      |+.+-..|...|++++|...|++..+    .+-.+  +..+|+.+-..|.+.|++++|.+.+++..+...
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~  227 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISC  227 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            99999999999999999999998762    22222  125888999999999999999999999876643

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.82  E-value=0.00013  Score=57.78  Aligned_cols=127  Identities=9%  Similarity=0.024  Sum_probs=94.4

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCC-cCHHHHHHHHHHHHhCC
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLE-PEIQGFNALLKCLVGFK  207 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~-pd~~tyn~lI~~~~~~g  207 (275)
                      ...|++++|.++++.....  ......+++.+-..|...|++++|...|++...   +.|.. ....+++.+-..|...|
T Consensus         3 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH--PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS--TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHHHhcCC--hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            3579999999966665442  234678899999999999999999999988654   11222 23467888888999999


Q ss_pred             ChhHHHHHHHHHHh----CCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          208 LRDLVVDCYELMKT----VGCEP--DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       208 ~~~~A~~l~~~M~~----~g~~p--d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++++|...+++..+    .|-.|  ....+..+-..+...|++++|.+.+++..+...+
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~  139 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQ  139 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            99999999988763    33222  2456788888999999999999999998866543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.82  E-value=0.00021  Score=63.27  Aligned_cols=138  Identities=8%  Similarity=-0.057  Sum_probs=106.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCC-CcCHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSL-EPEIQGFN  197 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~-~pd~~tyn  197 (275)
                      .+-..|...|++++|.+.|++..+...-.++    ..+|..+-..|...|++++|...|++....   .+- .....++.
T Consensus       228 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  307 (411)
T 4a1s_A          228 NLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCY  307 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5566778899999999999988663100112    348889999999999999999999887532   111 11257888


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccc
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKTV----GCE-PDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEF  263 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~~----g~~-pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~  263 (275)
                      .+-..|.+.|++++|...|++..+.    +-. ....+|..+...|.+.|++++|.+.+++..+.+.+++-
T Consensus       308 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  378 (411)
T 4a1s_A          308 SLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXXXXX  378 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhccc
Confidence            9999999999999999999987632    211 12457888999999999999999999999999887653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.79  E-value=0.00036  Score=64.73  Aligned_cols=127  Identities=6%  Similarity=-0.014  Sum_probs=81.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      ..+...+.+.|++++|.++|+...+.   .|+  ...|..+...+.+.|++++|.++|+.-...  .+.+...|......
T Consensus       325 ~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~  399 (530)
T 2ooe_A          325 FAYADYEESRMKYEKVHSIYNRLLAI---EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALM  399 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHS---SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhCc---cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHH
Confidence            36666777788888888888888773   443  247888888877788888888888776532  11122222222111


Q ss_pred             -HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          203 -LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       203 -~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                       +...|+.++|..+|+...+.. +-+...|..+++.+.+.|+.++|..+|+.....
T Consensus       400 ~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          400 EYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence             235677777777777665321 124566677777777777777777777776654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.79  E-value=0.00069  Score=57.93  Aligned_cols=131  Identities=6%  Similarity=-0.053  Sum_probs=98.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH-HH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK-CL  203 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~-~~  203 (275)
                      ..+-..+.+.|++++|...|++..+.  -.-+...+..|-..|.+.|++++|..+|++...   ..|+......... .+
T Consensus       121 ~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~~~~~~l  195 (287)
T 3qou_A          121 AQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL---QDQDTRYQGLVAQIEL  195 (287)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG---GGCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch---hhcchHHHHHHHHHHH
Confidence            34556677889999999999999874  233678888999999999999999999998853   3455543333332 36


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+.++.++|...|++..+.. +.+...+..+-..|...|++++|.+.+.++.+..|..
T Consensus       196 ~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~  252 (287)
T 3qou_A          196 LXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTA  252 (287)
T ss_dssp             HHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTG
T ss_pred             HhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccc
Confidence            67778888888888776432 2356778888888999999999999999988876653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.76  E-value=0.0012  Score=50.86  Aligned_cols=93  Identities=5%  Similarity=-0.060  Sum_probs=79.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+-..+.+.|++++|.+.|++..+.  ..-+...|..+-..|.+.|++++|+..|++....  -+-+...|..+-.+|.
T Consensus        15 ~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           15 KSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            34556777899999999999999884  2347889999999999999999999999998753  2446889999999999


Q ss_pred             hCCChhHHHHHHHHHHh
Q 023910          205 GFKLRDLVVDCYELMKT  221 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~  221 (275)
                      +.|++++|...|++..+
T Consensus        91 ~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHH
Confidence            99999999999998874

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=97.75  E-value=0.0005  Score=53.94  Aligned_cols=126  Identities=11%  Similarity=-0.042  Sum_probs=76.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHH-HHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQV-FGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~-~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ..+-..+.+.|++++|...|+...+.   .|+...+..+... +.+.+...+|+..|++....  -+-+...+..+-..|
T Consensus        44 ~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~  118 (176)
T 2r5s_A           44 LAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELHQQAAESPELKRLEQELAA--NPDNFELACELAVQY  118 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHHhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            35556666777888888777777553   2343322221111 11222233466666666532  122467777777777


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAF  255 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~  255 (275)
                      .+.|++++|...|++..+..-.+ +...+..+...+...|+.++|...+++..
T Consensus       119 ~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          119 NQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            88888888888888776543222 34567777777777888888877777654

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=97.75  E-value=0.002  Score=57.80  Aligned_cols=126  Identities=6%  Similarity=-0.090  Sum_probs=80.8

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCC-HHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCC
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL-FQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKL  208 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~-~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~  208 (275)
                      .+.+.|++++|++.|++..+.  -.-+...|+.+-..|...|+ +++|+..|++....  -+-+...|+.+-.+|.+.|+
T Consensus       106 ~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l--~P~~~~a~~~~g~~~~~~g~  181 (382)
T 2h6f_A          106 VLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRVLVEWLRD  181 (382)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHccC
Confidence            344567777777777777663  12246667777777777775 77777777776542  22355667777777777777


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          209 RDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       209 ~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +++|+..|+...+.. .-+...|..+-.++.+.|++++|.+.++++++..|.
T Consensus       182 ~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~  232 (382)
T 2h6f_A          182 PSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR  232 (382)
T ss_dssp             CTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            777777777766421 124556666666777777777777777776666553

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=97.73  E-value=0.0021  Score=47.35  Aligned_cols=93  Identities=6%  Similarity=-0.080  Sum_probs=79.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+-..+.+.|++++|...|+...+.  ...+...|..+-..|.+.|++++|+..|+.....  .+-+...|..+-.+|
T Consensus        12 ~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~   87 (137)
T 3q49_B           12 LKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQ   87 (137)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CchhHHHHHHHHHHH
Confidence            345566778899999999999998874  2446889999999999999999999999998753  344678999999999


Q ss_pred             HhCCChhHHHHHHHHHH
Q 023910          204 VGFKLRDLVVDCYELMK  220 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~  220 (275)
                      .+.|++++|...|+...
T Consensus        88 ~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           88 LEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHH
Confidence            99999999999999876

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.73  E-value=0.0005  Score=59.20  Aligned_cols=130  Identities=7%  Similarity=-0.174  Sum_probs=101.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC--HHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE--IQGFNALLKCL  203 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd--~~tyn~lI~~~  203 (275)
                      .+...|...|++++|.++|+.+...   .|+....-.+-..|.+.|++++|+..|+.....  ..|.  ...+..+=.++
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~--~d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW--PDKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC--SCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc--CCcccHHHHHHHHHHHH
Confidence            5667778899999999999999763   465546666667899999999999999855421  1221  23677778889


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPD--RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd--~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|++++|+..|++-......|.  .......-.++.+.|+.++|..+|+++....|.
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            999999999999999875444364  224555666788999999999999999999887

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.71  E-value=0.00072  Score=62.68  Aligned_cols=133  Identities=11%  Similarity=0.073  Sum_probs=100.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ......+.+.|++++|.++|+...+.....+......+++. +...|+.++|..+|+...+.  .+-+...|..++..+.
T Consensus       360 ~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~-~~~~~~~~~A~~~~e~al~~--~p~~~~~~~~~~~~~~  436 (530)
T 2ooe_A          360 IQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALME-YYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLS  436 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHH-HHHTCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHH-HHHcCChhHHHHHHHHHHHH--CCCCHHHHHHHHHHHH
Confidence            35556666788999999999998774222222222233332 33589999999999987653  2346788999999999


Q ss_pred             hCCChhHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVG-CEPD--RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g-~~pd--~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|+.++|..+|+.....+ ..|+  ...|...+....+.|+.+.+..+.+.+.+.+|+
T Consensus       437 ~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          437 HLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             TTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             hCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            9999999999999988653 3443  557888888888999999999999999999985

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.69  E-value=0.00071  Score=59.76  Aligned_cols=136  Identities=3%  Similarity=-0.065  Sum_probs=103.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCc-CHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEP-EIQG  195 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~p-d~~t  195 (275)
                      ..+-..|...|+++.|...|++..+...-.++     ..+++.|-..|...|++++|++.|++...-   .+-.+ ...+
T Consensus       147 ~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  226 (383)
T 3ulq_A          147 FKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRT  226 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            34556777889999999999887652111122     467888889999999999999999876531   11111 1258


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHh----CCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          196 FNALLKCLVGFKLRDLVVDCYELMKT----VGC-EPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       196 yn~lI~~~~~~g~~~~A~~l~~~M~~----~g~-~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      |+.+-..|...|++++|...|++..+    .+. .-...++..+-..|.+.|++++|.+.+++..+..++
T Consensus       227 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  296 (383)
T 3ulq_A          227 LYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQK  296 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            88899999999999999999998774    244 335667889999999999999999999998876543

>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=97.69  E-value=0.0016  Score=47.69  Aligned_cols=92  Identities=9%  Similarity=0.027  Sum_probs=78.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|++++|...|++..+.  ...+...|..+-..|.+.|++++|+..|++....  -+-+...|..+-.+|..
T Consensus         9 ~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            9 LEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHH
Confidence            4455677899999999999999884  2447899999999999999999999999998753  24467889999999999


Q ss_pred             CCChhHHHHHHHHHHh
Q 023910          206 FKLRDLVVDCYELMKT  221 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~  221 (275)
                      .|++++|...|++..+
T Consensus        85 ~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           85 VKEYASALETLDAART  100 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHH
Confidence            9999999999998874

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=97.68  E-value=0.00079  Score=53.87  Aligned_cols=98  Identities=5%  Similarity=-0.177  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      ...+..+-..|...|++++|+..|++.     +.|+...|..+-..|.+.|++++|...|++..+.. +.+...|..+-.
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~   79 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGM   79 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHH
Confidence            345666777888999999999999765     45688999999999999999999999999987543 346778899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|.+.|++++|.+.+++..+..|+
T Consensus        80 ~~~~~~~~~~A~~~~~~al~~~~~  103 (213)
T 1hh8_A           80 LYYQTEKYDLAIKDLKEALIQLRG  103 (213)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTT
T ss_pred             HHHHcccHHHHHHHHHHHHHhCCC
Confidence            999999999999999999987665

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.67  E-value=0.00098  Score=51.67  Aligned_cols=97  Identities=13%  Similarity=0.097  Sum_probs=81.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|++++|...|+...+.  -+-+...|..+-..|.+.|++++|+..|++...-  -+-+...|..+-.+|.+
T Consensus        41 ~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg~~~~~  116 (151)
T 3gyz_A           41 SYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTGQCQLR  116 (151)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHH
Confidence            4556677899999999999999884  2346889999999999999999999999998753  23356889999999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDR  228 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~  228 (275)
                      .|++++|...|+...+.  .||.
T Consensus       117 lg~~~eA~~~~~~al~l--~~~~  137 (151)
T 3gyz_A          117 LKAPLKAKECFELVIQH--SNDE  137 (151)
T ss_dssp             TTCHHHHHHHHHHHHHH--CCCH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCH
Confidence            99999999999998854  3554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.66  E-value=0.0013  Score=49.66  Aligned_cols=92  Identities=12%  Similarity=-0.014  Sum_probs=77.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|++++|...|++..+.  -..+...|..+-..|.+.|++++|+..|+.....  -+-+...|..+-.+|..
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALM--DINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHH
Confidence            3445677899999999999999874  2347888999999999999999999999998753  24466788889999999


Q ss_pred             CCChhHHHHHHHHHHh
Q 023910          206 FKLRDLVVDCYELMKT  221 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~  221 (275)
                      .|++++|...|+...+
T Consensus        99 ~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           99 LGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            9999999999998774

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.65  E-value=0.00081  Score=57.47  Aligned_cols=136  Identities=11%  Similarity=-0.080  Sum_probs=103.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHc---CCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCCc-CHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKE---QWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLEP-EIQGFN  197 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~---~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~p-d~~tyn  197 (275)
                      .....|...|++++|.+.|++..+-   .|-.++ ..+|+.+-..|.+.|++++|+..|++-..   +.|-.+ -..+|+
T Consensus        42 ~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~  121 (292)
T 1qqe_A           42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (292)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3455677889999999999877542   121122 57899999999999999999999987643   112111 146889


Q ss_pred             HHHHHHHhC-CChhHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          198 ALLKCLVGF-KLRDLVVDCYELMKT----VGCEPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       198 ~lI~~~~~~-g~~~~A~~l~~~M~~----~g~~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+-..|... |++++|...|++-.+    .+-.+. ..+|+.+-..+.+.|++++|.+.+++..+..++.
T Consensus       122 ~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~  191 (292)
T 1qqe_A          122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGN  191 (292)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcC
Confidence            999999996 999999999998763    221111 3578889999999999999999999999887764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.63  E-value=0.0012  Score=58.35  Aligned_cols=136  Identities=3%  Similarity=-0.128  Sum_probs=104.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-----CHHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCCc-CHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKP-----QVSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLEP-EIQGF  196 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-----~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~p-d~~ty  196 (275)
                      .+-..|...|+++.|...+++..+...-.+     ...+++.|-..|...|++++|++.|++...   +.|-.+ ...++
T Consensus       146 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  225 (378)
T 3q15_A          146 KVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISL  225 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            555677889999999999988765211111     256788889999999999999999987653   111111 23678


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHh----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          197 NALLKCLVGFKLRDLVVDCYELMKT----VGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       197 n~lI~~~~~~g~~~~A~~l~~~M~~----~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +.+-..|...|++++|...|++..+    .+.+....++..+-..+.+.|++++|.+.+++..+...+.
T Consensus       226 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  294 (378)
T 3q15_A          226 LNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITAR  294 (378)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHc
Confidence            8888999999999999999998874    1333346788899999999999999999999998886653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.63  E-value=0.003  Score=46.91  Aligned_cols=92  Identities=10%  Similarity=-0.061  Sum_probs=78.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      .+-..+.+.|++++|.+.|++..+.   .|+    ...|..+-..|...|++++|+..|++....  .+.+...|..+-.
T Consensus        33 ~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~  107 (148)
T 2dba_A           33 KEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHHHHHHHH
Confidence            4445667889999999999999773   566    688999999999999999999999998753  2346788899999


Q ss_pred             HHHhCCChhHHHHHHHHHHhC
Q 023910          202 CLVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~  222 (275)
                      +|.+.|++++|...|++..+.
T Consensus       108 ~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHc
Confidence            999999999999999988753

>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=97.63  E-value=0.0023  Score=48.97  Aligned_cols=92  Identities=11%  Similarity=-0.040  Sum_probs=78.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|++++|...|+...+.  -..+...|..+-..|.+.|++++|+..|++....  -+-+...|..+-.+|..
T Consensus        26 ~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           26 SLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM--DIXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCchHHHHHHHHHHH
Confidence            4556677899999999999999874  2447888999999999999999999999998753  23466888899999999


Q ss_pred             CCChhHHHHHHHHHHh
Q 023910          206 FKLRDLVVDCYELMKT  221 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~  221 (275)
                      .|++++|...|+...+
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            9999999999998764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.56  E-value=0.00028  Score=51.57  Aligned_cols=84  Identities=12%  Similarity=-0.030  Sum_probs=41.7

Q ss_pred             cCCHHHHHHHHHHhHHcCC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhH
Q 023910          134 QNHCLLALKVFEDIRKEQW--YKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDL  211 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g--~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~  211 (275)
                      .|++++|...|++..+. +  -.-+...|..|-..|.+.|++++|+..|++....  .+-+...|..+-.+|.+.|++++
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ--FPNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHcCCHHH
Confidence            35555566666655442 1  0112345555555555666666666666555432  22234555555555555666666


Q ss_pred             HHHHHHHHH
Q 023910          212 VVDCYELMK  220 (275)
Q Consensus       212 A~~l~~~M~  220 (275)
                      |...|++..
T Consensus        80 A~~~~~~al   88 (117)
T 3k9i_A           80 GVELLLKII   88 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.56  E-value=0.0036  Score=45.57  Aligned_cols=93  Identities=14%  Similarity=0.014  Sum_probs=74.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH---HHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC---HHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQV---SLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE---IQGFNAL  199 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~---~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd---~~tyn~l  199 (275)
                      .+-..+.+.|++++|...|+...+..  ..+.   ..+..+-..|.+.|++++|+..|+.....  .+-+   ...+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~l   82 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR--YPTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--CCCCcccHHHHHHH
Confidence            34456778999999999999998852  2223   47778889999999999999999998754  1223   6778888


Q ss_pred             HHHHHhCCChhHHHHHHHHHHhC
Q 023910          200 LKCLVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       200 I~~~~~~g~~~~A~~l~~~M~~~  222 (275)
                      -.+|.+.|++++|...|++..+.
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            89999999999999999998854

>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=97.56  E-value=0.0028  Score=48.48  Aligned_cols=112  Identities=11%  Similarity=-0.041  Sum_probs=87.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCL  203 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~  203 (275)
                      ..+-..|.+.|++++|.+.|++..+.  -.-+..+|..+-..|.+.|++++|+..|++..+.   .| +...|..+-..|
T Consensus        35 ~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~la~~~  109 (150)
T 4ga2_A           35 FYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTDKAVECYRRSVEL---NPTQKDLVLKIAELL  109 (150)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHh---CCCCHHHHHHHHHHH
Confidence            35567788999999999999999884  2336889999999999999999999999998743   34 578899999999


Q ss_pred             HhCCChhHHHHH-HHHHHhCCCCC-CHHHHHHHHHHHHhcCC
Q 023910          204 VGFKLRDLVVDC-YELMKTVGCEP-DRSSYRTVINGLEAMEE  243 (275)
Q Consensus       204 ~~~g~~~~A~~l-~~~M~~~g~~p-d~~ty~~li~~~~~~g~  243 (275)
                      .+.|+.++|... ++...+  +.| +...|...-..+.+.|+
T Consensus       110 ~~~~~~~~aa~~~~~~al~--l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A          110 CKNDVTDGRAKYWVERAAK--LFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHCSSSSHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHcCChHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhCc
Confidence            999999877665 466553  234 45566666666665553

>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=97.52  E-value=0.0013  Score=56.65  Aligned_cols=136  Identities=7%  Similarity=-0.094  Sum_probs=99.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHc---CCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCc-CHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKE---QWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEP-EIQG  195 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~---~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~p-d~~t  195 (275)
                      +..+-..|.+.|++++|...|++..+-   .|-.. -..+|+.+-..|.+ |++++|+..|++...-   .|-.+ -..+
T Consensus        79 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~  157 (307)
T 2ifu_A           79 FEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAEL  157 (307)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHH
Confidence            345566777889999999999876442   12111 14678888888988 9999999999876431   11111 1468


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHh----CCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          196 FNALLKCLVGFKLRDLVVDCYELMKT----VGCEPDR-SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       196 yn~lI~~~~~~g~~~~A~~l~~~M~~----~g~~pd~-~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |+.+-..|.+.|++++|...|++..+    .+..++. .++..+...+...|++++|...+++.. ..|..
T Consensus       158 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~  227 (307)
T 2ifu_A          158 IGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGF  227 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCC
Confidence            88999999999999999999998873    3333332 266677777888899999999999988 77653

>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=97.51  E-value=0.00061  Score=62.94  Aligned_cols=118  Identities=8%  Similarity=-0.032  Sum_probs=90.2

Q ss_pred             HHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChh
Q 023910          131 LLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       131 ~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~  210 (275)
                      +.+.|++++|.+.|++..+.  -..+..+|+.+-..|.+.|++++|++.|++....  -+-+...|..+-.+|.+.|+++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHH
Confidence            44679999999999999884  2346899999999999999999999999998753  3446789999999999999999


Q ss_pred             HHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023910          211 LVVDCYELMKTV-GCEPDRSSYRTVINGLEAMEEVAFSGIIRQ  252 (275)
Q Consensus       211 ~A~~l~~~M~~~-g~~pd~~ty~~li~~~~~~g~~~~A~~l~~  252 (275)
                      +|...|++..+. .-.++....-..+..+.+.|++++|.++++
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999998753 223343333333444888899999999988

>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=97.50  E-value=0.0021  Score=51.15  Aligned_cols=120  Identities=7%  Similarity=-0.019  Sum_probs=91.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--------------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ--------------VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP  191 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--------------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p  191 (275)
                      .+-..+.+.|++++|...|++..+...-.|+              ...|..+-..|.+.|++++|+..|+.....  -+.
T Consensus        43 ~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~  120 (198)
T 2fbn_A           43 EEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI--DKN  120 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--Ccc
Confidence            4455677899999999999999873211221              278888999999999999999999998753  345


Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSG  248 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~  248 (275)
                      +...|..+-.+|...|++++|...|++..+.. +-+...+..+-..+...++.+++.
T Consensus       121 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          121 NVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            78889999999999999999999999887432 225566777777777777666665

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.49  E-value=0.0018  Score=60.06  Aligned_cols=135  Identities=4%  Similarity=-0.114  Sum_probs=101.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHc--CCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCC-CCcC-H
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKE--QWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKT----ENS-LEPE-I  193 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~--~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G-~~pd-~  193 (275)
                      ..+..+-..|++++|..++++..+.  .-+.|+    ..++|.|...|...|++++|+.++++...    ..| -.|+ .
T Consensus       314 e~a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a  393 (490)
T 3n71_A          314 EKIDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLG  393 (490)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHH
Confidence            4445667889999999999877552  113333    57899999999999999999999887542    112 2344 4


Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHh-----CCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKT-----VGC-EP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~-----~g~-~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+||.|-..|...|++++|..++++-.+     .|- .| ...+.+.+-.++...+++++|+.++..+.+...+
T Consensus       394 ~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~~  467 (490)
T 3n71_A          394 MAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAALN  467 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            7899999999999999999999887652     231 12 3445567777788889999999999999886644

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.49  E-value=0.0015  Score=55.06  Aligned_cols=132  Identities=10%  Similarity=0.011  Sum_probs=100.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCc-CHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEP-EIQGFN  197 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~p-d~~tyn  197 (275)
                      ..-..+...|++++|..+|++..+..  ..+    ...|..+-..|...|++++|.+.|++....   .+-.| ...++.
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            34456778999999999999998851  223    478889999999999999999999886421   12222 357888


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCC--------------------HHHHHHHHH
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKT----VGCEP-DRSSYRTVINGLEAMEE--------------------VAFSGIIRQ  252 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~----~g~~p-d~~ty~~li~~~~~~g~--------------------~~~A~~l~~  252 (275)
                      .+-..|...|++++|...+++..+    .+-.+ ...++..+...+...|+                    +++|.+.++
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  167 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYE  167 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHH
Confidence            899999999999999999988763    22111 14478888899999999                    999999988


Q ss_pred             HHHHHhC
Q 023910          253 DAFKYYG  259 (275)
Q Consensus       253 ~m~~~~~  259 (275)
                      +..+...
T Consensus       168 ~a~~~~~  174 (338)
T 3ro2_A          168 ENLSLVT  174 (338)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8766543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.48  E-value=0.00057  Score=60.42  Aligned_cols=130  Identities=14%  Similarity=0.054  Sum_probs=101.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-H----HHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CC-CCcCHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-V----SLYADMIQVFGTNGLFQHVEILYFYLKTE---NS-LEPEIQGF  196 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~----~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G-~~pd~~ty  196 (275)
                      .+-..+...|++++|...|++..+.   .|+ .    .+|..+-..|...|++++|+..|++....   .+ ......+|
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQA---GTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHh---cccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            4456677899999999999999885   333 3    57889999999999999999999886531   11 12345788


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCC-----------------HHHHHHHHHHH
Q 023910          197 NALLKCLVGFKLRDLVVDCYELMKTV----GC-EPDRSSYRTVINGLEAMEE-----------------VAFSGIIRQDA  254 (275)
Q Consensus       197 n~lI~~~~~~g~~~~A~~l~~~M~~~----g~-~pd~~ty~~li~~~~~~g~-----------------~~~A~~l~~~m  254 (275)
                      ..+-..|...|++++|...|++..+.    +- .....+|..+-..|...|+                 +++|.+.+++.
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  209 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQEN  209 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            88999999999999999999887632    21 2234578888899999999                 99999988887


Q ss_pred             HHHh
Q 023910          255 FKYY  258 (275)
Q Consensus       255 ~~~~  258 (275)
                      .+.+
T Consensus       210 l~~~  213 (411)
T 4a1s_A          210 LKLM  213 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=97.48  E-value=0.0028  Score=53.96  Aligned_cols=92  Identities=7%  Similarity=-0.091  Sum_probs=61.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+-..+.+.|++++|...|++..+.  ...+...|+.+-..|.+.|++++|+..|++....  -+-+...|+.+-.+|.
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            8 KEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            34455666777777777777777663  1235677777777777777777777777776532  2335566777777777


Q ss_pred             hCCChhHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMK  220 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~  220 (275)
                      +.|++++|...|+...
T Consensus        84 ~~g~~~~A~~~~~~al   99 (281)
T 2c2l_A           84 EMESYDEAIANLQRAY   99 (281)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            7777777777777655

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.46  E-value=0.0015  Score=48.17  Aligned_cols=92  Identities=10%  Similarity=-0.062  Sum_probs=49.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+-..+.+.|++++|...|++..+.  -..+...|..+-..|.+.|++++|+..|++....  -+-+...+..+-.+|.
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            34444555566666666666665553  1224555555555566666666666666555432  1223445555555555


Q ss_pred             hCCChhHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMK  220 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~  220 (275)
                      +.|++++|...|++..
T Consensus        97 ~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           97 NEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            5556666655555544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.45  E-value=0.0019  Score=47.60  Aligned_cols=97  Identities=4%  Similarity=-0.094  Sum_probs=79.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHH
Q 023910          160 YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGL  238 (275)
Q Consensus       160 yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~  238 (275)
                      +..+-..+.+.|++++|+..|++....  -+-+...|..+-.++.+.|++++|...|++..+.  .| +...+..+-..+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~   95 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSH   95 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            445667788999999999999998753  3447888889999999999999999999988753  23 566888899999


Q ss_pred             HhcCCHHHHHHHHHHHHHHhCC
Q 023910          239 EAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       239 ~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|++++|.+.+++..+..|.
T Consensus        96 ~~~g~~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC----
T ss_pred             HHcCCHHHHHHHHHHHHHhCcC
Confidence            9999999999999999887765

>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=97.44  E-value=0.0031  Score=50.18  Aligned_cols=126  Identities=8%  Similarity=-0.143  Sum_probs=92.0

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC--------------HHHHHH
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE--------------IQGFNA  198 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd--------------~~tyn~  198 (275)
                      ..|.++.+.+.|+.-...  .......|..+-..|.+.|++++|+..|++......-.|+              ...|..
T Consensus        16 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (198)
T 2fbn_A           16 NLYFQGAKKSIYDYTDEE--KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLN   93 (198)
T ss_dssp             ------CCCSGGGCCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhccccCchhhCCHHH--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHH
Confidence            345566666655533221  1114566777888899999999999999998742111221              278889


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          199 LLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       199 lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +-.+|.+.|++++|...++...+. -..+...|..+-.+|...|++++|.+.+++..+..|..
T Consensus        94 la~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~  155 (198)
T 2fbn_A           94 LATCYNKNKDYPKAIDHASKVLKI-DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNN  155 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCc
Confidence            999999999999999999998854 23467788899999999999999999999999888763

>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=97.44  E-value=0.0021  Score=47.73  Aligned_cols=103  Identities=8%  Similarity=0.008  Sum_probs=78.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc-CCCCcC----HHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE-NSLEPE----IQGFNALL  200 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~-~G~~pd----~~tyn~lI  200 (275)
                      .+=+.+.+.|++++|++.|++..+.  -+-+...|+.+-..|.+.|++++|++.|++...- ....++    ..+|..+=
T Consensus        13 ~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           13 DLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            4456778899999999999999884  2346889999999999999999999999986531 011122    24777888


Q ss_pred             HHHHhCCChhHHHHHHHHHHhCCCCCCHHHHH
Q 023910          201 KCLVGFKLRDLVVDCYELMKTVGCEPDRSSYR  232 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~  232 (275)
                      .+|...|++++|.+.|++-.+  ..||..+..
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~  120 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLS--EFRDPELVK  120 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HSCCHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHh--hCcCHHHHH
Confidence            889999999999999998765  345654433

>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=97.42  E-value=0.00074  Score=65.13  Aligned_cols=130  Identities=11%  Similarity=-0.066  Sum_probs=105.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      +..+-..|.+.|++++|.+.|++..+.  -.-+...|+.+-..|.+.|++++|++.|++....  -+-+...|..+-.+|
T Consensus       436 ~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~  511 (681)
T 2pzi_A          436 PLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDT--FPGELAPKLALAATA  511 (681)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHH
Confidence            335556777889999999999999874  2336788999999999999999999999998743  233568888999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      .+.|++++ ...|++..+.. .-+...|..+-.++.+.|++++|.+.+++..+..|
T Consensus       512 ~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P  565 (681)
T 2pzi_A          512 ELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSR  565 (681)
T ss_dssp             HHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTST
T ss_pred             HHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCc
Confidence            99999999 99999887532 22566888899999999999999999998665544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.41  E-value=0.0029  Score=48.58  Aligned_cols=66  Identities=5%  Similarity=-0.094  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|..+-.+|.+.|++++|...++...+.. +-+...|..+-.+|...|++++|.+.++...+..|.
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~  129 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPA  129 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCC
Confidence            456666666666666666666666665431 224556666666666667777777666666666665

>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=97.41  E-value=0.0017  Score=55.92  Aligned_cols=135  Identities=7%  Similarity=-0.088  Sum_probs=100.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHc---CCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCCc-CHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKE---QWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLEP-EIQGFN  197 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~---~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~p-d~~tyn  197 (275)
                      .....|...|++++|...|.+..+-   .|-.+ -..+|+.+-..|.+.|++++|+..|++-..   +.|-.. -..+|+
T Consensus        41 ~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~  120 (307)
T 2ifu_A           41 KAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALD  120 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3455677889999999999877552   11000 146889999999999999999999987532   222111 246788


Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          198 ALLKCLVGFKLRDLVVDCYELMKT----VGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~~M~~----~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+-..|.+ |++++|...|++-.+    .|-.+ ...+|+.+-..|.+.|++++|.+.+++..+.+++.
T Consensus       121 ~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~  188 (307)
T 2ifu_A          121 RAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEM  188 (307)
T ss_dssp             HHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHc
Confidence            88888988 999999999987763    22211 14578889999999999999999999999887654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.40  E-value=0.0023  Score=54.61  Aligned_cols=128  Identities=9%  Similarity=-0.114  Sum_probs=100.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHH-HHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMI-QVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li-~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      ...+-..|.+.|++++|..+|+.....   .|+........ ..+.+.++.++|+..|++....  -+.+...+..+-..
T Consensus       154 ~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~  228 (287)
T 3qou_A          154 GLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQ  228 (287)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHH
Confidence            346777888999999999999998764   45654333333 3366778888899999888754  35578899999999


Q ss_pred             HHhCCChhHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023910          203 LVGFKLRDLVVDCYELMKTVG-CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g-~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~  256 (275)
                      |...|++++|...|.+..+.. -..+...+..+...|...|+.++|...+++...
T Consensus       229 l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          229 LHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999999999999998542 122367889999999999999999998887553

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.40  E-value=0.00028  Score=51.56  Aligned_cols=94  Identities=7%  Similarity=-0.174  Sum_probs=67.8

Q ss_pred             cCCCHHHHHHHHHHhHhcCC--CCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 023910          169 TNGLFQHVEILYFYLKTENS--LEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAF  246 (275)
Q Consensus       169 ~~g~~~~A~~lf~~M~~~~G--~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~  246 (275)
                      ..|++++|+..|++.... +  -+-+...|..+-..|.+.|++++|...|++..+.. +-+...+..+-.++.+.|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHH
Confidence            457888899999887642 2  12345778888888889999999999999887542 2246677888888899999999


Q ss_pred             HHHHHHHHHHHhCCccch
Q 023910          247 SGIIRQDAFKYYGDLEFL  264 (275)
Q Consensus       247 A~~l~~~m~~~~~~~~~~  264 (275)
                      |.+.+++..+..|.-.-+
T Consensus        80 A~~~~~~al~~~p~~~~~   97 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETI   97 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHH
T ss_pred             HHHHHHHHHHhCCCcHHH
Confidence            999999988887765333

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.37  E-value=0.0019  Score=56.90  Aligned_cols=135  Identities=10%  Similarity=-0.133  Sum_probs=99.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHH---cCCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCCcCHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRK---EQWY-KPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLEPEIQGFN  197 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~---~~g~-~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~pd~~tyn  197 (275)
                      ..+-..|...|++++|.+.|++..+   ..+. .....+++.|-..|.+.|++++|...|++...-   .+-......++
T Consensus       228 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  307 (383)
T 3ulq_A          228 YNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFE  307 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3566677888999999999988766   1122 224677888999999999999999999876531   11222234467


Q ss_pred             HHHHHHHhCCC---hhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          198 ALLKCLVGFKL---RDLVVDCYELMKTVGCEPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       198 ~lI~~~~~~g~---~~~A~~l~~~M~~~g~~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      .+-..|...|+   +++|..++++.   +..|+ ...+..+-..|.+.|++++|.+.+++..+...++.
T Consensus       308 ~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~~~i~  373 (383)
T 3ulq_A          308 FLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQVRQLIQ  373 (383)
T ss_dssp             HHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTSCS
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhh
Confidence            77777888888   77788877765   33333 34677888999999999999999999998887764

>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=97.36  E-value=0.018  Score=46.56  Aligned_cols=115  Identities=7%  Similarity=-0.178  Sum_probs=66.1

Q ss_pred             CHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHhHhcCCCC-cCHHHHHHHHHHHHh----C
Q 023910          136 HCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT----NGLFQHVEILYFYLKTENSLE-PEIQGFNALLKCLVG----F  206 (275)
Q Consensus       136 ~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~----~g~~~~A~~lf~~M~~~~G~~-pd~~tyn~lI~~~~~----~  206 (275)
                      +.++|++.|+...+. |   +..+++.|-..|..    .+++++|++.|++-... |.. -+...++.|=..|..    .
T Consensus        68 ~~~~A~~~~~~A~~~-g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~  142 (212)
T 3rjv_A           68 DYPQARQLAEKAVEA-G---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGP  142 (212)
T ss_dssp             CHHHHHHHHHHHHHT-T---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSS
T ss_pred             CHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCC
Confidence            666666666666553 3   55666666666655    56666777666665432 211 015556666666666    5


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHH
Q 023910          207 KLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM-E-----EVAFSGIIRQDAFKY  257 (275)
Q Consensus       207 g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~-g-----~~~~A~~l~~~m~~~  257 (275)
                      ++.++|...|+.-.+.+  .+...+..|-..|... |     ++++|.+.++...+.
T Consensus       143 ~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          143 EDDVKASEYFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             CCHHHHHHHHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            56677777776666553  2333445555555443 2     667777776666544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.35  E-value=0.0027  Score=55.50  Aligned_cols=132  Identities=10%  Similarity=0.019  Sum_probs=100.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCCc-CHHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLEP-EIQGFNA  198 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~p-d~~tyn~  198 (275)
                      .-..+.+.|++++|...|++..+..  ..+    ..+|..+-..|...|++++|...|++...   ..+-.| ...+|..
T Consensus        15 ~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   92 (406)
T 3sf4_A           15 EGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   92 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            3456678899999999999998851  223    46788999999999999999999987542   112222 2567888


Q ss_pred             HHHHHHhCCChhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCC--------------------HHHHHHHHHH
Q 023910          199 LLKCLVGFKLRDLVVDCYELMKTV----GCEP-DRSSYRTVINGLEAMEE--------------------VAFSGIIRQD  253 (275)
Q Consensus       199 lI~~~~~~g~~~~A~~l~~~M~~~----g~~p-d~~ty~~li~~~~~~g~--------------------~~~A~~l~~~  253 (275)
                      +-..|...|++++|...+++..+.    +-.+ ...++..+-..|...|+                    +++|.+.+++
T Consensus        93 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  172 (406)
T 3sf4_A           93 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEE  172 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            889999999999999999887632    1111 24578888899999999                    9999999988


Q ss_pred             HHHHhCC
Q 023910          254 AFKYYGD  260 (275)
Q Consensus       254 m~~~~~~  260 (275)
                      ..+.+.+
T Consensus       173 al~~~~~  179 (406)
T 3sf4_A          173 NLSLVTA  179 (406)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            7765443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.34  E-value=0.0036  Score=50.53  Aligned_cols=110  Identities=12%  Similarity=0.075  Sum_probs=87.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHHH----------------HHHHHHcCCCHHHHHHHHHHhHhcCCC
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYAD----------------MIQVFGTNGLFQHVEILYFYLKTENSL  189 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn~----------------Li~~~~~~g~~~~A~~lf~~M~~~~G~  189 (275)
                      .-..+.+.|++++|...|++..+.   .|+ ...|..                +-..|.+.|++++|+..|++....  -
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~   84 (208)
T 3urz_A           10 KVSAAIEAGQNGQAVSYFRQTIAL---NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--A   84 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--C
Confidence            344566889999999999999874   343 455666                888999999999999999998753  2


Q ss_pred             CcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCC
Q 023910          190 EPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEE  243 (275)
Q Consensus       190 ~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~  243 (275)
                      +-+...|..+-..|...|++++|...|++..+.  .| +..+|..+-..|...|.
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhH
Confidence            446789999999999999999999999998853  34 56677777777765543

>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=97.32  E-value=0.0033  Score=55.05  Aligned_cols=101  Identities=9%  Similarity=0.112  Sum_probs=88.0

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC----------------HHHHHHHHHHHHhCCChhHHHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE----------------IQGFNALLKCLVGFKLRDLVVDCYELM  219 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd----------------~~tyn~lI~~~~~~g~~~~A~~l~~~M  219 (275)
                      +...|+.+-..|.+.|++++|+..|++....   .|+                ...|+.+-.+|.+.|++++|...|+..
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            4678888999999999999999999998743   333                589999999999999999999999998


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          220 KTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       220 ~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.. +-+...|..+-.+|...|++++|.+.|++..+..|.
T Consensus       223 l~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~  262 (336)
T 1p5q_A          223 LELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN  262 (336)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             HHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC
Confidence            8542 336788999999999999999999999999988876

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.26  E-value=0.0066  Score=53.01  Aligned_cols=136  Identities=10%  Similarity=-0.066  Sum_probs=99.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---CCCC--c-CHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKTE---NSLE--P-EIQG  195 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~G~~--p-d~~t  195 (275)
                      .+-..+...|++++|...+++......-.++    ..+++.+-..|...|++++|...+++....   .|-.  | ....
T Consensus        58 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  137 (373)
T 1hz4_A           58 VLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFL  137 (373)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHH
Confidence            3345567789999999999987552101112    234667778899999999999999886531   1222  3 3456


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          196 FNALLKCLVGFKLRDLVVDCYELMKTV----GCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       196 yn~lI~~~~~~g~~~~A~~l~~~M~~~----g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ++.+-..|...|++++|...+++..+.    |......+|..+-..+...|++++|.+.+++.....+..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~  207 (373)
T 1hz4_A          138 VRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNG  207 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcc
Confidence            777888899999999999999987632    211134578888889999999999999999998776553

>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=97.24  E-value=0.005  Score=56.32  Aligned_cols=131  Identities=8%  Similarity=-0.014  Sum_probs=99.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-------------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-------------VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP  191 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-------------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p  191 (275)
                      ..+-..|.+.|++++|...|++..+...-.++             ...|+.+-.+|.+.|++++|+..|++....  -+-
T Consensus       272 ~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~  349 (457)
T 1kt0_A          272 KEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL--DSA  349 (457)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STT
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCc
Confidence            35567788899999999999998773111111             689999999999999999999999998753  345


Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHHhC
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSG-IIRQDAFKYYG  259 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~-~l~~~m~~~~~  259 (275)
                      +...|..+-.+|.+.|++++|...|+...+.  .| +...+..+-..+.+.++.++|. .++..|...+.
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~k~~  417 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNERDRRIYANMFKKFA  417 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            7889999999999999999999999998753  34 4457778888888888888776 34555544433

>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=97.23  E-value=0.015  Score=45.04  Aligned_cols=93  Identities=12%  Similarity=0.029  Sum_probs=77.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHH-HHcCCCH--HHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQV-FGTNGLF--QHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~-~~~~g~~--~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      .+-..|...|++++|...|++..+.  ...+...|..+-.. |...|++  ++|+..|++....  -+-+...+..+-..
T Consensus        49 ~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~  124 (177)
T 2e2e_A           49 LLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMTAQTRAMIDKALAL--DSNEITALMLLASD  124 (177)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHh--CCCcHHHHHHHHHH
Confidence            4456677899999999999999874  23467788888888 7889998  9999999998754  23457888899999


Q ss_pred             HHhCCChhHHHHHHHHHHhC
Q 023910          203 LVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~  222 (275)
                      |.+.|++++|...|++..+.
T Consensus       125 ~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          125 AFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHcccHHHHHHHHHHHHhh
Confidence            99999999999999998854

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.21  E-value=0.0049  Score=54.25  Aligned_cols=130  Identities=12%  Similarity=0.017  Sum_probs=98.8

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCC-CCc-CHHHHHHHH
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKT---ENS-LEP-EIQGFNALL  200 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G-~~p-d~~tyn~lI  200 (275)
                      .+...|++++|...|++..+...-.+|    ..+|+.|-..|...|++++|+..+++...   ..+ ..+ ...+++.+-
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            345789999999999998663111233    56788888999999999999999887653   111 122 256888899


Q ss_pred             HHHHhCCChhHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          201 KCLVGFKLRDLVVDCYELMKT----VGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~----~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ..|...|++++|.+.|++..+    .|-.+ ...+++.+-..|...|++++|.+.+++..+.+.
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~  253 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSR  253 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999988763    22222 235778888899999999999999999887543

>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=0.0088  Score=46.85  Aligned_cols=98  Identities=9%  Similarity=-0.022  Sum_probs=66.3

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-------------HHHHHHHHHHHHhCCChhHHHHHHHHHHhC----
Q 023910          160 YADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-------------IQGFNALLKCLVGFKLRDLVVDCYELMKTV----  222 (275)
Q Consensus       160 yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-------------~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~----  222 (275)
                      +..+-+.+.+.|++++|+..|++-..   +.|+             ...|+.+-.++.+.|++++|+..++.-.+.    
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~---l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAME---ISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH---HHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            33444455556666666666665442   1222             237777778888888888888887776642    


Q ss_pred             -CCCCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          223 -GCEPDR-SSY----RTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       223 -g~~pd~-~ty----~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                       -+.||. ..|    .-.-.++...|++++|.+.|++.++.-|+
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~  134 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE  134 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence             236653 355    66777888899999999999999988776

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.13  E-value=0.00042  Score=49.20  Aligned_cols=64  Identities=13%  Similarity=0.063  Sum_probs=42.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      +...|..+-..+.+.|++++|++.|++....  -+.+...|..+-.+|.+.|++++|...|++..+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            4455666666777777777777777766542  233566666777777777777777777776653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.09  E-value=0.023  Score=49.47  Aligned_cols=131  Identities=9%  Similarity=-0.066  Sum_probs=96.6

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCC-cCHHHHHHHHH
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQV----SLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLE-PEIQGFNALLK  201 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~----~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~-pd~~tyn~lI~  201 (275)
                      .+...|++++|...+++..... -..+.    .+++.+-..|...|++++|...+++...   +.|.. ....+++.+-.
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcC-CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            3456899999999999987742 12222    2567777888899999999999988653   11211 11244677778


Q ss_pred             HHHhCCChhHHHHHHHHHHh----CCCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          202 CLVGFKLRDLVVDCYELMKT----VGCE--P-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~----~g~~--p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .|...|++++|...+++..+    .+..  | ....+..+-..+...|++++|.+++++..+..++.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  168 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSY  168 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTS
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcc
Confidence            88999999999999988763    3332  3 34566778888999999999999999988877654

>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=97.08  E-value=0.015  Score=56.07  Aligned_cols=135  Identities=11%  Similarity=0.058  Sum_probs=103.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHc-CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKE-QWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~-~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      +...++..-+.|..+.|.++|....+. ....+.+....+.|...+ .++.+.|..+|+...+.  +.-+..-|...+..
T Consensus       437 Wi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~f  513 (679)
T 4e6h_A          437 YCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY--FATDGEYINKYLDF  513 (679)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH--CCCchHHHHHHHHH
Confidence            345566666788999999999999874 223445555555555332 35699999999988764  44566677888888


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEP--DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~p--d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ....|+.+.|..+|+.-....-.+  ....|...++--.+.|..+.+..+.+.+.+.+|+-
T Consensus       514 e~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          514 LIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             HHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             HHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            888999999999999877543322  34678888998889999999999999999999974

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.06  E-value=0.002  Score=56.49  Aligned_cols=128  Identities=11%  Similarity=-0.040  Sum_probs=74.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHH------------------HHHHHHHHHHcCCCHHHHHHHHHHhHhcC
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVS------------------LYADMIQVFGTNGLFQHVEILYFYLKTEN  187 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~------------------tyn~Li~~~~~~g~~~~A~~lf~~M~~~~  187 (275)
                      .+-..+.+.|++++|...|++..+.   .|+..                  .|+.+-.+|.+.|++++|+..|++.... 
T Consensus       184 ~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  259 (338)
T 2if4_A          184 MDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTE-  259 (338)
T ss_dssp             HHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHH-
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHH---hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            4455666789999999999998763   45543                  7888899999999999999999988743 


Q ss_pred             CCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCH-HHHHHHHHH-HHhcCCHHHHHHHHHHHHHHhCC
Q 023910          188 SLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDR-SSYRTVING-LEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       188 G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~-~ty~~li~~-~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                       -+-+...|..+-.+|...|++++|...|+...+  +.|+. ..+..|... ....+..+.+..++..|....|.
T Consensus       260 -~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~~p~  331 (338)
T 2if4_A          260 -EEKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELRALAEQEKALYQKQKEMYKGIFKGKDE  331 (338)
T ss_dssp             -CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------------------
T ss_pred             -CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCC
Confidence             244788999999999999999999999998753  34433 333333333 23456777788888888776654

>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=97.05  E-value=0.003  Score=60.83  Aligned_cols=123  Identities=7%  Similarity=-0.106  Sum_probs=102.2

Q ss_pred             HhcCCHHHHHHHHHHhH--------HcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          132 LRQNHCLLALKVFEDIR--------KEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~--------~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ...|++++|.+.|++..        +.  ...+...|..+-..|.+.|++++|++.|++....  -.-+...|+.+-.+|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~  477 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD--FSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAE  477 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C--CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc--cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHH
Confidence            57899999999999997        42  2345678888999999999999999999998753  234778899999999


Q ss_pred             HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|++++|...|++..+.. .-+...|..+-..|.+.|++++ .+.+++..+..|.
T Consensus       478 ~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~  532 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG  532 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc
Confidence            99999999999999987532 1145678889999999999999 9999998887664

>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=97.04  E-value=0.013  Score=49.74  Aligned_cols=57  Identities=9%  Similarity=-0.232  Sum_probs=34.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      .+-..|.+.|++++|.+.|++..+.  -.-+...|+.+-..|...|++++|+..|++..
T Consensus        43 ~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   99 (281)
T 2c2l_A           43 NRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLEMESYDEAIANLQRAY   99 (281)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555666666666666666552  12245566666666666666666666666554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.02  E-value=0.15  Score=46.43  Aligned_cols=122  Identities=7%  Similarity=-0.107  Sum_probs=97.5

Q ss_pred             HHHHHHHhc-----CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHhHhcCCCCcCHHHHH
Q 023910          126 AVLRELLRQ-----NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG---LFQHVEILYFYLKTENSLEPEIQGFN  197 (275)
Q Consensus       126 ~li~~~~~~-----g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g---~~~~A~~lf~~M~~~~G~~pd~~tyn  197 (275)
                      .+-..|...     ++.++|...|+...+. |   +...+..|-..|.+.|   +.++|++.|++.... |   +...+.
T Consensus       296 ~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~  367 (490)
T 2xm6_A          296 YLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK-G---EKAAQF  367 (490)
T ss_dssp             HHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT-T---CHHHHH
T ss_pred             HHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC-C---CHHHHH
Confidence            444455555     7899999999988774 3   6677888888887766   788999999888754 3   677888


Q ss_pred             HHHHHHHh----CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHHh
Q 023910          198 ALLKCLVG----FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEA----MEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       198 ~lI~~~~~----~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~----~g~~~~A~~l~~~m~~~~  258 (275)
                      .|-..|..    .++.++|...|+.-.+.|   +...+..|-..|.+    .+++++|.+.++...+..
T Consensus       368 ~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          368 NLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            88888888    789999999999988876   46677778888887    899999999999988776

>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=96.99  E-value=0.012  Score=52.40  Aligned_cols=65  Identities=9%  Similarity=-0.011  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ..|+.+-.+|.+.|++++|...+++..+.. .-+...|..+-.+|.+.|++++|.+.+++..+..|
T Consensus       274 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P  338 (370)
T 1ihg_A          274 SCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP  338 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            444444444555555555555555444321 11334444444445555555555555555444444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.98  E-value=0.0075  Score=43.30  Aligned_cols=77  Identities=12%  Similarity=-0.062  Sum_probs=41.7

Q ss_pred             HHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHH
Q 023910          140 ALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELM  219 (275)
Q Consensus       140 A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  219 (275)
                      |...|++..+.  -..+...|..+-..|.+.|++++|+..|++....  -+.+...|..+-.+|.+.|++++|...|+..
T Consensus         4 a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            4 ITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDF--DPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             HHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45555555442  1234555666666666666666666666655432  1223455555555566666666666655554


Q ss_pred             H
Q 023910          220 K  220 (275)
Q Consensus       220 ~  220 (275)
                      .
T Consensus        80 l   80 (115)
T 2kat_A           80 L   80 (115)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=96.96  E-value=0.028  Score=58.05  Aligned_cols=112  Identities=13%  Similarity=0.093  Sum_probs=65.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      .+..++..+.+.|++++|.+.+..-++.   .++....+.+..+|++.+++++...+.    +    .|+...|..+=..
T Consensus      1136 ay~eVa~~~~~lGkyEEAIeyL~mArk~---~~e~~Idt~LafaYAKl~rleele~fI----~----~~n~ad~~~iGd~ 1204 (1630)
T 1xi4_A         1136 SYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELEEFI----N----GPNNAHIQQVGDR 1204 (1630)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh---cccccccHHHHHHHHhhcCHHHHHHHH----h----CCCHHHHHHHHHH
Confidence            3456677777777777777777665552   233333444666666666666433221    1    1244455555555


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      |-..|++++|..+|...         ..|..+...|++.|++++|.+.+++.
T Consensus      1205 le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1205 CYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             HHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence            66666666666666653         26666666666666666666666553

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=96.94  E-value=0.22  Score=45.25  Aligned_cols=113  Identities=11%  Similarity=-0.005  Sum_probs=69.0

Q ss_pred             cCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh----
Q 023910          134 QNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT----NGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG----  205 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~----~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~----  205 (275)
                      .+++++|.+.|+...+. |   +...+..|-..|..    .++.++|++.|++.... |   +...+..|-..|..    
T Consensus       128 ~~~~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~  199 (490)
T 2xm6_A          128 KVDKAESVKWFRLAAEQ-G---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ-G---NVWSCNQLGYMYSRGLGV  199 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSS
T ss_pred             CCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHhcCCCC
Confidence            45666666666666553 3   45556666666655    56666676666666543 2   55566666666665    


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEA----MEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~----~g~~~~A~~l~~~m~~~  257 (275)
                      .++.++|...|+.-.+.|   +...+..|-..|..    .+++++|.+++++..+.
T Consensus       200 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~  252 (490)
T 2xm6_A          200 ERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ  252 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            566777777776666554   34455555555554    66677777777665543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.92  E-value=0.0067  Score=45.13  Aligned_cols=104  Identities=7%  Similarity=-0.058  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC----HHHHHHHHHHHHhCCChhHHHHHHHHHHh----CCCCC-C
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE----IQGFNALLKCLVGFKLRDLVVDCYELMKT----VGCEP-D  227 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd----~~tyn~lI~~~~~~g~~~~A~~l~~~M~~----~g~~p-d  227 (275)
                      ..+|+.+-..|...|++++|+..|++......-.++    ..+++.+-..|...|++++|...+++..+    .+-.+ .
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            456788888999999999999999886532000011    25788899999999999999999998763    22222 2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          228 RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       228 ~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ...+..+-..+...|++++|.+.+++..+...+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  121 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  121 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            456778888899999999999999998876544

>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=96.87  E-value=0.038  Score=53.28  Aligned_cols=148  Identities=8%  Similarity=-0.022  Sum_probs=98.1

Q ss_pred             HHHHHHHhhhcHHh--HHHHHHHHHhcCCHHHHHHHHHHhHHcC--------CCCCC------------HHHHHHHHHHH
Q 023910          110 HVFNSKFRRLLKFD--MIAVLRELLRQNHCLLALKVFEDIRKEQ--------WYKPQ------------VSLYADMIQVF  167 (275)
Q Consensus       110 ~~~~~~~~~l~~~~--~~~li~~~~~~g~~~~A~~lf~~m~~~~--------g~~p~------------~~tyn~Li~~~  167 (275)
                      .+|...+..+-...  ....+...-+.|+++.|.++|+...+..        .-.|+            ..+|-..++..
T Consensus       365 ~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~e  444 (679)
T 4e6h_A          365 KYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTM  444 (679)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHH
Confidence            66666654322222  1255666677899999999999887630        00142            34688888888


Q ss_pred             HcCCCHHHHHHHHHHhHhc-CCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 023910          168 GTNGLFQHVEILYFYLKTE-NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAF  246 (275)
Q Consensus       168 ~~~g~~~~A~~lf~~M~~~-~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~  246 (275)
                      .+.|..+.|..+|....+. ....+.+....+.|.-.+ .++.+.|..+|+...+. +.-+...+...++.....|+.+.
T Consensus       445 rR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~  522 (679)
T 4e6h_A          445 KRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQ  522 (679)
T ss_dssp             HHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHH
Confidence            8889999999999988653 223444554444444222 35689999999988754 33344455688888888899999


Q ss_pred             HHHHHHHHHHHhC
Q 023910          247 SGIIRQDAFKYYG  259 (275)
Q Consensus       247 A~~l~~~m~~~~~  259 (275)
                      |..+|+......+
T Consensus       523 AR~lferal~~~~  535 (679)
T 4e6h_A          523 VKSLFESSIDKIS  535 (679)
T ss_dssp             HHHHHHHHTTTSS
T ss_pred             HHHHHHHHHHhcC
Confidence            9999988666554

>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=96.85  E-value=0.015  Score=51.76  Aligned_cols=121  Identities=7%  Similarity=0.010  Sum_probs=92.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcC-------------CC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCC
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQ-------------WY-KPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSL  189 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~-------------g~-~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~  189 (275)
                      +..+-..+.+.|++++|.+.|++..+..             .. .-+..+|+.+-..|.+.|++++|++.+++....  -
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--D  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--C
Confidence            4456677888999999999999886510             01 124678899999999999999999999998742  2


Q ss_pred             CcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 023910          190 EPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSG  248 (275)
Q Consensus       190 ~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~  248 (275)
                      +-+...|..+-.+|.+.|++++|...|++..+.  .| +...+..+-..+.+.++.+++.
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            346789999999999999999999999988753  34 5556666666666666666554

>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=96.84  E-value=0.028  Score=58.14  Aligned_cols=113  Identities=11%  Similarity=-0.027  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      ++..+-+.|-..|++++|..+|...          ..|..+...|.+.|++++|.+.+.+-  .     |..+|..+-.+
T Consensus      1197 d~~~iGd~le~eg~YeeA~~~Y~kA----------~ny~rLA~tLvkLge~q~AIEaarKA--~-----n~~aWkev~~a 1259 (1630)
T 1xi4_A         1197 HIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVDGARKA--N-----STRTWKEVCFA 1259 (1630)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhh----------hHHHHHHHHHHHhCCHHHHHHHHHHh--C-----CHHHHHHHHHH
Confidence            4455556666677777777777764          25777777777777777777777654  1     55777777777


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      |...|++..|......     +.-+...+..++.-|.+.|.+++|..+++.....
T Consensus      1260 cve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~L 1309 (1630)
T 1xi4_A         1260 CVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGL 1309 (1630)
T ss_pred             HhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            7777777777665442     3345557778999999999999999999876543

>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=96.75  E-value=0.013  Score=53.88  Aligned_cols=95  Identities=4%  Similarity=-0.150  Sum_probs=80.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 023910          164 IQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE  243 (275)
Q Consensus       164 i~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~  243 (275)
                      -..|.+.|++++|++.|++..+.  -+-+...|+.+-.+|.+.|++++|...+++..+.. .-+...|..+-.+|.+.|+
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            34566789999999999998753  34468999999999999999999999999988652 2357788899999999999


Q ss_pred             HHHHHHHHHHHHHHhCCc
Q 023910          244 VAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       244 ~~~A~~l~~~m~~~~~~~  261 (275)
                      +++|.+.+++..+..|+.
T Consensus        90 ~~eA~~~~~~al~~~p~~  107 (477)
T 1wao_1           90 FRAALRDYETVVKVKPHD  107 (477)
T ss_dssp             HHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHHHhCCCC
Confidence            999999999999988763

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.73  E-value=0.014  Score=41.78  Aligned_cols=84  Identities=6%  Similarity=-0.113  Sum_probs=65.8

Q ss_pred             HHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023910          175 HVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDA  254 (275)
Q Consensus       175 ~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m  254 (275)
                      +|+..|++....  -+-+...|..+-..|.+.|++++|...|++..+.. +.+...|..+-..|...|++++|.+.+++.
T Consensus         3 ~a~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            567777777532  34467888888889999999999999999887532 234667888888999999999999999998


Q ss_pred             HHHhCCc
Q 023910          255 FKYYGDL  261 (275)
Q Consensus       255 ~~~~~~~  261 (275)
                      .+..|..
T Consensus        80 l~~~~~~   86 (115)
T 2kat_A           80 LAAAQSR   86 (115)
T ss_dssp             HHHHHHH
T ss_pred             HHhcccc
Confidence            8877653

>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=96.72  E-value=0.16  Score=40.66  Aligned_cols=125  Identities=7%  Similarity=-0.143  Sum_probs=101.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCC----CHHHHHHHHHHhHhcCCCCcCHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG----LFQHVEILYFYLKTENSLEPEIQGFNAL  199 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g----~~~~A~~lf~~M~~~~G~~pd~~tyn~l  199 (275)
                      ...+-..|...+++++|++.|+...+. |   +...++.|=..|.. +    +.++|++.|++-... |   +...+..|
T Consensus        21 ~~~lg~~~~~~~~~~~A~~~~~~a~~~-g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~-g---~~~a~~~L   91 (212)
T 3rjv_A           21 QYYLADTWVSSGDYQKAEYWAQKAAAQ-G---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA-G---SKSGEIVL   91 (212)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHT-T---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT-T---CHHHHHHH
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHc-C---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC-C---CHHHHHHH
Confidence            334445566689999999999999884 4   78888888888888 6    899999999998654 4   67788888


Q ss_pred             HHHHHh----CCChhHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHH
Q 023910          200 LKCLVG----FKLRDLVVDCYELMKTVGCE-PDRSSYRTVINGLEA----MEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       200 I~~~~~----~g~~~~A~~l~~~M~~~g~~-pd~~ty~~li~~~~~----~g~~~~A~~l~~~m~~~  257 (275)
                      =..|..    .+++++|..+|++-.+.|.. -+...+..|-..|..    .+++++|.++++...+.
T Consensus        92 g~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  158 (212)
T 3rjv_A           92 ARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL  158 (212)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc
Confidence            888877    88999999999998876643 125677778888888    88999999999998766

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.72  E-value=0.018  Score=51.12  Aligned_cols=141  Identities=5%  Similarity=-0.196  Sum_probs=100.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCH----HHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCCcC-HHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQV----SLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLEPE-IQG  195 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~----~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~pd-~~t  195 (275)
                      +..+...|.+.|++++|.+.+....+..+-.++.    .+.+.+-..+...|+.++|.+++++...   ..+..+. ..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            4567888899999999999999886632222232    2233333344456889999999887642   1233333 467


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHh----CCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccch
Q 023910          196 FNALLKCLVGFKLRDLVVDCYELMKT----VGCEPDR-SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFL  264 (275)
Q Consensus       196 yn~lI~~~~~~g~~~~A~~l~~~M~~----~g~~pd~-~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~  264 (275)
                      +..+...|...|++++|..++++...    .+-+|.. .+|..+...|...|++++|..+++......++...-
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~  211 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCP  211 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCc
Confidence            88888999999999999999988763    2223333 367888889999999999999999998877766553

>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=96.69  E-value=0.018  Score=52.54  Aligned_cols=101  Identities=12%  Similarity=0.107  Sum_probs=85.0

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC----------------HHHHHHHHHHHHhCCChhHHHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE----------------IQGFNALLKCLVGFKLRDLVVDCYELM  219 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd----------------~~tyn~lI~~~~~~g~~~~A~~l~~~M  219 (275)
                      +...|+.+-..|.+.|++++|+..|++....   .|+                ...|+.+-.+|.+.|++++|...|++.
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            3567888889999999999999999988642   222                689999999999999999999999998


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          220 KTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       220 ~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .+.. .-+...|..+-.+|...|++++|...|++..+..|.
T Consensus       344 l~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~  383 (457)
T 1kt0_A          344 LGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ  383 (457)
T ss_dssp             HHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--
T ss_pred             HhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            8542 236778899999999999999999999999888765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.67  E-value=0.042  Score=48.66  Aligned_cols=87  Identities=10%  Similarity=-0.090  Sum_probs=67.2

Q ss_pred             cCCHHHHHHHHHHhHH---cCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC---CCCc-CHHHHHHHHHHHHh
Q 023910          134 QNHCLLALKVFEDIRK---EQWYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKTEN---SLEP-EIQGFNALLKCLVG  205 (275)
Q Consensus       134 ~g~~~~A~~lf~~m~~---~~g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~---G~~p-d~~tyn~lI~~~~~  205 (275)
                      .|+.+.|.+++.....   ..+..+. ..++..|...|...|++++|..++++.....   +-.| ....|+.++..|..
T Consensus       108 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (434)
T 4b4t_Q          108 PDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHK  187 (434)
T ss_dssp             CSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH
Confidence            5889999999987644   1222333 5678889999999999999999999876431   1122 24689999999999


Q ss_pred             CCChhHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMK  220 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~  220 (275)
                      .|++++|..+++...
T Consensus       188 ~~~~~~A~~~~~~al  202 (434)
T 4b4t_Q          188 LRNLAKSKASLTAAR  202 (434)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             hCcHHHHHHHHHHHH
Confidence            999999999998876

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.64  E-value=0.017  Score=44.19  Aligned_cols=99  Identities=17%  Similarity=0.105  Sum_probs=77.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcC--------C--------CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCC
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQ--------W--------YKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSL  189 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~--------g--------~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~  189 (275)
                      ..-+.+.+.|++++|...|.+..+..        .        -.-+...|+.+-.+|.+.|++++|+..++.....  -
T Consensus        16 ~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~--~   93 (162)
T 3rkv_A           16 QKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR--E   93 (162)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--S
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc--C
Confidence            44566778899999999998876620        0        0113478888999999999999999999998753  3


Q ss_pred             CcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCH
Q 023910          190 EPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDR  228 (275)
Q Consensus       190 ~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~  228 (275)
                      +-+...|..+-.+|...|++++|...|+...+.  .|+.
T Consensus        94 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           94 ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            456889999999999999999999999987753  4553

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=96.61  E-value=0.032  Score=49.98  Aligned_cols=132  Identities=8%  Similarity=-0.096  Sum_probs=76.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC-------------------CCHHHHHHHHHHhHhc
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN-------------------GLFQHVEILYFYLKTE  186 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~-------------------g~~~~A~~lf~~M~~~  186 (275)
                      .+-..|.+.|++++|...|++..+.  .+-+..+|+.|-..|...                   +..++|...|++....
T Consensus       252 ~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  329 (472)
T 4g1t_A          252 SAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEA  329 (472)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhc
Confidence            3444555556666666666665553  122344444443333221                   1234455555554322


Q ss_pred             CCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHH--HHHHHHH-HHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          187 NSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRS--SYRTVIN-GLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       187 ~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~--ty~~li~-~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                        -+.+..+|..+-..|.+.|++++|...|++..+....|...  .+..+.. .+...|+.++|.+.+++..+..|+.
T Consensus       330 --~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~  405 (472)
T 4g1t_A          330 --NDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKS  405 (472)
T ss_dssp             --CTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCC
T ss_pred             --CCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCccc
Confidence              12334556677778888999999999999887654443321  1222222 2446789999999999988877764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.54  E-value=0.014  Score=54.20  Aligned_cols=92  Identities=8%  Similarity=-0.082  Sum_probs=71.6

Q ss_pred             HHHcCCCHHHHHHHHHHhHhc--CCC---Cc-CHHHHHHHHHHHHhCCChhHHHHHHHHHHh-----CCC-CC-CHHHHH
Q 023910          166 VFGTNGLFQHVEILYFYLKTE--NSL---EP-EIQGFNALLKCLVGFKLRDLVVDCYELMKT-----VGC-EP-DRSSYR  232 (275)
Q Consensus       166 ~~~~~g~~~~A~~lf~~M~~~--~G~---~p-d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-----~g~-~p-d~~ty~  232 (275)
                      .+-..|++++|+.++++....  .-+   .| ...++|.|-..|...|++++|..++++..+     .|- .| ...+|+
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            456789999999999876531  111   23 347899999999999999999999988762     221 23 456889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          233 TVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       233 ~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      .|-..|...|++++|..++++..+.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i  422 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAI  422 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999997654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.53  E-value=0.01  Score=51.86  Aligned_cols=100  Identities=11%  Similarity=-0.019  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHH------------------HHHHHHHHHHhCCChhHHHHHHHH
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQ------------------GFNALLKCLVGFKLRDLVVDCYEL  218 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~------------------tyn~lI~~~~~~g~~~~A~~l~~~  218 (275)
                      ...|..+-..|.+.|++++|+..|++...   +.|+..                  .|+.+-.+|.+.|++++|...|+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~---~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~  255 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIA---YMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHH---HSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---HhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45577788889999999999999998753   345543                  788999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          219 MKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       219 M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..+.. .-+...|..+-.+|...|++++|.+.|++..+..|.
T Consensus       256 al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~  296 (338)
T 2if4_A          256 VLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD  296 (338)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            87532 236778999999999999999999999998877664

>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=96.52  E-value=0.012  Score=53.57  Aligned_cols=94  Identities=10%  Similarity=-0.000  Sum_probs=63.0

Q ss_pred             HHHHHcCCCHHHHHHHHHHhHhcC--CCCc----CHHHHHHHHHHHHhCCChhHHHHHHHHHHh-----CC-CCC-CHHH
Q 023910          164 IQVFGTNGLFQHVEILYFYLKTEN--SLEP----EIQGFNALLKCLVGFKLRDLVVDCYELMKT-----VG-CEP-DRSS  230 (275)
Q Consensus       164 i~~~~~~g~~~~A~~lf~~M~~~~--G~~p----d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-----~g-~~p-d~~t  230 (275)
                      +..+.+.|++++|+.++++.....  -+.|    ...+++.|...|...|++++|..++++..+     .| -.| ...+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            445556778888888887765311  1112    236788888888888888888888776652     22 123 3456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH
Q 023910          231 YRTVINGLEAMEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       231 y~~li~~~~~~g~~~~A~~l~~~m~~~  257 (275)
                      |+.|-..|...|++++|..++++..+.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            778888888888888888888886654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.51  E-value=0.04  Score=36.98  Aligned_cols=63  Identities=8%  Similarity=0.027  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 023910          157 VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       157 ~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      ...|..+-..|.+.|++++|+..|++....  .+-+...|..+-..|.+.|++++|...|++..+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            344555555666666666666666665432  223445555666666666666666666665543

>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=0.1  Score=40.73  Aligned_cols=109  Identities=9%  Similarity=-0.051  Sum_probs=83.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC--------H-----HHHHHHHHHHHcCCCHHHHHHHHHHhHhc----C
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ--------V-----SLYADMIQVFGTNGLFQHVEILYFYLKTE----N  187 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~--------~-----~tyn~Li~~~~~~g~~~~A~~lf~~M~~~----~  187 (275)
                      ...-+.+.+.|++++|...|++..+-   .|+        .     ..|+.+-.++.+.|++++|+..|++-..-    .
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            34556677889999999999998773   344        3     38999999999999999999998876531    0


Q ss_pred             CCCcCH-HHH----HHHHHHHHhCCChhHHHHHHHHHH-----hCCCCCCHHHHHHHHH
Q 023910          188 SLEPEI-QGF----NALLKCLVGFKLRDLVVDCYELMK-----TVGCEPDRSSYRTVIN  236 (275)
Q Consensus       188 G~~pd~-~ty----n~lI~~~~~~g~~~~A~~l~~~M~-----~~g~~pd~~ty~~li~  236 (275)
                      -+.||. ..|    ...=.++...|++++|+..|+.-.     +.|+.+......-.+.
T Consensus        92 e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~~  150 (159)
T 2hr2_A           92 ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAI  150 (159)
T ss_dssp             CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHH
T ss_pred             cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence            126654 577    888889999999999999999875     4677776655554444

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.48  E-value=0.0069  Score=42.63  Aligned_cols=88  Identities=8%  Similarity=-0.060  Sum_probs=66.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-------HHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-------IQGFN  197 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-------~~tyn  197 (275)
                      ..+-..+.+.|++++|.+.|++..+.  ...+...|..+-..|.+.|++++|++.|++...   ..|+       ...+.
T Consensus         8 ~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            8 KEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR---YTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCSSTTSHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCccHHHHHHHHHH
Confidence            34556777899999999999999884  244788899999999999999999999999863   4555       45555


Q ss_pred             HHHHHHHhCCChhHHHHHHH
Q 023910          198 ALLKCLVGFKLRDLVVDCYE  217 (275)
Q Consensus       198 ~lI~~~~~~g~~~~A~~l~~  217 (275)
                      .+-.++...|+.+.|...|+
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHH
Confidence            66666666666665554443

>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=96.39  E-value=0.061  Score=40.35  Aligned_cols=110  Identities=9%  Similarity=-0.127  Sum_probs=87.3

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh----CCChh
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG----FKLRD  210 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~----~g~~~  210 (275)
                      ++.++|++.|++.-+. | .|+..    |=..|...+.+++|++.|++--+. |   +...++.|=..|..    .++.+
T Consensus         9 ~d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            9 KDLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             cCHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC-C---CHHHHHHHHHHHHcCCCCCccHH
Confidence            4678899999998884 5 34443    666677778889999999988654 3   77788888888888    78999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHH
Q 023910          211 LVVDCYELMKTVGCEPDRSSYRTVINGLEA----MEEVAFSGIIRQDAFKY  257 (275)
Q Consensus       211 ~A~~l~~~M~~~g~~pd~~ty~~li~~~~~----~g~~~~A~~l~~~m~~~  257 (275)
                      +|.+.|+.-.+.|   +...+..|-..|..    .+++++|.++++...+.
T Consensus        79 ~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           79 KAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            9999999988876   45677777777877    89999999999987654

>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=96.34  E-value=0.016  Score=52.88  Aligned_cols=90  Identities=6%  Similarity=-0.111  Sum_probs=67.6

Q ss_pred             cCCCHHHHHHHHHHhHhc--CCCC---cC-HHHHHHHHHHHHhCCChhHHHHHHHHHHh-----CC-CCC-CHHHHHHHH
Q 023910          169 TNGLFQHVEILYFYLKTE--NSLE---PE-IQGFNALLKCLVGFKLRDLVVDCYELMKT-----VG-CEP-DRSSYRTVI  235 (275)
Q Consensus       169 ~~g~~~~A~~lf~~M~~~--~G~~---pd-~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-----~g-~~p-d~~ty~~li  235 (275)
                      ..|++++|+.++++....  .-+-   |+ ..++|.|-.+|...|++++|..++++..+     .| -.| ...+|+.|-
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            357889999988875431  1122   33 37899999999999999999999988762     23 123 345789999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHHh
Q 023910          236 NGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       236 ~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                      ..|...|++++|..++++..+.+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~  412 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIM  412 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHH
Confidence            99999999999999999977653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.32  E-value=0.081  Score=35.35  Aligned_cols=76  Identities=7%  Similarity=-0.016  Sum_probs=58.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|++++|...|++..+.  ...+..+|..+-..|.+.|++++|...|++....  -+-+...+..+-..+.+
T Consensus        14 ~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           14 NLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHh
Confidence            4455677899999999999999874  2346788999999999999999999999998753  23355666666555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.27  E-value=0.037  Score=38.80  Aligned_cols=63  Identities=13%  Similarity=-0.049  Sum_probs=34.3

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      +...|..+-..|.+.|++++|+..|++....  -+-+...|..+-.+|.+.|++++|...|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555556666666666666666655432  12234455555555556666666665555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.19  E-value=0.025  Score=39.74  Aligned_cols=67  Identities=7%  Similarity=-0.070  Sum_probs=40.0

Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      +...+..+-..|.+.|++++|...|+...+.. +-+...|..+-.+|.+.|++++|.+.+++..+..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~   72 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAR   72 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhh
Confidence            44556666666666666666666666665332 11334566666666666666666666666665543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=96.14  E-value=0.12  Score=46.07  Aligned_cols=136  Identities=10%  Similarity=-0.043  Sum_probs=93.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHc----CC--CCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cC-C-CCc
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKE----QW--YKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKT---EN-S-LEP  191 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~----~g--~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~-G-~~p  191 (275)
                      +..+-..+...|+.++|++.|++-.+-    .+  ..| ..++|+.+-..|...|++++|...|++...   .. + ..+
T Consensus        54 yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~  133 (472)
T 4g1t_A           54 CNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRI  133 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccch
Confidence            344556677789999999999876431    11  123 468899999999999999999999987642   10 1 112


Q ss_pred             -CHHHHHHHHHHHHhC--CChhHHHHHHHHHHhCCCCCC-HHHHHHHHHH---HHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          192 -EIQGFNALLKCLVGF--KLRDLVVDCYELMKTVGCEPD-RSSYRTVING---LEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       192 -d~~tyn~lI~~~~~~--g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~---~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                       ...+|+.+-.++.+.  +++++|...|++..+.  .|+ ...+..+...   +...++.++|.+.+++..+..|..
T Consensus       134 ~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~  208 (472)
T 4g1t_A          134 ESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN  208 (472)
T ss_dssp             CCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC
T ss_pred             hhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc
Confidence             345666665566554  4689999999987743  344 3333333333   456788899999999999888875

>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=96.05  E-value=0.079  Score=48.09  Aligned_cols=98  Identities=9%  Similarity=-0.051  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcC--CCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCC-CCc
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQ--WYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKT----ENS-LEP  191 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~--g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G-~~p  191 (275)
                      +....+..+.+.|++++|..++++..+..  -+.|+    ..+++.|...|...|++++|+.++++...    ..| -.|
T Consensus       289 ~ll~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp  368 (429)
T 3qwp_A          289 ESLKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHP  368 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCCh
Confidence            44456777888999999999999886521  13333    57899999999999999999999987652    111 234


Q ss_pred             C-HHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          192 E-IQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       192 d-~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                      + ..+|+.|-..|...|++++|..++++-.
T Consensus       369 ~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          369 VRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4 3789999999999999999999998765

>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=95.71  E-value=0.081  Score=48.13  Aligned_cols=88  Identities=6%  Similarity=-0.044  Sum_probs=69.1

Q ss_pred             hcCCHHHHHHHHHHhHHc--CCCCCC----HHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCC-CCcCH-HHHHHHH
Q 023910          133 RQNHCLLALKVFEDIRKE--QWYKPQ----VSLYADMIQVFGTNGLFQHVEILYFYLKT----ENS-LEPEI-QGFNALL  200 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~--~g~~p~----~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G-~~pd~-~tyn~lI  200 (275)
                      ..|++++|..++++..+.  .-+.|+    ..++|.|...|...|++++|+.++++...    ..| -.|++ .+||.|=
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            467899999999886551  123343    58899999999999999999999988652    112 23444 7899999


Q ss_pred             HHHHhCCChhHHHHHHHHHH
Q 023910          201 KCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~  220 (275)
                      ..|...|++++|..++++-.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            99999999999999998765

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.31  E-value=0.047  Score=37.59  Aligned_cols=53  Identities=21%  Similarity=0.126  Sum_probs=25.5

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHH-HHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVS-LYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~-tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      .+.+.|++++|.+.|++..+.  ...+.. .|..+-..|.+.|++++|++.|++..
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344455555555555555442  112333 44445555555555555555555543

>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=95.08  E-value=0.17  Score=38.96  Aligned_cols=78  Identities=10%  Similarity=0.045  Sum_probs=64.3

Q ss_pred             HHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC---HHHHHHHHHHHHhCCChhHHHH
Q 023910          138 LLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE---IQGFNALLKCLVGFKLRDLVVD  214 (275)
Q Consensus       138 ~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd---~~tyn~lI~~~~~~g~~~~A~~  214 (275)
                      ..|...|++..+.  -.-+...+..+-..|...|++++|...|++....   .|+   ...+..+...|...|+.++|..
T Consensus        91 ~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           91 SPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKV---NLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             CHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             chHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh---CcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            3478888888774  1235889999999999999999999999998743   443   5689999999999999999999


Q ss_pred             HHHHHH
Q 023910          215 CYELMK  220 (275)
Q Consensus       215 l~~~M~  220 (275)
                      .|++..
T Consensus       166 ~y~~al  171 (176)
T 2r5s_A          166 KYRRQL  171 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998654

>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=94.96  E-value=1.9  Score=40.30  Aligned_cols=119  Identities=9%  Similarity=-0.069  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCC--CHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC-ChhHHH
Q 023910          137 CLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG--LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK-LRDLVV  213 (275)
Q Consensus       137 ~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g--~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g-~~~~A~  213 (275)
                      ++++++.++.+.+.  -.-+..+|+.---.+.+.|  +++++++.++++.+.  -.-|...|+---..+.+.| ..++++
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 VKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEEL  164 (567)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHH
Confidence            89999999999885  3457889999888888889  779999999999864  3558889998888888888 899999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHHHhCC
Q 023910          214 DCYELMKTVGCEPDRSSYRTVINGLEAM--------------EEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       214 ~l~~~M~~~g~~pd~~ty~~li~~~~~~--------------g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.++++.+... -|...|+-.-..+.+.              +.+++|.+++.+.+...|+
T Consensus       165 ~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~  224 (567)
T 1dce_A          165 AFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN  224 (567)
T ss_dssp             HHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHCC-CCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCC
Confidence            99999876543 2666666655555542              5689999999999888776

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=94.81  E-value=0.51  Score=43.42  Aligned_cols=125  Identities=10%  Similarity=0.076  Sum_probs=89.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      ..+..+-+.+..+.|.++|+.. +..+..+.+....+.+.... .++.+.|..+|+...+..+-  +...+...++-..+
T Consensus       291 ~y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~~~--~~~~~~~yid~e~~  366 (493)
T 2uy1_A          291 NHLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKHPD--STLLKEEFFLFLLR  366 (493)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHH
Confidence            4455555677899999999999 42222223333334554443 23699999999998765322  23446667777788


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      .|+.+.|..+|+...     -....|...++--...|+.+.+.++++.+.+.+.
T Consensus       367 ~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~~~~  415 (493)
T 2uy1_A          367 IGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMDAIK  415 (493)
T ss_dssp             HTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhc
Confidence            999999999999872     2467788888887888999999999999887553

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=94.77  E-value=0.51  Score=40.72  Aligned_cols=121  Identities=7%  Similarity=-0.080  Sum_probs=73.9

Q ss_pred             CCHH--HHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCC------HHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC
Q 023910          135 NHCL--LALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL------FQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF  206 (275)
Q Consensus       135 g~~~--~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~------~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~  206 (275)
                      |.++  ++++.++.+.+.  -.-|-..|+.--..+.+.|.      ++++++.++++...  -+-|...|+-+-..+.+.
T Consensus       158 ~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~  233 (306)
T 3dra_A          158 DLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVK--CPQNPSTWNYLLGIHERF  233 (306)
T ss_dssp             TCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHT
T ss_pred             cccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHh--CCCCccHHHHHHHHHHhc
Confidence            4444  566666666553  13355556555555555554      56666666655432  344666666666666666


Q ss_pred             CChhH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          207 KLRDL-VVDCYELMKTVG--CEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       207 g~~~~-A~~l~~~M~~~g--~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      |+... +.++.++..+.+  -..+......+.+.|.+.|+.++|.++++.+.+.+.
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~D  289 (306)
T 3dra_A          234 DRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYN  289 (306)
T ss_dssp             TCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             CCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccC
Confidence            65333 444555544322  134667888889999999999999999999876443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=94.65  E-value=0.31  Score=46.83  Aligned_cols=100  Identities=11%  Similarity=0.055  Sum_probs=63.2

Q ss_pred             HHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChh
Q 023910          131 LLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       131 ~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~  210 (275)
                      ....|++++|.++.+.+       .+...|..|-..+.+.|+++.|++.|..++ +         |..+...|...|+.+
T Consensus       662 ~l~~~~~~~A~~~~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~-d---------~~~l~~l~~~~~~~~  724 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAH-D---------LESLFLLHSSFNNKE  724 (814)
T ss_dssp             HHHHTCHHHHHHHHTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT-C---------HHHHHHHHHHTTCHH
T ss_pred             hhhcCCHHHHHHHHHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc-C---------hhhhHHHHHHcCCHH
Confidence            34556666666664433       266788889999999999999999988874 2         445555555566666


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          211 LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       211 ~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      ....+-+.....|      -|+.-...|.+.|++++|.+++.+
T Consensus       725 ~~~~~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          725 GLVTLAKDAETTG------KFNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC------chHHHHHHHHHcCCHHHHHHHHHH
Confidence            5555544444443      234444445556666666666655

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=94.61  E-value=1  Score=40.56  Aligned_cols=118  Identities=7%  Similarity=-0.063  Sum_probs=60.5

Q ss_pred             HHHHHHHhcC---CHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHhHhcCCCCcCHHHHHH
Q 023910          126 AVLRELLRQN---HCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN----GLFQHVEILYFYLKTENSLEPEIQGFNA  198 (275)
Q Consensus       126 ~li~~~~~~g---~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~----g~~~~A~~lf~~M~~~~G~~pd~~tyn~  198 (275)
                      .+-..|.+.|   +.++|++.|....+. | .++...+..|-..|...    ++.++|++.|+... . |   +...++.
T Consensus       181 ~Lg~~~~~~g~~~~~~~A~~~~~~aa~~-g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~-g---~~~a~~~  253 (452)
T 3e4b_A          181 ELATVYQKKQQPEQQAELLKQMEAGVSR-G-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P-G---YPASWVS  253 (452)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHT-T-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G-G---STHHHHH
T ss_pred             HHHHHHHHcCCcccHHHHHHHHHHHHHC-C-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C-C---CHHHHHH
Confidence            3444445556   666666666666553 2 33444444455555443    56666666666654 2 2   3333333


Q ss_pred             HHHH-H--HhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHH
Q 023910          199 LLKC-L--VGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME-----EVAFSGIIRQDA  254 (275)
Q Consensus       199 lI~~-~--~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g-----~~~~A~~l~~~m  254 (275)
                      |=.. |  ...|+.++|...|++-.+.|   +...+..|-..|. .|     ++++|.+.|+..
T Consensus       254 Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~A  313 (452)
T 3e4b_A          254 LAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKA  313 (452)
T ss_dssp             HHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTT
T ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHH
Confidence            3333 2  23566666666666655555   3334444444443 33     566666555543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=94.07  E-value=2.6  Score=36.21  Aligned_cols=123  Identities=7%  Similarity=-0.079  Sum_probs=91.5

Q ss_pred             hcC--CHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHH----HcC---CCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          133 RQN--HCLLALKVFEDIRKEQWYKPQVSLYADMIQVF----GTN---GLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       133 ~~g--~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~----~~~---g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ..|  +++++++.++.+...  ..-+..+|+.--..+    ...   +++++++++++.+...  -+-|-..|+----.+
T Consensus        79 ~l~~~~~~eeL~~~~~~L~~--nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~--~pkny~aW~~R~~vl  154 (306)
T 3dra_A           79 NLPNRNLYDELDWCEEIALD--NEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSS--DPKNHHVWSYRKWLV  154 (306)
T ss_dssp             TCTTSCHHHHHHHHHHHHHH--CTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HcccccHHHHHHHHHHHHHH--CcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            445  899999999999885  233566677654444    444   7899999999999864  455888888888888


Q ss_pred             HhCCChh--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC------HHHHHHHHHHHHHHhCC
Q 023910          204 VGFKLRD--LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE------VAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       204 ~~~g~~~--~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~------~~~A~~l~~~m~~~~~~  260 (275)
                      .+.|.++  +++++++.|.+.... |...|+---..+.+.|.      ++++.+.+++++...|.
T Consensus       155 ~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~  218 (306)
T 3dra_A          155 DTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQ  218 (306)
T ss_dssp             HHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCC
Confidence            8888888  999999999865432 55666655555566665      88899998888876554

>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=94.06  E-value=2.9  Score=36.72  Aligned_cols=122  Identities=7%  Similarity=-0.108  Sum_probs=95.4

Q ss_pred             cC-CHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC-C-CHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChh
Q 023910          134 QN-HCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN-G-LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       134 ~g-~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~-g-~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~  210 (275)
                      .| .+++++++++.+...  ..-+..+|+.---.+.+. + ++++++++++.+...  -.-|-..|+----.+.+.|.++
T Consensus       101 l~~~l~eEL~~~~~~L~~--nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~--dpkNy~AW~~R~wvl~~l~~~~  176 (349)
T 3q7a_A          101 LNKSLEDELRLMNEFAVQ--NLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLP--DPKNYHTWAYLHWLYSHFSTLG  176 (349)
T ss_dssp             TTCCHHHHHHHHHHHHHT--TCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSS--CTTCHHHHHHHHHHHHHHHHTT
T ss_pred             hhhhHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcccc
Confidence            45 599999999999885  355788899877777776 6 889999999999743  4557888887766666666666


Q ss_pred             --------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-------HHHHHHHHHHHHHHhCC
Q 023910          211 --------LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE-------VAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       211 --------~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~-------~~~A~~l~~~m~~~~~~  260 (275)
                              ++++.++++.+... -|...|+---..+.+.++       ++++.+.+++++...|.
T Consensus       177 ~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~  240 (349)
T 3q7a_A          177 RISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPH  240 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTT
T ss_pred             ccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCC
Confidence                    99999999987543 367777777777777776       78899999888877665

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=93.85  E-value=0.91  Score=30.71  Aligned_cols=58  Identities=5%  Similarity=-0.050  Sum_probs=47.7

Q ss_pred             HHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHH-HHHHHHHHHHhCCChhHHHHHHHHHHhC
Q 023910          163 MIQVFGTNGLFQHVEILYFYLKTENSLEPEIQ-GFNALLKCLVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       163 Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~-tyn~lI~~~~~~g~~~~A~~l~~~M~~~  222 (275)
                      .-..+.+.|++++|+..|++....  -+-+.. .|..+-.+|.+.|++++|...|++..+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            345677889999999999998753  233556 8889999999999999999999998854

>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=93.63  E-value=0.23  Score=38.68  Aligned_cols=98  Identities=13%  Similarity=0.054  Sum_probs=70.0

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCH----------HHHHHHHHHhHhcCCCCc-CHHHHHHHH
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLF----------QHVEILYFYLKTENSLEP-EIQGFNALL  200 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~----------~~A~~lf~~M~~~~G~~p-d~~tyn~lI  200 (275)
                      .+.+.+++|.+.++...+.  -.-+...|+.+-.++...+++          ++|+..|++-.+   +.| +...|+.+=
T Consensus        13 ~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~---ldP~~~~A~~~LG   87 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL---IDPKKDEAVWCIG   87 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH---hCcCcHHHHHHHH
Confidence            3556788999999988774  234677888777777777664          588888888764   344 557888888


Q ss_pred             HHHHhCC-----------ChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023910          201 KCLVGFK-----------LRDLVVDCYELMKTVGCEPDRSSYRTVIN  236 (275)
Q Consensus       201 ~~~~~~g-----------~~~~A~~l~~~M~~~g~~pd~~ty~~li~  236 (275)
                      .+|...|           ++++|...|++-.+  +.|+...|.-.+.
T Consensus        88 ~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~  132 (158)
T 1zu2_A           88 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            8888764           78888888887664  4566555544444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.09  E-value=1.3  Score=34.07  Aligned_cols=68  Identities=12%  Similarity=-0.068  Sum_probs=34.6

Q ss_pred             cCHHHHHHHHHHHHhCC---ChhHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          191 PEIQGFNALLKCLVGFK---LRDLVVDCYELMKTVGCEP---DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       191 pd~~tyn~lI~~~~~~g---~~~~A~~l~~~M~~~g~~p---d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++..+--.+--++++.+   +++++..+|++..+.. .|   ....|+. --++.+.|++++|.++++.+.+.-|+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~L-Av~~~kl~~Y~~A~~y~~~lL~ieP~  103 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYL-AVGNYRLKEYEKALKYVRGLLQTEPQ  103 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHH-HHHHHHTSCHHHHHHHHHHHHHHCTT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHH-HHHHHHccCHHHHHHHHHHHHhcCCC
Confidence            44444445555555555   4445666665555432 22   1122332 22345666666666666666666654

>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=93.03  E-value=1.9  Score=38.22  Aligned_cols=121  Identities=10%  Similarity=-0.094  Sum_probs=82.5

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCC-HHHHHHHHHHHH----cCC-CHHHHHHHHHHhHh---cCCCCcCHHHHHHHHHHHHh
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQ-VSLYADMIQVFG----TNG-LFQHVEILYFYLKT---ENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~-~~tyn~Li~~~~----~~g-~~~~A~~lf~~M~~---~~G~~pd~~tyn~lI~~~~~  205 (275)
                      ....+|..+|++..+.   .|+ ...|..+--+|.    ..+ .......+-..+..   ...-..+..+|.++-..+..
T Consensus       213 ~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~  289 (372)
T 3ly7_A          213 KSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALV  289 (372)
T ss_dssp             HHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHh
Confidence            3468899999999884   565 233333222221    111 11111111111111   01236688888888777777


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      .|++++|...++...+.+  |+...|..+-..+.-.|+.++|.+.+++...+-|.
T Consensus       290 ~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~  342 (372)
T 3ly7_A          290 KGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPG  342 (372)
T ss_dssp             HTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCS
T ss_pred             CCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            899999999999999765  89888888888899999999999999998887665

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=92.76  E-value=1.3  Score=37.81  Aligned_cols=100  Identities=9%  Similarity=-0.118  Sum_probs=73.4

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC--HHHHHHHHHHHHh
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQ--VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE--IQGFNALLKCLVG  205 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~--~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd--~~tyn~lI~~~~~  205 (275)
                      .+.+.+++++|+..|+...+.  ..|.  ...+..|=.++.+.|++++|++.|++.... ...|.  .......-.++.+
T Consensus       144 l~~~~~r~~dA~~~l~~a~~~--~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g-~~~P~~~~da~~~~glaL~~  220 (282)
T 4f3v_A          144 VYGAAERWTDVIDQVKSAGKW--PDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDS-PAGEACARAIAWYLAMARRS  220 (282)
T ss_dssp             HHHHTTCHHHHHHHHTTGGGC--SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS-TTTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHhhcc--CCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcC-CCCccccHHHHHHHHHHHHH
Confidence            677899999999999866442  1221  236777788999999999999999998632 23264  3456667778889


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTV  234 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~l  234 (275)
                      .|+.++|..+|+++...  .|+...+..|
T Consensus       221 lGr~deA~~~l~~a~a~--~P~~~~~~aL  247 (282)
T 4f3v_A          221 QGNESAAVALLEWLQTT--HPEPKVAAAL  247 (282)
T ss_dssp             HTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--CCcHHHHHHH
Confidence            99999999999999864  3553444444

>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=91.83  E-value=0.86  Score=40.54  Aligned_cols=72  Identities=13%  Similarity=-0.003  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-----hCCCCCCHHHHH
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-----TVGCEPDRSSYR  232 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-----~~g~~pd~~ty~  232 (275)
                      +...++..+...|++++|+..+......  .+.+...|-.+|.+|.+.|+..+|++.|+...     +-|+.|...+=.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            3455677778888999988888887654  56688889999999999999999998888775     458999877633

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=91.51  E-value=1.7  Score=30.44  Aligned_cols=66  Identities=11%  Similarity=-0.072  Sum_probs=43.8

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC-----CCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 023910          156 QVSLYADMIQVFGTNGLFQHVEILYFYLKTEN-----SLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~-----G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      +...+-.|-..+.+.|+++.|...|++..+..     +-.+....|..|-.+|.+.|++++|..++++..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            44556667777777888888888777654321     1123456677777777777777777777777653

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=91.46  E-value=4.2  Score=36.50  Aligned_cols=120  Identities=8%  Similarity=-0.053  Sum_probs=82.1

Q ss_pred             HHHHHHHhcCC----HHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHhHhcCCCCcCHHHHHH
Q 023910          126 AVLRELLRQNH----CLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG---LFQHVEILYFYLKTENSLEPEIQGFNA  198 (275)
Q Consensus       126 ~li~~~~~~g~----~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g---~~~~A~~lf~~M~~~~G~~pd~~tyn~  198 (275)
                      .+-..|...+.    .+.+..++.....   -.|+  .+..|-..|.+.|   +.++|++.|+.-...  -.++...+..
T Consensus       146 ~Lg~~y~~~~~~~~~~~~a~~~~~~a~~---~~~~--a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~--g~~~a~~~~~  218 (452)
T 3e4b_A          146 AQVLLYRTQGTYDQHLDDVERICKAALN---TTDI--CYVELATVYQKKQQPEQQAELLKQMEAGVSR--GTVTAQRVDS  218 (452)
T ss_dssp             HHHHHHHHHTCGGGGHHHHHHHHHHHTT---TCTT--HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT--TCSCHHHHHH
T ss_pred             HHHHHHHcCCCcccCHHHHHHHHHHHHc---CCHH--HHHHHHHHHHHcCCcccHHHHHHHHHHHHHC--CCHHHHHHHH
Confidence            44444555553    4445555554433   1333  8888889999999   899999999988754  3556666666


Q ss_pred             HHHHHHhC----CChhHHHHHHHHHHhCCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHHH
Q 023910          199 LLKCLVGF----KLRDLVVDCYELMKTVGCEPDRSSYRTVING-L--EAMEEVAFSGIIRQDAFK  256 (275)
Q Consensus       199 lI~~~~~~----g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-~--~~~g~~~~A~~l~~~m~~  256 (275)
                      |-..|...    ++.++|...|+... .|   +...+..|-.. +  ...+++++|.+++++..+
T Consensus       219 Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~  279 (452)
T 3e4b_A          219 VARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA  279 (452)
T ss_dssp             HHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence            77777655    69999999999987 43   33344444444 3  458999999999998654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.41  E-value=4.3  Score=31.95  Aligned_cols=102  Identities=12%  Similarity=0.036  Sum_probs=72.5

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKL  208 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~  208 (275)
                      +--..+|+++.|.++-+++  .     +...|..|-+..-+.|+++-|++.|...+ +         |..+.-.|.-.|+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~-----~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~-D---------~~~L~~Ly~~tg~   75 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--N-----DSITWERLIQEALAQGNASLAEMIYQTQH-S---------FDKLSFLYLVTGD   75 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--C-----CHHHHHHHHHHHHHTTCHHHHHHHHHHTT-C---------HHHHHHHHHHHTC
T ss_pred             HHHHhcCCHHHHHHHHHHh--C-----CHHHHHHHHHHHHHcCChHHHHHHHHHhC-C---------HHHHHHHHHHhCC
Confidence            3345789999999998776  1     67889999999999999999999998875 2         5566666666777


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          209 RDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       209 ~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      .+.-..+-+.-...|      -+|.-...+.-.|+++++.+++.+
T Consensus        76 ~e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           76 VNKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            766555544433443      245555556666777777766655

>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=91.16  E-value=2.5  Score=36.21  Aligned_cols=108  Identities=8%  Similarity=0.093  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHhHHcCCCCCC---HHHHHHHHHHHHcC-----CCHHHHHHHHHHhHhcCCCCc--CHHHHHHHHHHHHhC
Q 023910          137 CLLALKVFEDIRKEQWYKPQ---VSLYADMIQVFGTN-----GLFQHVEILYFYLKTENSLEP--EIQGFNALLKCLVGF  206 (275)
Q Consensus       137 ~~~A~~lf~~m~~~~g~~p~---~~tyn~Li~~~~~~-----g~~~~A~~lf~~M~~~~G~~p--d~~tyn~lI~~~~~~  206 (275)
                      ...|..++++..+   +.|+   -..|+.|-..|.+.     |+.++|.+.|++-..   +.|  +..++...-..+++.
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~---LnP~~~id~~v~YA~~l~~~  252 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR---YCSAHDPDHHITYADALCIP  252 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH---HCCTTCSHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH---hCCCCCchHHHHHHHHHHHh
Confidence            4556666666655   4677   67899999999994     999999999999874   566  377788888888884


Q ss_pred             -CChhHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Q 023910          207 -KLRDLVVDCYELMKTVGCE--PDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYY  258 (275)
Q Consensus       207 -g~~~~A~~l~~~M~~~g~~--pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~  258 (275)
                       |+.++|.+.+++-......  |+....|.+        .-.+|..++.+..+.|
T Consensus       253 ~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~--------~q~eA~~LL~~~~d~F  299 (301)
T 3u64_A          253 LNNRAGFDEALDRALAIDPESVPHNKLLVIL--------SQKRARWLKAHVQDFF  299 (301)
T ss_dssp             TTCHHHHHHHHHHHHHCCGGGCSSCHHHHHH--------HHHHHHHHHHTHHHHC
T ss_pred             cCCHHHHHHHHHHHHcCCCCCCCChhHHHHH--------HHHHHHHHHHHhHHhc
Confidence             9999999999999987776  885444433        3356667777666554

>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=91.08  E-value=2  Score=38.11  Aligned_cols=70  Identities=13%  Similarity=0.081  Sum_probs=59.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCCCCcCHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT----ENSLEPEIQG  195 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G~~pd~~t  195 (275)
                      ...++..+...|+.++|..........  ..-+...|-.||.+|.+.|+..+|++.|+....    +.|+.|...+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            346778888899999999999998775  355888999999999999999999999998653    4699998764

>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=90.96  E-value=3.6  Score=30.23  Aligned_cols=86  Identities=9%  Similarity=-0.069  Sum_probs=71.6

Q ss_pred             HHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh-
Q 023910          131 LLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGT----NGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG-  205 (275)
Q Consensus       131 ~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~----~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~-  205 (275)
                      |...+.++.|++.|++--+. |   +...++.|=..|..    .++.++|++.|++--+. |   +...+..|=..|.. 
T Consensus        35 y~~g~~~~~A~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G  106 (138)
T 1klx_A           35 SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL-N---DQDGCLILGYKQYAG  106 (138)
T ss_dssp             TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHT
T ss_pred             HHcCCCHHHHHHHHHHHHcC-C---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC-C---CHHHHHHHHHHHHCC
Confidence            33456678899999999884 4   78888888888888    79999999999998754 4   67788888888888 


Q ss_pred             ---CCChhHHHHHHHHHHhCCC
Q 023910          206 ---FKLRDLVVDCYELMKTVGC  224 (275)
Q Consensus       206 ---~g~~~~A~~l~~~M~~~g~  224 (275)
                         .++.++|...|+.-.+.|.
T Consensus       107 ~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A          107 KGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTC
T ss_pred             CCCCcCHHHHHHHHHHHHHCCC
Confidence               7899999999999887774

>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=90.82  E-value=0.52  Score=36.59  Aligned_cols=90  Identities=10%  Similarity=0.030  Sum_probs=69.9

Q ss_pred             HcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh----------hHHHHHHHHHHhCCCCC-CHHHHHHHHH
Q 023910          168 GTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR----------DLVVDCYELMKTVGCEP-DRSSYRTVIN  236 (275)
Q Consensus       168 ~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~----------~~A~~l~~~M~~~g~~p-d~~ty~~li~  236 (275)
                      .+.+.+++|.+.++.-...  -+-|...|+.+=.++...|++          ++|+..|++-.+-  .| +...|..+-.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~   88 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHH
Confidence            3456788999999887654  244778888788888877664          5899999887743  34 5568888999


Q ss_pred             HHHhcC-----------CHHHHHHHHHHHHHHhCCc
Q 023910          237 GLEAME-----------EVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       237 ~~~~~g-----------~~~~A~~l~~~m~~~~~~~  261 (275)
                      +|...|           ++++|.+.|++..+.-|+-
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~  124 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDN  124 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCC
Confidence            998764           8999999999999998874

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=90.81  E-value=2.6  Score=29.43  Aligned_cols=72  Identities=15%  Similarity=0.062  Sum_probs=57.2

Q ss_pred             hcHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcC-----CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH
Q 023910          119 LLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQ-----WYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI  193 (275)
Q Consensus       119 l~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~-----g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~  193 (275)
                      +...|+..+-..+.+.|++..|...|+...+..     +-.+....|..|-.+|.+.|++++|..++++..+   +.|+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~---l~P~~   79 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE---LDPEH   79 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTC
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh---cCCCC
Confidence            344577888888999999999999999876631     1123577899999999999999999999999874   45554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=90.21  E-value=2  Score=41.10  Aligned_cols=128  Identities=13%  Similarity=0.003  Sum_probs=89.1

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH
Q 023910          121 KFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL  200 (275)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI  200 (275)
                      ......++..+.+.|.+++|.++.+.-..+             .....+.|++++|.++.+.+.       +...|..|-
T Consensus       629 ~~~~~~~~~~l~~~~~~~~a~~~~~~~~~~-------------f~~~l~~~~~~~A~~~~~~~~-------~~~~W~~la  688 (814)
T 3mkq_A          629 KDSLTKIARFLEGQEYYEEALNISPDQDQK-------------FELALKVGQLTLARDLLTDES-------AEMKWRALG  688 (814)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHCCCHHHH-------------HHHHHHHTCHHHHHHHHTTCC-------CHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCChHHheecCCCcchh-------------eehhhhcCCHHHHHHHHHhhC-------cHhHHHHHH
Confidence            344456777778889999988776433221             234556899999999876552       678999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHhCC-------CCCCHHHHHHHHHHHHhcCCHHHHHHHHH------HHHHHhCCccchHHH
Q 023910          201 KCLVGFKLRDLVVDCYELMKTVG-------CEPDRSSYRTVINGLEAMEEVAFSGIIRQ------DAFKYYGDLEFLEED  267 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~~~g-------~~pd~~ty~~li~~~~~~g~~~~A~~l~~------~m~~~~~~~~~~~e~  267 (275)
                      ..+.+.|+++.|.+.|..+.+..       ..-|..-...+.+.....|+++.|..++-      +.++.|-+++..+|.
T Consensus       689 ~~al~~~~~~~A~~~y~~~~d~~~l~~l~~~~~~~~~~~~~~~~a~~~~~~~~A~~~~~~~g~~~~a~~~~~~~~~~~~A  768 (814)
T 3mkq_A          689 DASLQRFNFKLAIEAFTNAHDLESLFLLHSSFNNKEGLVTLAKDAETTGKFNLAFNAYWIAGDIQGAKDLLIKSQRFSEA  768 (814)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHccChhhhHHHHHHcCCHHHHHHHHHHHHHcCchHHHHHHHHHcCCHHHHHHHHHHcCChHHH
Confidence            99999999999999999886321       12244455566777777888888887764      355556555555544


Q ss_pred             H
Q 023910          268 E  268 (275)
Q Consensus       268 ~  268 (275)
                      -
T Consensus       769 ~  769 (814)
T 3mkq_A          769 A  769 (814)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=88.34  E-value=11  Score=35.06  Aligned_cols=120  Identities=5%  Similarity=-0.193  Sum_probs=90.8

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCC----------HHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL----------FQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~----------~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..-++|++.++.+.+.  -.-+...|+.-=..+.+.|+          +++++++++.+...  -+=+...|+.---.+.
T Consensus        43 ~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           43 ELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            3456789999999884  13356777765555555555          89999999999854  3447788888888888


Q ss_pred             hCC--ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHhC
Q 023910          205 GFK--LRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME-EVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       205 ~~g--~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g-~~~~A~~l~~~m~~~~~  259 (275)
                      +.|  ++++++++++.+.+... -|...|+----.+.+.| ..+++.+.++++++..|
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p  175 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF  175 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC
T ss_pred             HcccccHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC
Confidence            889  77999999999996542 26677777667777888 89999999888776544

>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=87.93  E-value=13  Score=32.27  Aligned_cols=121  Identities=7%  Similarity=-0.149  Sum_probs=85.3

Q ss_pred             CHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCC-HHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC--------
Q 023910          136 HCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL-FQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF--------  206 (275)
Q Consensus       136 ~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~-~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~--------  206 (275)
                      .+++++++++.+.+.  -.-|-..|+.---.+.+.|. ++++++.++.+...  -+-|...|+-.-..+.+.        
T Consensus       125 ~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~  200 (331)
T 3dss_A          125 NWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGP  200 (331)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHHSCCC----
T ss_pred             cHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhhhcccccc
Confidence            478899999999885  25578888887777777787 58888888888754  455777787776666654        


Q ss_pred             ------CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHHhCCc
Q 023910          207 ------KLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAM-----------EEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       207 ------g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~-----------g~~~~A~~l~~~m~~~~~~~  261 (275)
                            +.++++++.++...... +=|...|+-+--.+.+.           +.++++.+.++++.+..|+.
T Consensus       201 ~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~  271 (331)
T 3dss_A          201 QGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN  271 (331)
T ss_dssp             --CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             ccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc
Confidence                  45678888888776421 22555555443334443           46888889999988888874

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=86.96  E-value=6.5  Score=29.90  Aligned_cols=63  Identities=10%  Similarity=-0.067  Sum_probs=34.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC
Q 023910          160 YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGC  224 (275)
Q Consensus       160 yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~  224 (275)
                      .+.-++.+...|+-++-.++..++..  .-+|+....-.+-+||.+-|+..+|-+++.+--+.|+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            44445555555555555555555322  1345555555555666666666666666555555554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=86.80  E-value=8.4  Score=29.45  Aligned_cols=85  Identities=12%  Similarity=-0.065  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHhHhcCCCCc--CHHHHHHHHHHHHhCCChhH
Q 023910          137 CLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG---LFQHVEILYFYLKTENSLEP--EIQGFNALLKCLVGFKLRDL  211 (275)
Q Consensus       137 ~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g---~~~~A~~lf~~M~~~~G~~p--d~~tyn~lI~~~~~~g~~~~  211 (275)
                      +..+.+-|.+.... |. ++..+...+--++++++   +.++++.+|++..+. . .|  +...+-.|=-+|.+.|++++
T Consensus        14 l~~~~~~y~~e~~~-~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           14 LLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHT-TC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CccchHHHHHHHHHHHHHccCHHH
Confidence            34456666666553 33 67777777777888888   566899999988764 2 34  23444445556689999999


Q ss_pred             HHHHHHHHHhCCCCCC
Q 023910          212 VVDCYELMKTVGCEPD  227 (275)
Q Consensus       212 A~~l~~~M~~~g~~pd  227 (275)
                      |.+.++...+  +.|+
T Consensus        90 A~~y~~~lL~--ieP~  103 (152)
T 1pc2_A           90 ALKYVRGLLQ--TEPQ  103 (152)
T ss_dssp             HHHHHHHHHH--HCTT
T ss_pred             HHHHHHHHHh--cCCC
Confidence            9999998874  3454

>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=86.76  E-value=15  Score=31.83  Aligned_cols=119  Identities=9%  Similarity=-0.060  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCC--CHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCC-hhHHH
Q 023910          137 CLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG--LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKL-RDLVV  213 (275)
Q Consensus       137 ~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g--~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~-~~~A~  213 (275)
                      +++++.+++.+...  -.-+..+|+.---.+.+.|  .+++++.+++.+...  -+-|-..|+----.+.+.|. +++++
T Consensus        90 l~~EL~~~~~~L~~--~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel  165 (331)
T 3dss_A           90 VKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEEL  165 (331)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHH
Confidence            67899999999885  3458899998887787877  489999999999864  45688888888888888888 59999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHHHhCC
Q 023910          214 DCYELMKTVGCEPDRSSYRTVINGLEAM--------------EEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       214 ~l~~~M~~~g~~pd~~ty~~li~~~~~~--------------g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.++.+.+... -|...|+-.-..+.+.              +.++++.+.+.+.+...|.
T Consensus       166 ~~~~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~  225 (331)
T 3dss_A          166 AFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN  225 (331)
T ss_dssp             HHHHHHHHHCS-CCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHCC-CCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC
Confidence            99999986543 3555666554444443              5688999999998877665

>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=85.35  E-value=18  Score=31.54  Aligned_cols=120  Identities=8%  Similarity=-0.063  Sum_probs=87.7

Q ss_pred             CCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCC-CHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC-C-ChhH
Q 023910          135 NHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNG-LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF-K-LRDL  211 (275)
Q Consensus       135 g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g-~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~-g-~~~~  211 (275)
                      +..++|+++++.+...  -.-+...||.-=..+...| .+++++++++.+...  -+=+...|+.--..+.+. + ++++
T Consensus        68 e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~--nPKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           68 EKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQ--NLKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT--TCCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             CCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCCChHH
Confidence            4456789999999884  2335677888777777778 599999999999854  455777888877777776 7 8999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHHHhC
Q 023910          212 VVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVA--------FSGIIRQDAFKYYG  259 (275)
Q Consensus       212 A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~--------~A~~l~~~m~~~~~  259 (275)
                      ++.+++.+.+.. .-|...|+----.+.+.|.++        ++.+..+++++..+
T Consensus       144 EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp  198 (349)
T 3q7a_A          144 EIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG  198 (349)
T ss_dssp             HHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC
Confidence            999999998543 225566655444444445555        88999998887655

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=84.73  E-value=5.7  Score=28.35  Aligned_cols=59  Identities=8%  Similarity=0.034  Sum_probs=30.6

Q ss_pred             HHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHH
Q 023910          139 LALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALL  200 (275)
Q Consensus       139 ~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI  200 (275)
                      +..+-++.+-. ..+.|+.....+-+++|-+.+++.-|+++|+-.+.+  +.+...+|..++
T Consensus        28 e~rrglN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K--~~~~~~iY~~~l   86 (109)
T 1v54_E           28 ELRKGMNTLVG-YDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHTT-SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHH
T ss_pred             HHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCchhhHHHHH
Confidence            34444444444 345666666666666666666666666666665533  333333444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=83.34  E-value=13  Score=33.92  Aligned_cols=90  Identities=9%  Similarity=0.036  Sum_probs=56.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHH
Q 023910          160 YADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPD-RSSYRTVINGL  238 (275)
Q Consensus       160 yn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~~  238 (275)
                      |-..++.+-+.+..+.|..+|+.. ...+..+.+....+.+.... .++.+.|..+|+...+.-  |+ ...+...++-.
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~--~~~~~~~~~yid~e  364 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH--PDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC--CCCHHHHHHHHHHH
Confidence            444444444567788999999888 33233333333333333322 336899999999887532  22 23455667777


Q ss_pred             HhcCCHHHHHHHHHH
Q 023910          239 EAMEEVAFSGIIRQD  253 (275)
Q Consensus       239 ~~~g~~~~A~~l~~~  253 (275)
                      .+.|+.+.|..+|+.
T Consensus       365 ~~~~~~~~aR~l~er  379 (493)
T 2uy1_A          365 LRIGDEENARALFKR  379 (493)
T ss_dssp             HHHTCHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHH
Confidence            788999998877776

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=82.19  E-value=13  Score=27.43  Aligned_cols=70  Identities=13%  Similarity=0.016  Sum_probs=38.8

Q ss_pred             cCHHHHHHHHHHHHhCCChhH---HHHHHHHHHhCCCCC-CHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          191 PEIQGFNALLKCLVGFKLRDL---VVDCYELMKTVGCEP-DRSSY-RTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       191 pd~~tyn~lI~~~~~~g~~~~---A~~l~~~M~~~g~~p-d~~ty-~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      |+..+--.+-.++++....++   ++.++++....+ .| +..-| =.|--++.|.|++++|.+.++.+.+.-|.-
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n  107 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQN  107 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCC
Confidence            444444445555666555444   666666655442 12 12211 133445667777777777777777777653

>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=80.86  E-value=13  Score=26.51  Aligned_cols=66  Identities=20%  Similarity=0.093  Sum_probs=50.6

Q ss_pred             cCC-CHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh-CCCCCCHHHHHHHHHH
Q 023910          169 TNG-LFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT-VGCEPDRSSYRTVING  237 (275)
Q Consensus       169 ~~g-~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-~g~~pd~~ty~~li~~  237 (275)
                      +.. +.-++.+-++.+-.. .+.|+.....+.+.||-|.+++..|.++|+-.+. .|-.  ...|..+++-
T Consensus        21 ~~~iD~~e~rrglN~l~~~-DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lqE   88 (109)
T 1v54_E           21 KPDIDAWELRKGMNTLVGY-DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQE   88 (109)
T ss_dssp             CTTCCHHHHHHHHHHHTTS-SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHHH
T ss_pred             CcCccHHHHHHHHHHHhcc-ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHHH
Confidence            444 566777777777654 6899999999999999999999999999999884 3332  3467777654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=80.82  E-value=11  Score=25.73  Aligned_cols=64  Identities=8%  Similarity=-0.128  Sum_probs=30.8

Q ss_pred             CHHHHHHHHHHHHcCCC---HHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 023910          156 QVSLYADMIQVFGTNGL---FQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       156 ~~~tyn~Li~~~~~~g~---~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      |...+..+-.++...++   .++|..+|++....  -+-++.....+=..+.+.|++++|...|+.+.+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34444444444433322   45555555555432  122334444444555556666666666665553

>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=80.68  E-value=12  Score=31.95  Aligned_cols=110  Identities=11%  Similarity=-0.104  Sum_probs=78.5

Q ss_pred             CHHHHHHHHH-HHHcC--CC------HHHHHHHHHHhHhcCCCCcC---HHHHHHHHHHHHh-----CCChhHHHHHHHH
Q 023910          156 QVSLYADMIQ-VFGTN--GL------FQHVEILYFYLKTENSLEPE---IQGFNALLKCLVG-----FKLRDLVVDCYEL  218 (275)
Q Consensus       156 ~~~tyn~Li~-~~~~~--g~------~~~A~~lf~~M~~~~G~~pd---~~tyn~lI~~~~~-----~g~~~~A~~l~~~  218 (275)
                      ....|..++. .+...  |.      ..+|..++++..+   +.|+   ...|+.|-..|.+     .|+.++|.+.|++
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            3566777665 34432  33      3566666666542   4566   6789999999999     5999999999999


Q ss_pred             HHhCCCCC--CHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHhCC----ccchHHHHHH
Q 023910          219 MKTVGCEP--DRSSYRTVINGLEAM-EEVAFSGIIRQDAFKYYGD----LEFLEEDEED  270 (275)
Q Consensus       219 M~~~g~~p--d~~ty~~li~~~~~~-g~~~~A~~l~~~m~~~~~~----~~~~~e~~~~  270 (275)
                      -.+-  .|  +..++...-+.+++. |+.++|.+++++.+..-+.    ..+.+...++
T Consensus       230 AL~L--nP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~q~  286 (301)
T 3u64_A          230 LTRY--CSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILSQK  286 (301)
T ss_dssp             HHHH--CCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHHHH
T ss_pred             HHHh--CCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHHHH
Confidence            8753  34  366888888999985 9999999999999876444    4444444433

---

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	275
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.57
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.37
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.33
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.08
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.04
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.98
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.93
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.89
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.88
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.82
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.82
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.78
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.74
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.62
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.56
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.53
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.51
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.47
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.44
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.43
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.42
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.4
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.37
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.34
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.26
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.21
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.18
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.15
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.12
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.02
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.91
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.9
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.89
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.88
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	96.74
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	96.67
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.5
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.5
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.39
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.11
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	95.66
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.25
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	94.7
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	94.46
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	93.4
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	92.83
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	90.98
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	90.64
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	87.98
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	85.57
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	83.71
d1khda1	69	Anthranilate phosphoribosyltransferase (TrpD) {Pec	81.59
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.12

>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=98.57  E-value=4.6e-06  Score=70.36  Aligned_cols=131  Identities=11%  Similarity=0.017  Sum_probs=112.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+-..+.+.|++++|.+.|++..+.  .+-+..+|..+-..|.+.|++++|++.|+.....  .+.+...+..+...|.
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHH
Confidence            35667788899999999999998773  2335788999999999999999999999998754  6778899999999999


Q ss_pred             hCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          205 GFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +.|++++|...|++..+  +.| +..++..+-..|.+.|++++|.+.+++..+..|+.
T Consensus       317 ~~~~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~  372 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTF  372 (388)
T ss_dssp             TTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTC
T ss_pred             HCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            99999999999998764  345 46678889999999999999999999999888763

>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=98.37  E-value=6.4e-06  Score=69.45  Aligned_cols=131  Identities=12%  Similarity=0.068  Sum_probs=103.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLV  204 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~  204 (275)
                      ..+-..+...|++++|...|+.....  ...+...|..+-..|.+.|++++|+..|++....  .+-+..+|..+-..|.
T Consensus       207 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~  282 (388)
T d1w3ba_         207 INLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALK  282 (388)
T ss_dssp             HHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHH
T ss_pred             HHHhhhhhccccHHHHHHHHHHhHHH--hhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            35556777788899999999888774  3456777888888888899999999999887642  2335678888888899


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +.|++++|.+.++..... .+.+...+..+...+.+.|++++|.+.+++..+..|+
T Consensus       283 ~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~  337 (388)
T d1w3ba_         283 EKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE  337 (388)
T ss_dssp             HHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTT
T ss_pred             HcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            999999999998877643 3456778888888899999999999999988776665

>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=98.33  E-value=8.7e-06  Score=68.09  Aligned_cols=127  Identities=11%  Similarity=-0.010  Sum_probs=105.1

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR  209 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~  209 (275)
                      .+...+...+|.+.|.+..+...-.++...|..+-..+...|++++|+..|++....  .+-+...|..+-..|.+.|++
T Consensus       145 ~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~  222 (323)
T d1fcha_         145 SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQS  222 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccc
Confidence            344556788899999888764334556788999999999999999999999998643  233578899999999999999


Q ss_pred             hHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          210 DLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       210 ~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++|.+.|++..+.  .| +...|..+-..|.+.|++++|.+.|++.++..|+
T Consensus       223 ~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~  272 (323)
T d1fcha_         223 EEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRK  272 (323)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence            9999999998753  34 4667888999999999999999999999988776

>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=98.08  E-value=0.00012  Score=61.28  Aligned_cols=139  Identities=9%  Similarity=0.026  Sum_probs=103.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHH-HHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHH
Q 023910          125 IAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQ-VFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCL  203 (275)
Q Consensus       125 ~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~-~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~  203 (275)
                      ...++.+.+.|..+.|.++|+...+..  ..+...|-.... -+...|+.+.|..+|+.+...  .+-+...|...++.+
T Consensus       138 ~~~~~~~~~~~~~~~ar~i~~~al~~~--~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~  213 (308)
T d2onda1         138 IQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYL  213 (308)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHTST--TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHH
Confidence            466677777889999999999987742  223333333332 234467899999999988754  455678899999999


Q ss_pred             HhCCChhHHHHHHHHHHhC-CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCccchHHH
Q 023910          204 VGFKLRDLVVDCYELMKTV-GCEPD--RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLEFLEED  267 (275)
Q Consensus       204 ~~~g~~~~A~~l~~~M~~~-g~~pd--~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~~~~e~  267 (275)
                      .+.|+++.|..+|++-... +..|+  ...|...+.--.+.|+++.+.++.+.+.+.||+..-.++.
T Consensus       214 ~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~~~~~~  280 (308)
T d2onda1         214 SHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYEGKET  280 (308)
T ss_dssp             HTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTSSCHH
T ss_pred             HHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccccccchH
Confidence            9999999999999987643 45554  4578888888788899999999999999999875333343

>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=98.04  E-value=0.00022  Score=59.08  Aligned_cols=153  Identities=10%  Similarity=-0.029  Sum_probs=111.0

Q ss_pred             CchHHHHHHHHhhhcH--HhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHh
Q 023910          106 NPLDHVFNSKFRRLLK--FDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYL  183 (275)
Q Consensus       106 ~~~~~~~~~~~~~l~~--~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M  183 (275)
                      ......|...+..--.  ..+..+-..|...|++++|...|++..+.  -+-+...|..+...|...|++++|.+.+++.
T Consensus        36 ~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~  113 (323)
T d1fcha_          36 PNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNESLQRQACEILRDW  113 (323)
T ss_dssp             HHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--ccccccccccccccccccccccccccchhhH
Confidence            3444666666542211  13446677888899999999999998774  1336788888999999999999999999987


Q ss_pred             HhcCC-------------------------------------------------CCcCHHHHHHHHHHHHhCCChhHHHH
Q 023910          184 KTENS-------------------------------------------------LEPEIQGFNALLKCLVGFKLRDLVVD  214 (275)
Q Consensus       184 ~~~~G-------------------------------------------------~~pd~~tyn~lI~~~~~~g~~~~A~~  214 (275)
                      .....                                                 -.++...+..+-..+...|++++|..
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~  193 (323)
T d1fcha_         114 LRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVD  193 (323)
T ss_dssp             HHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhc
Confidence            64210                                                 01234556667777888889999998


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          215 CYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       215 l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .|++..... +-+...|..+-..|.+.|++++|.+.+++..+..|..
T Consensus       194 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  239 (323)
T d1fcha_         194 CFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGY  239 (323)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             ccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhcc
Confidence            888876432 2256677888888888999999999998888877663

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.98  E-value=0.00022  Score=59.54  Aligned_cols=130  Identities=6%  Similarity=-0.039  Sum_probs=100.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH-HH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC-LV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~-~~  204 (275)
                      .....+-+.|+++.|..+|+.+.+. ........|...++.+.+.|+.+.|.++|+.....  .+.+...|...... +.
T Consensus       104 ~ya~~~~~~~~~~~a~~i~~~~l~~-~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~--~~~~~~~~~~~a~~e~~  180 (308)
T d2onda1         104 AYADYEESRMKYEKVHSIYNRLLAI-EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYY  180 (308)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTS-SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHH-hcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHH
Confidence            4455667889999999999999773 22233567999999999999999999999998754  33344444444333 34


Q ss_pred             hCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          205 GFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      ..|+.+.|..+|+.+.+. ..-+...|...++.+.+.|+++.|..+|++.++..+
T Consensus       181 ~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         181 CSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             TSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             hccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            468999999999999864 334567889999999999999999999999877544

>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=97.93  E-value=0.0002  Score=53.77  Aligned_cols=91  Identities=9%  Similarity=0.008  Sum_probs=78.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCC
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFK  207 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g  207 (275)
                      =+.|.+.|++++|...|++..+.  -.-+...|+.+-..|...|++++|+..|+...+-  -+-+...|..+..+|...|
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcC
Confidence            45677999999999999999884  2447889999999999999999999999998753  2446689999999999999


Q ss_pred             ChhHHHHHHHHHHhC
Q 023910          208 LRDLVVDCYELMKTV  222 (275)
Q Consensus       208 ~~~~A~~l~~~M~~~  222 (275)
                      ++++|...|++....
T Consensus        93 ~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          93 KFRAALRDYETVVKV  107 (159)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc
Confidence            999999999998854

>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=97.89  E-value=0.00018  Score=55.54  Aligned_cols=90  Identities=8%  Similarity=-0.037  Sum_probs=62.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCc-CHHHHHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEP-EIQGFNALLKCLV  204 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~p-d~~tyn~lI~~~~  204 (275)
                      ..=+.|.+.|++++|+..|++..+.  -+-+...|+.+-.+|.+.|++++|+..|+....   +.| +..+|..+-.+|.
T Consensus         9 ~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~~lg~~~~   83 (201)
T d2c2la1           9 EQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFFLGQCQL   83 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHHHHHHHHH
Confidence            3445666777777777777776663  234566777777777777777777777777642   444 4567777777777


Q ss_pred             hCCChhHHHHHHHHHH
Q 023910          205 GFKLRDLVVDCYELMK  220 (275)
Q Consensus       205 ~~g~~~~A~~l~~~M~  220 (275)
                      +.|++++|...|+...
T Consensus        84 ~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          84 EMESYDEAIANLQRAY   99 (201)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            7777777777777654

>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=97.88  E-value=0.00015  Score=51.85  Aligned_cols=88  Identities=14%  Similarity=0.008  Sum_probs=45.2

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKL  208 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~  208 (275)
                      +.+.+.|++++|+.+|++..+.  -+-+...|+.+-.+|.+.|++++|+..|+.....  -+.+...|..+-.+|...|+
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHh--ccchhhHHHHHHHHHHHccC
Confidence            3444555555555555555443  2334445555555555555555555555555432  23344555555555555555


Q ss_pred             hhHHHHHHHHHH
Q 023910          209 RDLVVDCYELMK  220 (275)
Q Consensus       209 ~~~A~~l~~~M~  220 (275)
                      +++|...|+.-.
T Consensus        87 ~~~A~~~~~~a~   98 (117)
T d1elwa_          87 FEEAKRTYEEGL   98 (117)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555544

>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=97.82  E-value=0.00017  Score=54.21  Aligned_cols=95  Identities=4%  Similarity=-0.139  Sum_probs=81.7

Q ss_pred             HHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 023910          163 MIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME  242 (275)
Q Consensus       163 Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g  242 (275)
                      .=+.|.+.|++++|+..|++....  -+-+...|+.+-.+|...|++++|.+.|+...+.. +-+...|..+..+|...|
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcC
Confidence            345678999999999999998754  35577889999999999999999999999998543 335578999999999999


Q ss_pred             CHHHHHHHHHHHHHHhCC
Q 023910          243 EVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       243 ~~~~A~~l~~~m~~~~~~  260 (275)
                      ++++|.+.+++..+..|.
T Consensus        93 ~~~eA~~~~~~a~~~~p~  110 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPH  110 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTT
T ss_pred             CHHHHHHHHHHHHHcCCC
Confidence            999999999999988776

>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=97.82  E-value=0.00035  Score=54.47  Aligned_cols=124  Identities=9%  Similarity=-0.081  Sum_probs=99.5

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR  209 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~  209 (275)
                      .+...|+++.|++.|++.     ..|+..+|..+=..|.+.|++++|++.|++-.+-  -+-+...|+.+=.+|.+.|++
T Consensus        14 ~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccH
Confidence            345789999999999865     2468888999999999999999999999998753  244678999999999999999


Q ss_pred             hHHHHHHHHHHhC------------CC--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          210 DLVVDCYELMKTV------------GC--EPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       210 ~~A~~l~~~M~~~------------g~--~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++|...|++-...            |.  .++ ..++..+-.++.+.|++++|.+.++...+..++
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            9999999986532            11  111 244555667899999999999999998877666

>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=97.78  E-value=0.00048  Score=49.03  Aligned_cols=95  Identities=6%  Similarity=-0.168  Sum_probs=83.7

Q ss_pred             HHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 023910          164 IQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE  243 (275)
Q Consensus       164 i~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~  243 (275)
                      -+.+.+.|++++|+.+|++..+.  -+-+...|+.+=.+|.+.|++++|...++...+.. +.+...|..+-.++...|+
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            35678899999999999998754  45677889999999999999999999999998543 3477889999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCc
Q 023910          244 VAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       244 ~~~A~~l~~~m~~~~~~~  261 (275)
                      +++|...+++.++..|.-
T Consensus        87 ~~~A~~~~~~a~~~~p~~  104 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANN  104 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHHHHHhCCCC
Confidence            999999999999999885

>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=97.74  E-value=0.00013  Score=52.84  Aligned_cols=93  Identities=15%  Similarity=-0.024  Sum_probs=41.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCH---HHHHHHHHHhHhcCCCCcC-HHHHHHHHH
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLF---QHVEILYFYLKTENSLEPE-IQGFNALLK  201 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~---~~A~~lf~~M~~~~G~~pd-~~tyn~lI~  201 (275)
                      .+++.+...+++++|.+.|+...+.  -..+..++..+-.++.+.++.   ++|+.+|++.... .-.|+ ..+|..|=.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~-~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-GSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-SCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhc-cCCchHHHHHHHHHH
Confidence            3444555555555555555555442  122444444444444443332   2355555554321 11122 123444444


Q ss_pred             HHHhCCChhHHHHHHHHHHh
Q 023910          202 CLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~  221 (275)
                      +|.+.|++++|...|+...+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHH
Confidence            45555555555555555443

>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=97.62  E-value=0.00049  Score=52.87  Aligned_cols=102  Identities=8%  Similarity=-0.070  Sum_probs=86.1

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC-CHHHHHH
Q 023910          155 PQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEP-DRSSYRT  233 (275)
Q Consensus       155 p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~  233 (275)
                      |+...+--.=+.|.+.|++++|+..|++....  -+-+...|+.+-.+|.+.|++++|...|+...+  +.| +..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHH
Confidence            56666677778899999999999999987643  355778899999999999999999999998764  456 4668889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          234 VINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       234 li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +-.+|.+.|++++|...++...+..|.
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l~p~  104 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSLAKE  104 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcc
Confidence            999999999999999999998887764

>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=97.56  E-value=0.0024  Score=50.65  Aligned_cols=123  Identities=9%  Similarity=-0.145  Sum_probs=92.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..|-+.|++++|.+.|++..+.  -+-+..+|+.+-..|.+.|++++|++.|++....  -+-+..+|..+-.+|..
T Consensus        42 ~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          42 ERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHHH
Confidence            3446777899999999999999884  2346889999999999999999999999998753  23346688889999999


Q ss_pred             CCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          206 FKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       206 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      .|++++|...|+...+.. +.+......+.-++.+.+..+.+..+...
T Consensus       118 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQH  164 (259)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            999999999999887543 22444444444445555555555554444

>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=97.53  E-value=0.0014  Score=50.49  Aligned_cols=100  Identities=12%  Similarity=-0.030  Sum_probs=79.7

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcC-C-CCCC------------------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCC
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQ-W-YKPQ------------------VSLYADMIQVFGTNGLFQHVEILYFYLKTENS  188 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~-g-~~p~------------------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G  188 (275)
                      ......|++++|...|..-..-. | +.++                  ...+..+...+.+.|++++|+..++.....  
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~--   96 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFE--   96 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh--
Confidence            45567888999888888876621 1 1111                  356788899999999999999999998754  


Q ss_pred             CCcCHHHHHHHHHHHHhCCChhHHHHHHHHHH-----hCCCCCCHHH
Q 023910          189 LEPEIQGFNALLKCLVGFKLRDLVVDCYELMK-----TVGCEPDRSS  230 (275)
Q Consensus       189 ~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-----~~g~~pd~~t  230 (275)
                      -+-|...|..++.+|.+.|+.++|++.|+++.     +-|+.|...|
T Consensus        97 ~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          97 HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            46688999999999999999999999999875     4699999766

>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=97.51  E-value=0.0015  Score=54.62  Aligned_cols=166  Identities=7%  Similarity=-0.068  Sum_probs=120.6

Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHHhH---HHHHHHHHhcC-CHHHHHHHHHHhHHcCCCCCCHHHHHHHHH
Q 023910           90 EAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDM---IAVLRELLRQN-HCLLALKVFEDIRKEQWYKPQVSLYADMIQ  165 (275)
Q Consensus        90 ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~~~---~~li~~~~~~g-~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~  165 (275)
                      +|...+..+.......+.....++..+. +.+.++   ...-..+...| ++++|+..++...+.  -.-+..+|+.+-.
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~-lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~~  120 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIE-LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHH-HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHH-HCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHhH
Confidence            5555555555555544445566666654 333332   23344455555 589999999998774  2446899999999


Q ss_pred             HHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--
Q 023910          166 VFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE--  243 (275)
Q Consensus       166 ~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~--  243 (275)
                      .+.+.|++++|++.|+++...  -+-+...|+.+...+.+.|++++|...|+...+... -|...|+.+-..+.+.+.  
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccc
Confidence            999999999999999999753  345789999999999999999999999999986432 255567666555555555  


Q ss_pred             ----HHHHHHHHHHHHHHhCCc
Q 023910          244 ----VAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       244 ----~~~A~~l~~~m~~~~~~~  261 (275)
                          +++|.+.+...++..|.-
T Consensus       198 ~~~~~~~ai~~~~~al~~~P~~  219 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLVPHN  219 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTC
T ss_pred             hhhhhHHhHHHHHHHHHhCCCc
Confidence                678899999999888876

>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=97.47  E-value=0.0015  Score=52.01  Aligned_cols=121  Identities=11%  Similarity=-0.053  Sum_probs=94.8

Q ss_pred             CHHHHHHHHHHhHHcCCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHH
Q 023910          136 HCLLALKVFEDIRKEQWYKP--QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVV  213 (275)
Q Consensus       136 ~~~~A~~lf~~m~~~~g~~p--~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~  213 (275)
                      +.+.|+.-+++...+....+  ...+|..+-..|.+.|++++|+..|++...-  -+-+..+|+.+-.+|.+.|++++|.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhh
Confidence            34556666677665422222  2356777778899999999999999998753  2346788999999999999999999


Q ss_pred             HHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          214 DCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       214 ~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ..|++..+.  .| +..+|..+-..|...|++++|.+.++...+..|+
T Consensus        92 ~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  137 (259)
T d1xnfa_          92 EAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN  137 (259)
T ss_dssp             HHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hhhhHHHHH--HhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccc
Confidence            999999853  23 4557888889999999999999999999887765

>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=97.44  E-value=0.00087  Score=48.30  Aligned_cols=99  Identities=9%  Similarity=-0.050  Sum_probs=81.9

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh---hHHHHHHHHHHhCCCCCCH-HHHHHHHH
Q 023910          161 ADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR---DLVVDCYELMKTVGCEPDR-SSYRTVIN  236 (275)
Q Consensus       161 n~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~---~~A~~l~~~M~~~g~~pd~-~ty~~li~  236 (275)
                      ..|++.+...+++++|++.|+.....  -+.+..++..+-.++.+.++.   ++|..+|++.....-.|+. .+|..|-.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            46788888999999999999998764  355778888888889876654   5699999998876555553 36777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          237 GLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       237 ~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +|.+.|++++|.+.++.+.+.-|+-
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~  105 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQN  105 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCC
Confidence            9999999999999999999999974

>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=97.43  E-value=0.0074  Score=50.20  Aligned_cols=130  Identities=8%  Similarity=-0.112  Sum_probs=99.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHh
Q 023910          126 AVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVG  205 (275)
Q Consensus       126 ~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~  205 (275)
                      .+-..+.+.|++++|++.|+.+.+.  -.-+...|+.+...|.+.|++++|++.|+.....  -+-|...|+.+-..+.+
T Consensus       117 ~~~~~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~  192 (315)
T d2h6fa1         117 HRRVLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISN  192 (315)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHH
Confidence            4445666789999999999999884  2447999999999999999999999999999753  24467788887777777


Q ss_pred             CCC------hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          206 FKL------RDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       206 ~g~------~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+.      +++|++.+....+.. +-|...|+-+-.. .....++++.+.++...+..+..
T Consensus       193 ~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~l-l~~~~~~~~~~~~~~~~~l~~~~  252 (315)
T d2h6fa1         193 TTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGI-LQDRGLSKYPNLLNQLLDLQPSH  252 (315)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHH-HTTTCGGGCHHHHHHHHHHTTTC
T ss_pred             ccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHH-HHhcChHHHHHHHHHHHHhCCCc
Confidence            665      567888887766432 2367777777665 45556789999999988887764

>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=97.42  E-value=0.001  Score=46.90  Aligned_cols=85  Identities=11%  Similarity=-0.015  Sum_probs=55.0

Q ss_pred             HHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCCh
Q 023910          130 ELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLR  209 (275)
Q Consensus       130 ~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~  209 (275)
                      .+.+.|++++|...|++..+..  .-+..+|..+-..|.+.|++++|+..|+....-  -+-+...|..+-..|...|+.
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCCCH
Confidence            4556677777777777766631  224666777777777777777777777766532  233466666666777777777


Q ss_pred             hHHHHHHHH
Q 023910          210 DLVVDCYEL  218 (275)
Q Consensus       210 ~~A~~l~~~  218 (275)
                      ++|.+.|++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776665

>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=97.40  E-value=0.0024  Score=45.96  Aligned_cols=95  Identities=7%  Similarity=-0.159  Sum_probs=48.2

Q ss_pred             HHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh--CCCC---CC-HHHHHHHHHH
Q 023910          164 IQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT--VGCE---PD-RSSYRTVING  237 (275)
Q Consensus       164 i~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~--~g~~---pd-~~ty~~li~~  237 (275)
                      =+.|.+.|++++|+..|++....  .+-+...|..+-.+|.+.|++++|...++...+  ....   ++ ..+|..+-..
T Consensus        11 G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          11 GNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555432  223455555555555555555555555555442  1111   11 1244555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHHhCC
Q 023910          238 LEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       238 ~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +...+++++|.+.++......+.
T Consensus        89 ~~~~~~~~~A~~~~~kal~~~~~  111 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLAEHRT  111 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCC
Confidence            55666666666666665554443

>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=97.37  E-value=0.0028  Score=47.99  Aligned_cols=93  Identities=8%  Similarity=-0.060  Sum_probs=66.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-------------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQ-------------VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI  193 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-------------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~  193 (275)
                      .=+.+.+.|++++|+..|.+..+-....++             ..+|+.+-.+|.+.|++++|+..++.....  -+-++
T Consensus        19 ~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~   96 (170)
T d1p5qa1          19 RGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNE   96 (170)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhc--cccch
Confidence            334677889999999999888764222222             355666777788888888888888777643  23377


Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      .+|..+-.+|...|++++|...|+...+
T Consensus        97 ~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          97 KGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            7788888888888888888888887764

>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=97.34  E-value=0.0036  Score=46.43  Aligned_cols=68  Identities=9%  Similarity=-0.123  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          193 IQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       193 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ..+|+.+-.+|.+.|++++|++.++...+.. +-+..+|..+..++...|++++|...|+...+..|.-
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n  134 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNN  134 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            3577778888888888888888888876532 3367788888888888888888888888888888863

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.26  E-value=0.0061  Score=45.15  Aligned_cols=105  Identities=12%  Similarity=0.023  Sum_probs=73.5

Q ss_pred             HHHHHHH--HHHHHcCCCHHHHHHHHHHhHhcCCCCc----------CHHHHHHHHHHHHhCCChhHHHHHHHHHHh---
Q 023910          157 VSLYADM--IQVFGTNGLFQHVEILYFYLKTENSLEP----------EIQGFNALLKCLVGFKLRDLVVDCYELMKT---  221 (275)
Q Consensus       157 ~~tyn~L--i~~~~~~g~~~~A~~lf~~M~~~~G~~p----------d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~---  221 (275)
                      ..+|+.+  -..+.+.|++++|+..|++-..-..-.|          ....|+.+-.+|.+.|++++|..-+++..+   
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3456666  4455667888888888887643100112          246788888889999999998888887652   


Q ss_pred             --CCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          222 --VGCEPD-----RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       222 --~g~~pd-----~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                        ....++     ...|+.+-.+|...|++++|.+.|++..+.+++.
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence              122232     2246667788999999999999999998887764

>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=97.21  E-value=0.0016  Score=45.75  Aligned_cols=90  Identities=3%  Similarity=-0.116  Sum_probs=75.2

Q ss_pred             HHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 023910          163 MIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAME  242 (275)
Q Consensus       163 Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g  242 (275)
                      +-..+.+.|++++|+..|++....  -+-+...|..+-.+|.+.|++++|...|+...+.. +-+...|..+-..|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            345677899999999999998754  23368999999999999999999999999987532 235778889999999999


Q ss_pred             CHHHHHHHHHHHH
Q 023910          243 EVAFSGIIRQDAF  255 (275)
Q Consensus       243 ~~~~A~~l~~~m~  255 (275)
                      ++++|.+.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998753

>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=97.18  E-value=0.0035  Score=51.39  Aligned_cols=138  Identities=11%  Similarity=-0.043  Sum_probs=100.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHc---CCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCC-CCcCHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKE---QWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKT---ENS-LEPEIQG  195 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~---~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G-~~pd~~t  195 (275)
                      |...-+.|-..|++++|.+.|.+..+-   .+-.+ -..+|+.+-..|.+.|++++|++.+++...   ..| ...-..+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            335567788889999999999887551   11111 246889999999999999999999986432   211 1222456


Q ss_pred             HHHHHHHHHh-CCChhHHHHHHHHHH----hCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          196 FNALLKCLVG-FKLRDLVVDCYELMK----TVGCEPD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       196 yn~lI~~~~~-~g~~~~A~~l~~~M~----~~g~~pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      +..+...|-. .|++++|.+.+++..    ..+-.+. ..+|..+...+.+.|++++|.+++++.....+..
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~  191 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGN  191 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccc
Confidence            6666666744 699999999998765    2333322 3467888999999999999999999988877664

>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=0.014  Score=43.64  Aligned_cols=128  Identities=6%  Similarity=-0.038  Sum_probs=86.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-------------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQ-------------VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEI  193 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-------------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~  193 (275)
                      .-+.+.+.|++++|...|++........++             ..+|+.+-.+|.+.|++++|+..++.....  -+.+.
T Consensus        21 ~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l--~p~~~   98 (168)
T d1kt1a1          21 KGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL--DSANE   98 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhc--ccchH
Confidence            345566889999999998776542111111             345666777889999999999999998754  46688


Q ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCH-HHHHHHHHHHHHHh
Q 023910          194 QGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSY-RTVINGLEAMEEV-AFSGIIRQDAFKYY  258 (275)
Q Consensus       194 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty-~~li~~~~~~g~~-~~A~~l~~~m~~~~  258 (275)
                      ..|..+-.+|...|++++|...|+...+  +.|+.... ..+-....+.+.. +...+++..|.+.+
T Consensus        99 ~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l~~~~~~~~~~~e~~kk~~~~~f~~~  163 (168)
T d1kt1a1          99 KGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQIFMCQKKAKEHNERDRRTYANMFKKF  163 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Confidence            8999999999999999999999999875  34544433 3333332333322 23445555555443

>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=97.12  E-value=0.00054  Score=56.38  Aligned_cols=125  Identities=14%  Similarity=0.118  Sum_probs=86.0

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC-HHHHHHHHHHHHhCCChh
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE-IQGFNALLKCLVGFKLRD  210 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd-~~tyn~lI~~~~~~g~~~  210 (275)
                      .+.|++++|+..+++-.+.  -.-|...+..|...|+..|++++|...|+....   ..|+ ...+..+-..+...+..+
T Consensus         7 L~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccH
Confidence            3679999999999999885  355789999999999999999999999999874   3454 444444444433333322


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          211 LVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       211 ~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ++..-...-...+-.++...+......+.+.|+.++|.++++++.+..|..
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~  132 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEK  132 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCC
Confidence            221111100011222344455556677888999999999999999887764

>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=97.02  E-value=0.0095  Score=44.83  Aligned_cols=94  Identities=10%  Similarity=0.141  Sum_probs=63.7

Q ss_pred             HHHcCCCHHHHHHHHHHhHhcC----CCCc---------CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHH
Q 023910          166 VFGTNGLFQHVEILYFYLKTEN----SLEP---------EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYR  232 (275)
Q Consensus       166 ~~~~~g~~~~A~~lf~~M~~~~----G~~p---------d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~  232 (275)
                      .|.+.|++++|+..|.+...-.    +...         -..+|+.+-.+|.+.|++++|...++.-.+.. +-+...|.
T Consensus        22 ~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~  100 (170)
T d1p5qa1          22 VYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLS  100 (170)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhH
Confidence            3456677777777776654211    1111         13567777777888888888888887776432 22666777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          233 TVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       233 ~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      -+-.+|...|++++|...|++..+..|.
T Consensus       101 ~~g~~~~~~g~~~~A~~~~~~al~l~P~  128 (170)
T d1p5qa1         101 RRGEAHLAVNDFELARADFQKVLQLYPN  128 (170)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhCCC
Confidence            7778888888888888888888887775

>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=96.91  E-value=0.019  Score=46.29  Aligned_cols=128  Identities=10%  Similarity=-0.025  Sum_probs=82.3

Q ss_pred             HHhcCCHHHHHHHHHHhHHcCCCCCC------HHHHHHHHHHHHcCCCHHHHHHHHHHhHh---cCCCC-cCHHHHHHHH
Q 023910          131 LLRQNHCLLALKVFEDIRKEQWYKPQ------VSLYADMIQVFGTNGLFQHVEILYFYLKT---ENSLE-PEIQGFNALL  200 (275)
Q Consensus       131 ~~~~g~~~~A~~lf~~m~~~~g~~p~------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~---~~G~~-pd~~tyn~lI  200 (275)
                      +...|++++|.++|++..+.   .|+      ...++.+-..|...|++++|+..|++...   ..+-. ....++..+.
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~---~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEE---LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHT---CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhh---CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            45678888888888877663   222      34666677778888888888888876543   11111 1234566666


Q ss_pred             HHHHhCCChhHHHHHHHHHH----hCCCC--CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          201 KCLVGFKLRDLVVDCYELMK----TVGCE--PD-RSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       201 ~~~~~~g~~~~A~~l~~~M~----~~g~~--pd-~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      ..+...|++..|...+.+..    ..+..  +. ...+..+-..+...|+++.|...+.......+..
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~  166 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSY  166 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhh
Confidence            77777888888887777654    22221  21 2344556667778888888888888877666554

>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=96.90  E-value=0.02  Score=42.71  Aligned_cols=68  Identities=9%  Similarity=0.016  Sum_probs=47.2

Q ss_pred             CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          192 EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       192 d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +...|+.+=.+|.+.|++++|+..++...+.. +-+...|..+-.+|.+.|++++|.+.|+...+..|+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~  143 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE  143 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            34556666667777777777777777776432 235566777777777777777777777777777665

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.89  E-value=0.0042  Score=44.57  Aligned_cols=93  Identities=9%  Similarity=0.061  Sum_probs=74.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhc---C-CCCcC-HHHHHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTE---N-SLEPE-IQGFNALLK  201 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~---~-G~~pd-~~tyn~lI~  201 (275)
                      +=+.+.+.|++++|+..|.+..+.  .+.+..+|+.+-..|.+.|++++|+..+++...-   . +..++ ..+|..+-.
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            345677899999999999999885  2457899999999999999999999999986531   0 11111 257888888


Q ss_pred             HHHhCCChhHHHHHHHHHHh
Q 023910          202 CLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~  221 (275)
                      .+...+++++|.+.|+.-..
T Consensus        88 ~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHh
Confidence            88999999999999987653

>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=96.88  E-value=0.017  Score=42.47  Aligned_cols=97  Identities=8%  Similarity=0.041  Sum_probs=76.8

Q ss_pred             HHHHhcCCHHHHHHHHHHhHHcCCCCC---C-----------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHH
Q 023910          129 RELLRQNHCLLALKVFEDIRKEQWYKP---Q-----------VSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQ  194 (275)
Q Consensus       129 ~~~~~~g~~~~A~~lf~~m~~~~g~~p---~-----------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~  194 (275)
                      +.+.+.|++.+|+..|.+..+.....+   +           ..+|+.+-.+|.+.|++++|++.++.....  -+-++.
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~--~p~~~k  102 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI--DKNNVK  102 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccc--cchhhh
Confidence            456688999999999988765221111   1           357788889999999999999999998754  355889


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHH
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRS  229 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~  229 (275)
                      +|..+-.+|...|++++|...|+.-.+.  .|+..
T Consensus       103 a~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~  135 (153)
T d2fbna1         103 ALYKLGVANMYFGFLEEAKENLYKAASL--NPNNL  135 (153)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCH
T ss_pred             hhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCH
Confidence            9999999999999999999999987753  45433

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.74  E-value=0.0069  Score=46.66  Aligned_cols=89  Identities=6%  Similarity=-0.141  Sum_probs=74.2

Q ss_pred             HHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 023910          165 QVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEV  244 (275)
Q Consensus       165 ~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~  244 (275)
                      ..+...|++++|++.|.++.     .|+..+|..+=.+|...|++++|.+.|++-.+.. +-+...|..+-.+|.+.|++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            35567899999999998752     4678889999999999999999999999988532 23567888899999999999


Q ss_pred             HHHHHHHHHHHHHhC
Q 023910          245 AFSGIIRQDAFKYYG  259 (275)
Q Consensus       245 ~~A~~l~~~m~~~~~  259 (275)
                      ++|.+.|++.....+
T Consensus        87 ~~A~~~~~kAl~~~~  101 (192)
T d1hh8a_          87 DLAIKDLKEALIQLR  101 (192)
T ss_dssp             HHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhCc
Confidence            999999999876533

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.67  E-value=0.014  Score=47.57  Aligned_cols=137  Identities=6%  Similarity=-0.063  Sum_probs=91.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHH---cCC-CCCCHHHHHHHHHHHH-cCCCHHHHHHHHHHhHh---cCCCCc-CHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRK---EQW-YKPQVSLYADMIQVFG-TNGLFQHVEILYFYLKT---ENSLEP-EIQ  194 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~---~~g-~~p~~~tyn~Li~~~~-~~g~~~~A~~lf~~M~~---~~G~~p-d~~  194 (275)
                      +..+-..|.+.|++++|.+.++...+   ..| ......++..+...|- ..|++++|++.|++...   ..+-.+ -..
T Consensus        80 ~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~  159 (290)
T d1qqea_          80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhh
Confidence            34556778889999999999986544   111 0111456666666674 46999999999987642   112222 246


Q ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHhCCC-----CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          195 GFNALLKCLVGFKLRDLVVDCYELMKTVGC-----EPDRS-SYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       195 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~-----~pd~~-ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +|+.+...|.+.|++++|..+|++.....-     ..... .|..++-.+...|+++.|.+.+++..+.+|.
T Consensus       160 ~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~  231 (290)
T d1qqea_         160 CFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPN  231 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---
T ss_pred             HHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            688899999999999999999999874321     12221 2334444567789999999999987766553

>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=96.50  E-value=0.043  Score=44.07  Aligned_cols=136  Identities=7%  Similarity=-0.089  Sum_probs=97.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHc---CCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcC-C-CCcCHHHHHHH
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKE---QWYKP--QVSLYADMIQVFGTNGLFQHVEILYFYLKTEN-S-LEPEIQGFNAL  199 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~---~g~~p--~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~-G-~~pd~~tyn~l  199 (275)
                      ....+...+....+...+.+....   .+..+  ....++.+...+...|++++|...+....... + -......+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            344555678888888777765441   11111  13456777788899999999999998865321 1 12334667778


Q ss_pred             HHHHHhCCChhHHHHHHHHHH----hCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCcc
Q 023910          200 LKCLVGFKLRDLVVDCYELMK----TVGCEPDR-SSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDLE  262 (275)
Q Consensus       200 I~~~~~~g~~~~A~~l~~~M~----~~g~~pd~-~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~~  262 (275)
                      -..|...|++++|...++...    ..+..|+. .++..+-..|.+.|++++|.+.+++..+...+.+
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~  325 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTG  325 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcC
Confidence            889999999999999999876    34665643 4677788899999999999999999877655443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.50  E-value=0.0076  Score=46.10  Aligned_cols=70  Identities=13%  Similarity=0.081  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHh----cCCCCcCHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKT----ENSLEPEIQG  195 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G~~pd~~t  195 (275)
                      +..+...+.+.|++++|...++...+.  -.-+...|..|+.+|.+.|+.++|++.|+++..    +.|+.|...|
T Consensus        70 ~~~la~~~~~~g~~~~Al~~~~~al~~--~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          70 HTAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            346778888999999999999999885  245899999999999999999999999998743    4689999765

>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=96.39  E-value=0.031  Score=41.60  Aligned_cols=102  Identities=13%  Similarity=0.114  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhHh----cCCCCc---------CHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCCC
Q 023910          159 LYADMIQVFGTNGLFQHVEILYFYLKT----ENSLEP---------EIQGFNALLKCLVGFKLRDLVVDCYELMKTVGCE  225 (275)
Q Consensus       159 tyn~Li~~~~~~g~~~~A~~lf~~M~~----~~G~~p---------d~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~  225 (275)
                      .+.-.-+.+.+.|++++|...|.+-..    ..+..+         ....|+.+-.+|.+.|++++|+..++...+. -+
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l-~p   95 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL-DS   95 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhc-cc
Confidence            344556678889999999999976432    111111         1245667777889999999999999998853 24


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhCCc
Q 023910          226 PDRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       226 pd~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+...|..+-.++...|++++|.+.|+...+..|+-
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n  131 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQN  131 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            577889999999999999999999999999988874

>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=96.11  E-value=0.12  Score=38.09  Aligned_cols=94  Identities=9%  Similarity=0.017  Sum_probs=71.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHHcC-------------CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcC
Q 023910          127 VLRELLRQNHCLLALKVFEDIRKEQ-------------WYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPE  192 (275)
Q Consensus       127 li~~~~~~g~~~~A~~lf~~m~~~~-------------g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd  192 (275)
                      .-+.+.+.|+++.|++.|.+..+-.             -+.| +...|+.+-..|.+.|++++|+..|+....-  -+-+
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p~~  110 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSN  110 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhh--hhhh
Confidence            3445567778888877776653210             0111 3556777888899999999999999998743  3557


Q ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHhC
Q 023910          193 IQGFNALLKCLVGFKLRDLVVDCYELMKTV  222 (275)
Q Consensus       193 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~  222 (275)
                      ...|..+-.+|.+.|++++|...|+...+.
T Consensus       111 ~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1         111 TKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            789999999999999999999999988863

>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=95.66  E-value=0.022  Score=47.05  Aligned_cols=117  Identities=9%  Similarity=-0.089  Sum_probs=84.4

Q ss_pred             HhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCC--HHHHHHHHHHhHhcCCCCcCHHHHHHHH-HHHHhCCC
Q 023910          132 LRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGL--FQHVEILYFYLKTENSLEPEIQGFNALL-KCLVGFKL  208 (275)
Q Consensus       132 ~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~--~~~A~~lf~~M~~~~G~~pd~~tyn~lI-~~~~~~g~  208 (275)
                      ...|.+++|+.+|+...+.  ..-+...|..+..++...++  .++|+..+++....  -+++...+...+ ..+...|.
T Consensus        84 ~~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~  159 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVA  159 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhh--CchhhhhhhhHHHHHHHhccc
Confidence            3456688899999998774  24467788888777777654  78999999998754  345666665554 56667899


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023910          209 RDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEEVAFSGIIRQD  253 (275)
Q Consensus       209 ~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~~~~A~~l~~~  253 (275)
                      .++|+..++...+..- -|...|+.+-..+.+.|++++|...++.
T Consensus       160 ~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~~~  203 (334)
T d1dcea1         160 PAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRL  203 (334)
T ss_dssp             HHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSS
T ss_pred             cHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            9999999988775432 2667788888888888887766444433

>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=95.25  E-value=0.26  Score=35.64  Aligned_cols=93  Identities=10%  Similarity=-0.051  Sum_probs=69.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHHcCCCCCC----------HHHHHHHHHHHHcCCCHHHHHHHHHHhHhc----CCCCcC-
Q 023910          128 LRELLRQNHCLLALKVFEDIRKEQWYKPQ----------VSLYADMIQVFGTNGLFQHVEILYFYLKTE----NSLEPE-  192 (275)
Q Consensus       128 i~~~~~~g~~~~A~~lf~~m~~~~g~~p~----------~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~----~G~~pd-  192 (275)
                      -..+.+.|++++|++.|++-.+-..-.|+          ...|+.+-.+|.+.|++++|+.-+++...-    ....++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            44556779999999999998762112222          478999999999999999999988876421    012222 


Q ss_pred             ----HHHHHHHHHHHHhCCChhHHHHHHHHHH
Q 023910          193 ----IQGFNALLKCLVGFKLRDLVVDCYELMK  220 (275)
Q Consensus       193 ----~~tyn~lI~~~~~~g~~~~A~~l~~~M~  220 (275)
                          ...|+.+=.+|...|++++|+..|++..
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence                2357778899999999999999998865

>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=94.70  E-value=0.28  Score=32.42  Aligned_cols=31  Identities=0%  Similarity=-0.016  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          230 SYRTVINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       230 ty~~li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      +|+.|-.++.+.|++++|.+.++++++..|+
T Consensus        48 ~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~   78 (95)
T d1tjca_          48 VLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHhhHHHhcCChHHHHHHHHHHHHhCcC
Confidence            4445555555555555555555555555444

>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=94.46  E-value=0.2  Score=33.20  Aligned_cols=65  Identities=11%  Similarity=-0.022  Sum_probs=43.4

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHhHHcC----CCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHhHh
Q 023910          121 KFDMIAVLRELLRQNHCLLALKVFEDIRKEQ----WYKPQ-VSLYADMIQVFGTNGLFQHVEILYFYLKT  185 (275)
Q Consensus       121 ~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~----g~~p~-~~tyn~Li~~~~~~g~~~~A~~lf~~M~~  185 (275)
                      ..++..+=..+.+.|+++.|...|++..+..    ...++ ..+|+.|-.+|.+.|++++|+..+++..+
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            3455666667777888888888777765421    01112 45677777888888888888888887764

>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=93.40  E-value=0.28  Score=35.28  Aligned_cols=102  Identities=11%  Similarity=-0.019  Sum_probs=67.7

Q ss_pred             HHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcC----------CCHHHHHHHHHHhHhcCCCCcCHHHHHHHH
Q 023910          131 LLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTN----------GLFQHVEILYFYLKTENSLEPEIQGFNALL  200 (275)
Q Consensus       131 ~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~----------g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI  200 (275)
                      |-+.+.+++|.+.|+...+.  -+.|..+|+.+=..|...          +.+++|+..|++..+-  -+-+..+|+.+=
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHH
Confidence            34556789999999999885  234566777666666643          4457888888887642  234667888887


Q ss_pred             HHHHhCCC-----------hhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 023910          201 KCLVGFKL-----------RDLVVDCYELMKTVGCEPDRSSYRTVINGL  238 (275)
Q Consensus       201 ~~~~~~g~-----------~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  238 (275)
                      .+|...|+           +++|.+.|+...+  +.|+..+|..-+..+
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~  129 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT  129 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH
Confidence            77776543           4566666665553  457766666555544

>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=92.83  E-value=1.2  Score=35.70  Aligned_cols=122  Identities=9%  Similarity=-0.061  Sum_probs=84.0

Q ss_pred             hcCCHHHHHHHHHHhHHcCCCCCCH-HHHHH---HHHHHHc-------CCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          133 RQNHCLLALKVFEDIRKEQWYKPQV-SLYAD---MIQVFGT-------NGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       133 ~~g~~~~A~~lf~~m~~~~g~~p~~-~tyn~---Li~~~~~-------~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      +.+..++|+++++...+.   .|+- ..|+.   ++..+..       .|.+++|+.+|+.....  -+-+...|..+-.
T Consensus        41 ~~~~~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~  115 (334)
T d1dcea1          41 AGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCW  115 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhH
Confidence            444568999999999874   4654 34543   2233333       34578899999998753  3446777888877


Q ss_pred             HHHhCC--ChhHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHHHHhCC
Q 023910          202 CLVGFK--LRDLVVDCYELMKTVGCEPDRSSYRT-VINGLEAMEEVAFSGIIRQDAFKYYGD  260 (275)
Q Consensus       202 ~~~~~g--~~~~A~~l~~~M~~~g~~pd~~ty~~-li~~~~~~g~~~~A~~l~~~m~~~~~~  260 (275)
                      ++...+  ++++|...++...+.. .++...+.. .-..+...+..++|.+.++.+++..|.
T Consensus       116 ~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~  176 (334)
T d1dcea1         116 LLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS  176 (334)
T ss_dssp             HHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC
T ss_pred             HHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC
Confidence            777766  4789999999987542 234455443 446677789999999999987766554

>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=90.98  E-value=0.26  Score=39.55  Aligned_cols=119  Identities=8%  Similarity=-0.079  Sum_probs=72.1

Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhcHHhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCC-HHHHH
Q 023910           83 RGRNLSIEAIQAVQHLKRAHLHSNPLDHVFNSKFRRLLKFDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQ-VSLYA  161 (275)
Q Consensus        83 ~~~~l~~ea~~~~~~m~~~~~~~~~~~~~~~~~~~~l~~~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~-~~tyn  161 (275)
                      +.+.+. +|+..++...+..-..   ..            -...+...|+..|++++|.+.|+...+.   .|+ ...+.
T Consensus         8 ~~G~l~-eAl~~l~~al~~~P~d---~~------------ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~   68 (264)
T d1zbpa1           8 SEGQLQ-QALELLIEAIKASPKD---AS------------LRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGAS   68 (264)
T ss_dssp             TTTCHH-HHHHHHHHHHHTCTTC---HH------------HHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHH
T ss_pred             HCCCHH-HHHHHHHHHHHHCCCC---HH------------HHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHH
Confidence            334445 7777776666554311   11            2345677889999999999999999884   454 45554


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHh
Q 023910          162 DMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKT  221 (275)
Q Consensus       162 ~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~  221 (275)
                      .+-..+...+..+++..-...-. ..+-.++...+......+.+.|+.++|.+++++..+
T Consensus        69 ~l~~ll~a~~~~~~a~~~~~~~~-~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          69 QLRHLVKAAQARKDFAQGAATAK-VLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCCEE-CCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccHHHHHHhhhhh-cccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            44444433333333222111110 112234455566667778889999999999998864

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=90.64  E-value=1.8  Score=35.71  Aligned_cols=108  Identities=5%  Similarity=-0.003  Sum_probs=80.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHH
Q 023910          122 FDMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLK  201 (275)
Q Consensus       122 ~~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~  201 (275)
                      .++..++..+.+.+++..|.+++...   .    +..+|.-+...+.+.....-|.-     ... ....+...-..++.
T Consensus        41 ~d~~rl~~~~v~l~~~~~avd~~~k~---~----~~~~~k~~~~~l~~~~e~~la~i-----~~~-~~~~~~d~l~~~v~  107 (336)
T d1b89a_          41 SNFGRLASTLVHLGEYQAAVDGARKA---N----STRTWKEVCFACVDGKEFRLAQM-----CGL-HIVVHADELEELIN  107 (336)
T ss_dssp             TCHHHHHHHHHTTTCHHHHHHHHHHH---T----CHHHHHHHHHHHHHTTCHHHHHH-----TTT-TTTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHhhccHHHHHHHHHHc---C----CHHHHHHHHHHHHhCcHHHHHHH-----HHH-HhhcCHHHHHHHHH
Confidence            46778888888999999888877543   2    67789889999888876655421     111 24445666678999


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 023910          202 CLVGFKLRDLVVDCYELMKTVGCEPDRSSYRTVINGLEAMEE  243 (275)
Q Consensus       202 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~~~~g~  243 (275)
                      .|-..|.+++...+++..... -.++...++-++..|++.+.
T Consensus       108 ~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~  148 (336)
T d1b89a_         108 YYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP  148 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh
Confidence            999999999999999976532 35677788999999998753

>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=87.98  E-value=0.67  Score=33.07  Aligned_cols=91  Identities=11%  Similarity=0.079  Sum_probs=65.5

Q ss_pred             HHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhC----------CChhHHHHHHHHHHhCCCCC-CHHHHHHHH
Q 023910          167 FGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKCLVGF----------KLRDLVVDCYELMKTVGCEP-DRSSYRTVI  235 (275)
Q Consensus       167 ~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~----------g~~~~A~~l~~~M~~~g~~p-d~~ty~~li  235 (275)
                      |-+.+.+++|...|+.....  -+-|...|+.+=.+|...          +.+++|...|++..+-  .| +..+|..+-
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHH
Confidence            34556789999999998753  345666777776677643          4457889999888743  34 556777777


Q ss_pred             HHHHhcC-----------CHHHHHHHHHHHHHHhCCc
Q 023910          236 NGLEAME-----------EVAFSGIIRQDAFKYYGDL  261 (275)
Q Consensus       236 ~~~~~~g-----------~~~~A~~l~~~m~~~~~~~  261 (275)
                      .+|...|           .+++|.+.|+..++..|..
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~  119 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDN  119 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCH
Confidence            7776654           3688888999988888874

>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=85.57  E-value=3.5  Score=33.79  Aligned_cols=57  Identities=4%  Similarity=0.056  Sum_probs=42.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 023910          123 DMIAVLRELLRQNHCLLALKVFEDIRKEQWYKPQVSLYADMIQVFGTNGLFQHVEILYFY  182 (275)
Q Consensus       123 ~~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~  182 (275)
                      ....++..|-..|.+++...+++.....  -.++...+|-|+..|++.+ .++-++.+..
T Consensus       101 ~l~~~v~~ye~~~~~e~Li~~Le~~~~~--~~~~~~~~~~L~~lyak~~-~~kl~e~l~~  157 (336)
T d1b89a_         101 ELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFK-PQKMREHLEL  157 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHTTS--TTCCHHHHHHHHHHHHTTC-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHcC--CccchHHHHHHHHHHHHhC-hHHHHHHHHh
Confidence            4557889999999999999999976432  2567888999999999975 4454444444

>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=83.71  E-value=2.3  Score=36.66  Aligned_cols=125  Identities=10%  Similarity=-0.039  Sum_probs=77.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHHcCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHhHhcCCCCcCHHHHHHHHHH
Q 023910          124 MIAVLRELLRQNHCLLALKVFEDIRKEQWYKP-QVSLYADMIQVFGTNGLFQHVEILYFYLKTENSLEPEIQGFNALLKC  202 (275)
Q Consensus       124 ~~~li~~~~~~g~~~~A~~lf~~m~~~~g~~p-~~~tyn~Li~~~~~~g~~~~A~~lf~~M~~~~G~~pd~~tyn~lI~~  202 (275)
                      +..+-+.+...|++++|...|++..+.   .| +..+||.|-..|...|+..+|+..|.+-..-  -.|-..+++.|...
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l---~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~--~~~~~~a~~nL~~~  229 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQL---VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAV--KFPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS--SBCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCCCHHHHHHHHHH
Confidence            345556666778889999888888773   34 4578888888888889998888888876532  46777888888887


Q ss_pred             HHhCCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhC
Q 023910          203 LVGFKLRDLVVDCYELMKTVGCEP-DRSSYRTVINGLEAMEEVAFSGIIRQDAFKYYG  259 (275)
Q Consensus       203 ~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~~~~~g~~~~A~~l~~~m~~~~~  259 (275)
                      +.+.....++...      ....+ -...|..+...+.....++...++.+++...+.
T Consensus       230 ~~~~~~~~~~~~~------~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~~~~l~  281 (497)
T d1ya0a1         230 LSKALESRDEVKT------KWGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKLEEQFK  281 (497)
T ss_dssp             HHHHTTSCCCCCS------SCCHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHHHHHHH
T ss_pred             HHHhhhhhhhhcc------ccccchHHHHHHHHHHHHHhCCchhhHHHHHHHHHHHHH
Confidence            7654432211000      00000 011234444445556666666666665554433

>d1khda1 a.46.2.1 (A:12-80) Anthranilate phosphoribosyltransferase (TrpD) {Pectobacterium carotovorum [TaxId: 554]}

class: All alpha proteins
fold: Methionine synthase domain-like
superfamily: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
family: Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
domain: Anthranilate phosphoribosyltransferase (TrpD)
species: Pectobacterium carotovorum [TaxId: 554]

Probab=81.59  E-value=3.4  Score=25.31  Aligned_cols=64  Identities=6%  Similarity=-0.046  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHcCCCH--HHHHHHHHHhHhcCCCCcCHHHHHHHHHHHHhCCChhHHHHHHHHHHhCCC
Q 023910          159 LYADMIQVFGTNGLF--QHVEILYFYLKTENSLEPEIQGFNALLKCLVGFKLRDLVVDCYELMKTVGC  224 (275)
Q Consensus       159 tyn~Li~~~~~~g~~--~~A~~lf~~M~~~~G~~pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~  224 (275)
                      ||+.+|+-....+++  +++..+++.+. + |-.+|...=.-|+....+.-..++...+.+-|.+.+.
T Consensus         1 t~~~il~kl~~g~~Ls~ee~~~~~~~i~-~-g~~~d~qiaafL~al~~kg~t~dEi~g~~~am~~~~~   66 (69)
T d1khda1           1 THQPILEKLFKSQSMTQEESHQLFAAIV-R-GELEDSQLAAALISMKMRGERPEEIAGAASALLADAQ   66 (69)
T ss_dssp             CCHHHHHHHHTTCCCCHHHHHHHHHHHT-T-TCSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTSC
T ss_pred             CHHHHHHHHHcCCCCCHHHHHHHHHHHH-c-CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCC
Confidence            467777777766554  67888888886 2 5667776666666666666678888888888877654

>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=80.12  E-value=5.2  Score=26.62  Aligned_cols=33  Identities=9%  Similarity=0.028  Sum_probs=17.4

Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHhH
Q 023910          152 WYKPQVSLYADMIQVFGTNGLFQHVEILYFYLK  184 (275)
Q Consensus       152 g~~p~~~tyn~Li~~~~~~g~~~~A~~lf~~M~  184 (275)
                      .+.|+....++-+++|-+.+++.-|+++|+-.+
T Consensus        36 DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          36 DLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            345555555555555555555555555555544