Citrus Sinensis ID: 047178

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------
Protein Sequence
MWRSPATSYLVGRTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSVDQYPERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRSNKKSKSSSMKGKKSGRTRDTPVSDGVTNAIEDIQ
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHHHHHHHccccccEEccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHcc
Coil and Loop (DISEMBL)
mwrspatsylvgRTLNSIYKSAEKIQISNQIIGKAmsmsslegqrtnqsvdqypernaastrnfrigenvprkdKINFLVNTLLdlknskedvYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLskgqgstmgtCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGleafdrkppeksIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKekrsnkksksssmkgkksgrtrdtpvsdgvtNAIEDIQ
Flexible Loop (DISEMBL)
mwrspatsylvgrTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSvdqypernaastrnfrigenvprkdkINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGleafdrkppeksivqRVADAYEVlglleekervlekykdlftekekrsnkksksssmkgkksgrtrdtpvsdgvtnaiediq
Low Complexity Region (SEG)
MWRSPATSYLVGRTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSVDQYPERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSlkkallalekeQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEkekrsnkksksssmkgkksGRTRDTPVSDGVTNAIEDIQ
Disordered region (IsUnstruct)
********YLVGRTLNSIYKSAEKIQISNQII************************************NVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL******************************************
Disordered Region (DISOPRED)
********YLVGRTLNSIYKSAE**************************************************DKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF**********************************NA*E***
Disordered Region (DISEMBL)
********YLVGRTLNSIYKSAEKIQISNQIIGKAMSMSS************YPERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT****************************SDGVTNAIEDIQ
Disordered Region (DISPRO)
*WRSPATSYLVGRTLNSIYKSAEKIQISNQIIGKAMS**********************STRNFR**ENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEK**************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MWRSPATSYLVGRTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSVDQYPERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLxxxxxxxxxxxxxxxxxxxxxSNKKSKSSSMKGKKSGRTRDTPVSDGVTNAIEDIQ
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	287	2.2.26 [Sep-21-2011]
Q2V3H0	287	Pentatricopeptide repeat-	no	no	0.567	0.567	0.445	5e-33
Q8LG95	307	Pentatricopeptide repeat-	no	no	0.567	0.530	0.402	1e-30

>sp|Q2V3H0|PP322_ARATH Pentatricopeptide repeat-containing protein At4g18975, chloroplastic OS=Arabidopsis thaliana GN=At4g18975 PE=2 SV=2

 Score =  141 bits (356), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 73/164 (44%), Positives = 100/164 (60%), Gaps = 1/164 (0%)

Query: 79  LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSK 138
           LV  L  L N KE VYG L+ WVAWE  FP+ +  KAL  L K  QWHRV+Q+ KWMLSK
Sbjct: 101 LVRMLSGLPNEKEAVYGALNKWVAWEVEFPIIAAAKALQILRKRSQWHRVIQLAKWMLSK 160

Query: 139 GQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER 198
           GQG+TMGT   L+ A DMD RA+EA   W   +     S+P +L   MIA+Y  +++ ++
Sbjct: 161 GQGATMGTYDILLLAFDMDERADEAESLWNMILHTHTRSIPRRLFARMIALYAHHDLHDK 220

Query: 199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY 242
           +I++F  +E     P E S  +RVA A+  L   E ++ +L +Y
Sbjct: 221 VIEVFADMEELKVSPDEDS-ARRVARAFRELNQEENRKLILRRY 263

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LG95|PP332_ARATH Pentatricopeptide repeat-containing protein At4g21190 OS=Arabidopsis thaliana GN=EMB1417 PE=2 SV=1

 Score =  133 bits (335), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 66/164 (40%), Positives = 103/164 (62%), Gaps = 1/164 (0%)

Query: 79  LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSK 138
           ++  +  L N KE+VYG LD+++AWE  FP+  +KKAL+ LE E++W +++QV KWMLSK
Sbjct: 61  MIACIKGLSNVKEEVYGALDSFIAWELEFPLVIVKKALVILEDEKEWKKIIQVTKWMLSK 120

Query: 139 GQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER 198
           GQG TMGT   L+ AL  D+R +EA + W K     L   P +    MI+IYY+ +M ++
Sbjct: 121 GQGRTMGTYFSLLNALAEDNRLDEAEELWNKLFMEHLEGTPRKFFNKMISIYYKRDMHQK 180

Query: 199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY 242
           L ++F  +E    K P  +IV  V   +  L + ++ E++++KY
Sbjct: 181 LFEVFADMEELGVK-PNVAIVSMVGKVFVKLEMKDKYEKLMKKY 223

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	287
296089642	296	unnamed protein product [Vitis vinifera]	0.926	0.898	0.641	1e-94
225433730	300	PREDICTED: pentatricopeptide repeat-cont	0.926	0.886	0.641	1e-94
255570717	300	conserved hypothetical protein [Ricinus	0.919	0.88	0.633	8e-88
357481969	301	Pentatricopeptide repeat-containing prot	0.857	0.817	0.630	4e-85
449438159	302	PREDICTED: pentatricopeptide repeat-cont	0.839	0.798	0.6	1e-83
363807778	300	uncharacterized protein LOC100795658 [Gl	0.944	0.903	0.563	5e-83
224090805	262	predicted protein [Populus trichocarpa]	0.777	0.851	0.646	8e-83
255549552	317	conserved hypothetical protein [Ricinus	0.745	0.675	0.720	4e-82
224140311	269	predicted protein [Populus trichocarpa]	0.689	0.736	0.674	5e-82
18390413	381	uncharacterized protein [Arabidopsis tha	0.801	0.603	0.623	3e-79

>gi|296089642|emb|CBI39461.3| unnamed protein product [Vitis vinifera]

 Score =  352 bits (903), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 172/268 (64%), Positives = 204/268 (76%), Gaps = 2/268 (0%)

Query: 13  RTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSVDQYPERNAASTRNFRIGENVPR 72
           +TL S Y +  + Q+S+        ++ L GQ  NQ +     ++AAS    +IGENV R
Sbjct: 23  QTLASSYSTFTQTQMSD--TSNVGEVAFLGGQCNNQPMYHDSGKDAASVHKHQIGENVSR 80

Query: 73  KDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVI 132
           KDKINFLV TLLDLK+SKE VYG LDAWVAWEQNFP+ SLK+ L+ LEKEQQWHRV+QV+
Sbjct: 81  KDKINFLVTTLLDLKDSKEAVYGALDAWVAWEQNFPIASLKRVLITLEKEQQWHRVIQVV 140

Query: 133 KWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR 192
           KWMLSKGQG+TMGT GQLIRALDMDHRAEEAH+FW K+IG DLHSVPW LC  MI++YYR
Sbjct: 141 KWMLSKGQGTTMGTYGQLIRALDMDHRAEEAHEFWVKKIGTDLHSVPWHLCHRMISVYYR 200

Query: 193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKR 252
           NNMLE L+KLFKGLEAFDRKP +K +V++VADAYE+LGLLEEKER+ EKY  LFTE    
Sbjct: 201 NNMLENLVKLFKGLEAFDRKPQDKLVVKKVADAYEMLGLLEEKERIFEKYDYLFTETVAG 260

Query: 253 SNKKSKSSSMKGKKSGRTRDTPVSDGVT 280
             KKSK    + KKSGR + T   D +T
Sbjct: 261 KPKKSKKFLSEKKKSGRRKPTSTPDYLT 288

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225433730|ref|XP_002269673.1| PREDICTED: pentatricopeptide repeat-containing protein At4g18975, chloroplastic-like isoform 1 [Vitis vinifera]

 Score =  352 bits (903), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 172/268 (64%), Positives = 204/268 (76%), Gaps = 2/268 (0%)

Query: 13  RTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSVDQYPERNAASTRNFRIGENVPR 72
           +TL S Y +  + Q+S+        ++ L GQ  NQ +     ++AAS    +IGENV R
Sbjct: 27  QTLASSYSTFTQTQMSD--TSNVGEVAFLGGQCNNQPMYHDSGKDAASVHKHQIGENVSR 84

Query: 73  KDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVI 132
           KDKINFLV TLLDLK+SKE VYG LDAWVAWEQNFP+ SLK+ L+ LEKEQQWHRV+QV+
Sbjct: 85  KDKINFLVTTLLDLKDSKEAVYGALDAWVAWEQNFPIASLKRVLITLEKEQQWHRVIQVV 144

Query: 133 KWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR 192
           KWMLSKGQG+TMGT GQLIRALDMDHRAEEAH+FW K+IG DLHSVPW LC  MI++YYR
Sbjct: 145 KWMLSKGQGTTMGTYGQLIRALDMDHRAEEAHEFWVKKIGTDLHSVPWHLCHRMISVYYR 204

Query: 193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKR 252
           NNMLE L+KLFKGLEAFDRKP +K +V++VADAYE+LGLLEEKER+ EKY  LFTE    
Sbjct: 205 NNMLENLVKLFKGLEAFDRKPQDKLVVKKVADAYEMLGLLEEKERIFEKYDYLFTETVAG 264

Query: 253 SNKKSKSSSMKGKKSGRTRDTPVSDGVT 280
             KKSK    + KKSGR + T   D +T
Sbjct: 265 KPKKSKKFLSEKKKSGRRKPTSTPDYLT 292

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570717|ref|XP_002526313.1| conserved hypothetical protein [Ricinus communis] gi|223534394|gb|EEF36102.1| conserved hypothetical protein [Ricinus communis]

 Score =  329 bits (844), Expect = 8e-88,   Method: Compositional matrix adjust.
 Identities = 176/278 (63%), Positives = 211/278 (75%), Gaps = 14/278 (5%)

Query: 1   MWRSPATSYLVGRTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTN----QSVDQY--- 53
           MWRSPA S L GR L+ +     ++Q SN      M  + +  + T     +  D Y   
Sbjct: 1   MWRSPAFSSLTGR-LSQV--GVARLQCSNGRYSSTMVQAQISNRNTPSPRPEDQDDYKTT 57

Query: 54  ---PERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVG 110
                ++A   +  +IG+NV RK+KI+FL+ TLLDLK+SKE VYG LDAWVAWE NFP+ 
Sbjct: 58  CHNSNQSAGGVQKNQIGKNVSRKEKIDFLLKTLLDLKDSKEAVYGALDAWVAWEHNFPIA 117

Query: 111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKR 170
           SLK+ L+ LEKEQQWH+VVQVIKWMLSKGQG+TMGT GQLIRALDMDHRA EAH FW K+
Sbjct: 118 SLKRVLILLEKEQQWHKVVQVIKWMLSKGQGNTMGTYGQLIRALDMDHRANEAHMFWLKK 177

Query: 171 IGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLG 230
           IG+DLHSVPWQLC  MI++YYRNNMLE L+KLFKGLEAFDRKPP+KSI+Q+VADAYE+LG
Sbjct: 178 IGLDLHSVPWQLCHRMISVYYRNNMLESLVKLFKGLEAFDRKPPDKSILQKVADAYEMLG 237

Query: 231 LLEEKERVLEKYKDLFTEKEKRSNKKSKSSSMKGKKSG 268
           +LEEKERVL+KYKDLF E EK   KKS+S+  K KKSG
Sbjct: 238 MLEEKERVLQKYKDLFKETEKGRPKKSRSTLAK-KKSG 274

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357481969|ref|XP_003611270.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355512605|gb|AES94228.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  320 bits (821), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 164/260 (63%), Positives = 191/260 (73%), Gaps = 14/260 (5%)

Query: 1   MWRSPATSYLVGRTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSVDQYPERNAAS 60
           MWRSP  SYLV R       S   I   N+   + +S  S   Q  ++SV   P    AS
Sbjct: 1   MWRSPRFSYLVTRL------SQGNISNVNRCYSQILSQPSY-SQTKSESV---PSEQKAS 50

Query: 61  TR--NFRIGENVPRKDKINFLVNTLLDL--KNSKEDVYGTLDAWVAWEQNFPVGSLKKAL 116
                  IGENV RKD+  FL+ TL D+   +SKE +YG LDAWVAWEQNFP+GSL+  L
Sbjct: 51  REIPKHYIGENVSRKDRTKFLLTTLRDMDDTDSKEAIYGALDAWVAWEQNFPIGSLRNIL 110

Query: 117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH 176
           L LEKEQQWHR+VQVIKWMLSKGQG+TMGT GQLIRALDMDHR  EAHKFWE +IG DLH
Sbjct: 111 LCLEKEQQWHRIVQVIKWMLSKGQGTTMGTYGQLIRALDMDHRVGEAHKFWEMKIGTDLH 170

Query: 177 SVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKE 236
           SVPWQLC  MI++YYRNNMLE L++LFKGLEAFDRKP +K I+Q+VA+AYE+LGL+EEKE
Sbjct: 171 SVPWQLCHLMISVYYRNNMLEDLVRLFKGLEAFDRKPRDKLIIQKVANAYEMLGLIEEKE 230

Query: 237 RVLEKYKDLFTEKEKRSNKK 256
           RV+EKY  LFT KE+R  KK
Sbjct: 231 RVMEKYSHLFTIKEERPTKK 250

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438159|ref|XP_004136857.1| PREDICTED: pentatricopeptide repeat-containing protein At4g18975, chloroplastic-like [Cucumis sativus]

 Score =  315 bits (808), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 159/265 (60%), Positives = 189/265 (71%), Gaps = 24/265 (9%)

Query: 2   WRSPATSY-LVGRTLNSIYKSAEKIQISNQIIGKAMSMSSLEGQRTNQSVD--------- 51
           W +P   +  VG+T+        ++ +S   +G +   ++++ Q   Q  D         
Sbjct: 12  WATPLLRHPTVGQTM--------ELGVSRLQVGSSCYCTTIQDQMCQQLADKDRKDKDVN 63

Query: 52  ------QYPERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQ 105
                    E+N    R  +IG+N+ RKDKI+FLVNTLLDL++SKE VYG LDAWVAWEQ
Sbjct: 64  SSKALGHISEQNIGDIRKHQIGKNISRKDKIHFLVNTLLDLRDSKEAVYGALDAWVAWEQ 123

Query: 106 NFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHK 165
            FP+ SLK  L ALEKEQQWHR+VQVIKWMLSKGQG+TM   GQLIRALDMDHR EEAHK
Sbjct: 124 VFPIASLKHVLAALEKEQQWHRIVQVIKWMLSKGQGTTMNVYGQLIRALDMDHRGEEAHK 183

Query: 166 FWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADA 225
           FW  +IG DLHSVPWQ+C+SM+AIYYRN  LE L+KLFK LEAF RKPP+KSIVQRVADA
Sbjct: 184 FWVMKIGSDLHSVPWQVCRSMMAIYYRNKRLEDLVKLFKDLEAFGRKPPDKSIVQRVADA 243

Query: 226 YEVLGLLEEKERVLEKYKDLFTEKE 250
            E+LGLLEEKERVL KYK LF EKE
Sbjct: 244 CEMLGLLEEKERVLVKYKYLFDEKE 268

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807778|ref|NP_001241921.1| uncharacterized protein LOC100795658 [Glycine max] gi|255637229|gb|ACU18945.1| unknown [Glycine max]

 Score =  313 bits (803), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 172/305 (56%), Positives = 207/305 (67%), Gaps = 34/305 (11%)

Query: 1   MW--RSPATSYLVGRTLNSIYKSAEKIQ----ISNQIIGKAMSMSSLEGQRTNQSVDQYP 54
           MW  RS   SYL+ R L+ I  S  +I+      +Q+       S+L+ Q+T     Q  
Sbjct: 1   MWKLRSARISYLLCR-LSQIKVSEAQIKHHRFCHSQVSTVLPPPSNLQHQQT-----QCD 54

Query: 55  ERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKK 114
             + A  RN+ IGENV RKDK  +L  TLL+L +SKE VYG LDAWVAWEQNFP+ SLK 
Sbjct: 55  PPHTAVPRNY-IGENVSRKDKNKYLYTTLLELNDSKEAVYGALDAWVAWEQNFPIASLKT 113

Query: 115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGID 174
            L++LEK+QQWHRVVQVIKWMLSKGQG TMGT GQLIRALDMDHR EEA KFWE +IG D
Sbjct: 114 ILISLEKDQQWHRVVQVIKWMLSKGQGMTMGTYGQLIRALDMDHRVEEAQKFWEIKIGSD 173

Query: 175 LHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEE 234
           LHSVPWQLC  MI++YYRNNML+ L+KLFKGLEAFDRKP +KSI+Q+VA+AYEVLGL++E
Sbjct: 174 LHSVPWQLCHLMISVYYRNNMLQDLVKLFKGLEAFDRKPRDKSIIQKVANAYEVLGLVKE 233

Query: 235 KERVLEKYKDLFTE---------------------KEKRSNKKSKSSSMKGKKSGRTRDT 273
           K RVLEKY  LFTE                     KEKR  K+S+ +S + K     +D 
Sbjct: 234 KVRVLEKYNHLFTETGPTKRHKRNSFEAKKHVHPTKEKRHQKQSRKASSEEKYKSEQKDP 293

Query: 274 PVSDG 278
            +  G
Sbjct: 294 KLDIG 298

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224090805|ref|XP_002309089.1| predicted protein [Populus trichocarpa] gi|222855065|gb|EEE92612.1| predicted protein [Populus trichocarpa]

 Score =  313 bits (801), Expect = 8e-83,   Method: Compositional matrix adjust.
 Identities = 157/243 (64%), Positives = 182/243 (74%), Gaps = 20/243 (8%)

Query: 50  VDQYPERNAASTRNFR---IGENVPRKDKINFLVNTL----------------LDLKNSK 90
           + Q    +  S +N R   IG+NV +KDKI FL+ TL                LDL +SK
Sbjct: 20  LSQAVYHDGKSEQNLRRNQIGDNVSKKDKIKFLITTLVLYQLLYDKTILHMQLLDLNDSK 79

Query: 91  EDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQL 150
           + VYG LDAWVAWEQ FP+ S+K+ L+ALEKEQQWHR+VQVIKWMLSKGQG+TM T  QL
Sbjct: 80  DAVYGALDAWVAWEQKFPIASIKQVLIALEKEQQWHRIVQVIKWMLSKGQGTTMATYAQL 139

Query: 151 IRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFD 210
           IRALDMDHRA+EAH+FW K+IG DLHSVPW+LC SMI IYYRNNMLE LIKLFKGLEAFD
Sbjct: 140 IRALDMDHRAKEAHEFWLKKIGRDLHSVPWKLCNSMITIYYRNNMLENLIKLFKGLEAFD 199

Query: 211 RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRSNKKSK-SSSMKGKKSGR 269
           RKPPEKSIVQ+VADAYE+LGLLEEK R+LEKY  LF E  K  NK  +  SS K  KSG+
Sbjct: 200 RKPPEKSIVQKVADAYEMLGLLEEKGRLLEKYNHLFIETGKGWNKNFRVVSSKKNNKSGK 259

Query: 270 TRD 272
            ++
Sbjct: 260 AKN 262

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549552|ref|XP_002515828.1| conserved hypothetical protein [Ricinus communis] gi|223545057|gb|EEF46570.1| conserved hypothetical protein [Ricinus communis]

 Score =  310 bits (795), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 155/215 (72%), Positives = 184/215 (85%), Gaps = 1/215 (0%)

Query: 56  RNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKA 115
           ++A   +  +IG+NV RK+KI+FL+ TLLDLK+SKE VYG +DAWVAWE NFP+ SLK+ 
Sbjct: 31  QSAGGVQKNQIGKNVSRKEKIDFLLKTLLDLKDSKEAVYGAVDAWVAWEHNFPIASLKRV 90

Query: 116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDL 175
           L+ LEKEQQWHRVVQVIKW++SKGQG+TMGT GQLIRALDMDHRA EAH FW K+IG+DL
Sbjct: 91  LILLEKEQQWHRVVQVIKWIISKGQGNTMGTYGQLIRALDMDHRANEAHMFWLKKIGLDL 150

Query: 176 HSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEK 235
           HSVPWQLC  MI++YYRNNMLE L+KL KGLEAFD KPP+KSIVQ+VADAYE+LG+LEEK
Sbjct: 151 HSVPWQLCHRMISVYYRNNMLESLVKLSKGLEAFDHKPPDKSIVQKVADAYEMLGMLEEK 210

Query: 236 ERVLEKYKDLFTEKEKRSNKKSKSSSMKGKKSGRT 270
           ERVL+KYKDLF E EK   KKS+S+  K KKS R+
Sbjct: 211 ERVLQKYKDLFKETEKGRPKKSRSTLAK-KKSARS 244

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224140311|ref|XP_002323526.1| predicted protein [Populus trichocarpa] gi|222868156|gb|EEF05287.1| predicted protein [Populus trichocarpa]

 Score =  310 bits (794), Expect = 5e-82,   Method: Compositional matrix adjust.
 Identities = 151/224 (67%), Positives = 172/224 (76%), Gaps = 26/224 (11%)

Query: 52  QYPERNAASTRNFRIGENVPRKDKINFLVNT-------------------LLDLKNSKED 92
           Q P RN       +IG+NV +KDKI FL+ T                   LLDL +SK+ 
Sbjct: 13  QNPRRN-------QIGDNVSKKDKIKFLITTVSTQNPNYQSLFICMVVFTLLDLNDSKDS 65

Query: 93  VYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIR 152
           VYG LDAWVAWEQ FP+ S+K+ L+ALEKEQQWHR+VQVIKWMLSKGQG+TMGT  Q IR
Sbjct: 66  VYGALDAWVAWEQKFPIASIKQVLIALEKEQQWHRIVQVIKWMLSKGQGTTMGTYAQFIR 125

Query: 153 ALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRK 212
           ALDMDHRA+EAH+FW K+IG DLHSVPWQLC  MI+IYYRNNMLE LIKLFKGLEAFDR+
Sbjct: 126 ALDMDHRAKEAHEFWLKKIGRDLHSVPWQLCNRMISIYYRNNMLENLIKLFKGLEAFDRQ 185

Query: 213 PPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRSNKK 256
           PPEKSIVQ+VAD+YE+LGLLEEKERVLEKY  +F E  K  NKK
Sbjct: 186 PPEKSIVQKVADSYEMLGLLEEKERVLEKYNHIFVEAGKGQNKK 229

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18390413|ref|NP_563712.1| uncharacterized protein [Arabidopsis thaliana] gi|13430646|gb|AAK25945.1|AF360235_1 unknown protein [Arabidopsis thaliana] gi|14532820|gb|AAK64092.1| unknown protein [Arabidopsis thaliana] gi|332189597|gb|AEE27718.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  301 bits (770), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 144/231 (62%), Positives = 176/231 (76%), Gaps = 1/231 (0%)

Query: 57  NAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKAL 116
           NA + R  +IGEN+P+KDKI FLVNTLLD++++KE VYG LDAWVAWE+NFP+ SLK  +
Sbjct: 127 NAENPRKHQIGENIPKKDKIKFLVNTLLDIEDNKEAVYGALDAWVAWERNFPIASLKIVI 186

Query: 117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH 176
            +LEKE QWHR+VQVIKW+LSKGQG+TMGT GQLIRALDMD RAEEAH  W K++G DLH
Sbjct: 187 ASLEKEHQWHRMVQVIKWILSKGQGNTMGTYGQLIRALDMDRRAEEAHVIWRKKVGNDLH 246

Query: 177 SVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKE 236
           SVPWQLC  M+ IY+RNNML+ L+KLFK LE++DRKPP+K IVQ VADAYE+LG+L+EKE
Sbjct: 247 SVPWQLCLQMMRIYFRNNMLQELVKLFKDLESYDRKPPDKHIVQTVADAYELLGMLDEKE 306

Query: 237 RVLEKYKDLFTEKEKRSNKKSKSSSMKGKKSGRTRDTPVSDGVTNAIEDIQ 287
           RV+ KY  L        +K S+SS  K K   R  +      V  A  +IQ
Sbjct: 307 RVVTKYSHLLL-GTPSDDKPSRSSRKKKKPELRIPEATTEGAVDAAKAEIQ 356

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	287
TAIR|locus:2197783	384	AT1G04590 "AT1G04590" [Arabido	0.679	0.507	0.646	5.6e-68
TAIR|locus:505006498	287	AT4G18975 "AT4G18975" [Arabido	0.567	0.567	0.414	3e-30
TAIR|locus:2127388	307	emb1417 "AT4G21190" [Arabidops	0.634	0.592	0.338	1.2e-26

TAIR|locus:2197783 AT1G04590 "AT1G04590" [Arabidopsis thaliana (taxid:3702)]

 Score = 690 (248.0 bits), Expect = 5.6e-68, P = 5.6e-68
 Identities = 128/198 (64%), Positives = 155/198 (78%)

Query:    51 DQYPERNAASTRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVG 110
             D   + NA + R  +IGEN+P+KDKI FLVNTLLD++++KE VYG LDAWVAWE+NFP+ 
Sbjct:   121 DSSKKGNAENPRKHQIGENIPKKDKIKFLVNTLLDIEDNKEAVYGALDAWVAWERNFPIA 180

Query:   111 SXXXXXXXXXXXQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKR 170
             S            QWHR+VQVIKW+LSKGQG+TMGT GQLIRALDMD RAEEAH  W K+
Sbjct:   181 SLKIVIASLEKEHQWHRMVQVIKWILSKGQGNTMGTYGQLIRALDMDRRAEEAHVIWRKK 240

Query:   171 IGIDLHSVPWQLCKSMIAIYYRNNMLERLIK---LFKGLEAFDRKPPEKSIVQRVADAYE 227
             +G DLHSVPWQLC  M+ IY+RNNML+ L+K   LFK LE++DRKPP+K IVQ VADAYE
Sbjct:   241 VGNDLHSVPWQLCLQMMRIYFRNNMLQELVKVMKLFKDLESYDRKPPDKHIVQTVADAYE 300

Query:   228 VLGLLEEKERVLEKYKDL 245
             +LG+L+EKERV+ KY  L
Sbjct:   301 LLGMLDEKERVVTKYSHL 318

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0006396 "RNA processing" evidence=RCA

TAIR|locus:505006498 AT4G18975 "AT4G18975" [Arabidopsis thaliana (taxid:3702)]

 Score = 334 (122.6 bits), Expect = 3.0e-30, P = 3.0e-30
 Identities = 68/164 (41%), Positives = 95/164 (57%)

Query:    79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSXXXXXXXXXXXQQWHRVVQVIKWMLSK 138
             LV  L  L N KE VYG L+ WVAWE  FP+ +            QWHRV+Q+ KWMLSK
Sbjct:   101 LVRMLSGLPNEKEAVYGALNKWVAWEVEFPIIAAAKALQILRKRSQWHRVIQLAKWMLSK 160

Query:   139 GQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER 198
             GQG+TMGT   L+ A DMD RA+EA   W   +     S+P +L   MIA+Y  +++ ++
Sbjct:   161 GQGATMGTYDILLLAFDMDERADEAESLWNMILHTHTRSIPRRLFARMIALYAHHDLHDK 220

Query:   199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY 242
             +I++F  +E     P E S  +RVA A+  L   E ++ +L +Y
Sbjct:   221 VIEVFADMEELKVSPDEDS-ARRVARAFRELNQEENRKLILRRY 263

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2127388 emb1417 "AT4G21190" [Arabidopsis thaliana (taxid:3702)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 62/183 (33%), Positives = 101/183 (55%)

Query:    60 STRNFRIGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSXXXXXXXX 119
             S R ++  + +    K   ++  +  L N KE+VYG LD+++AWE  FP+          
Sbjct:    42 SPRVWKTRKRIGTISKAAKMIACIKGLSNVKEEVYGALDSFIAWELEFPLVIVKKALVIL 101

Query:   120 XXXQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP 179
                ++W +++QV KWMLSKGQG TMGT   L+ AL  D+R +EA + W K     L   P
Sbjct:   102 EDEKEWKKIIQVTKWMLSKGQGRTMGTYFSLLNALAEDNRLDEAEELWNKLFMEHLEGTP 161

Query:   180 WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVL 239
              +    MI+IYY+ +M ++L ++F  +E    KP   +IV  V   +  L + ++ E+++
Sbjct:   162 RKFFNKMISIYYKRDMHQKLFEVFADMEELGVKP-NVAIVSMVGKVFVKLEMKDKYEKLM 220

Query:   240 EKY 242
             +KY
Sbjct:   221 KKY 223


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        0.317   0.133   0.393    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      287       257   0.00086  114 3  11 22  0.47    33
                                                     32  0.48    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:  3
  No. of states in DFA:  613 (65 KB)
  Total size of DFA:  206 KB (2114 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:  21.91u 0.22s 22.13t   Elapsed:  00:00:01
  Total cpu time:  21.91u 0.22s 22.13t   Elapsed:  00:00:01
  Start:  Fri May 10 20:33:36 2013   End:  Fri May 10 20:33:37 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

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

---

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: GSVIVG00033577001 SubName- Full=Chromosome chr5 scaffold_67, whole genome shotgun sequence; (279 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	287
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.93
PLN03218	1060	maturation of RBCL 1; Provisional	99.91
PLN03218	1060	maturation of RBCL 1; Provisional	99.91
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.9
PLN03077	857	Protein ECB2; Provisional	99.89
PLN03077	857	Protein ECB2; Provisional	99.87
PF13041	50	PPR_2: PPR repeat family	99.55
PF13041	50	PPR_2: PPR repeat family	99.49
PF12854	34	PPR_1: PPR repeat	99.22
PF12854	34	PPR_1: PPR repeat	98.88
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.83
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.8
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.58
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.56
KOG4422	625	consensus Uncharacterized conserved protein [Funct	98.53
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.47
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.44
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.4
KOG4422	625	consensus Uncharacterized conserved protein [Funct	98.31
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.27
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.14
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.13
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.05
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.82
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.81
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.79
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	97.77
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.73
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	97.67
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.64
PRK12370	553	invasion protein regulator; Provisional	97.63
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	97.61
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.59
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	97.56
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.44
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	97.36
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.33
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.33
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.21
PRK15359	144	type III secretion system chaperone protein SscB;	97.2
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.18
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.12
PRK14574	822	hmsH outer membrane protein; Provisional	97.02
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.02
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.01
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	96.91
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	96.89
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	96.88
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.87
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	96.86
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	96.86
PRK12370	553	invasion protein regulator; Provisional	96.82
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	96.79
PRK11189	296	lipoprotein NlpI; Provisional	96.78
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.71
TIGR02552	135	LcrH_SycD type III secretion low calcium response	96.59
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.57
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	96.53
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.5
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	96.48
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	96.48
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	96.47
PRK15359	144	type III secretion system chaperone protein SscB;	96.46
PRK14574	822	hmsH outer membrane protein; Provisional	96.28
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	96.27
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	96.25
PRK11189	296	lipoprotein NlpI; Provisional	96.09
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.08
KOG3941	406	consensus Intermediate in Toll signal transduction	96.05
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.01
KOG2076	895	consensus RNA polymerase III transcription factor	95.99
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	95.89
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	95.89
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	95.83
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	95.76
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	95.75
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.74
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	95.73
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	95.69
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	95.64
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	95.62
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.58
COG4783	484	Putative Zn-dependent protease, contains TPR repea	95.55
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	95.53
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	95.48
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.47
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.45
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	95.44
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	95.41
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	95.37
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	95.23
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.23
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	95.23
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.21
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.18
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	95.14
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.1
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	94.9
KOG3616	1636	consensus Selective LIM binding factor [Transcript	94.69
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.67
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	94.66
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	94.56
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	94.48
KOG1126	638	consensus DNA-binding cell division cycle control	94.43
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	94.35
PRK10370	198	formate-dependent nitrite reductase complex subuni	94.12
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	94.06
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	93.76
PRK10803	263	tol-pal system protein YbgF; Provisional	93.28
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	92.98
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	92.9
PF13371	73	TPR_9: Tetratricopeptide repeat	92.89
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	92.89
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	92.72
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	92.67
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	92.49
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	92.42
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.34
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.26
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	92.25
PF12688	120	TPR_5: Tetratrico peptide repeat	92.18
PRK10803	263	tol-pal system protein YbgF; Provisional	92.11
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.84
PF12688	120	TPR_5: Tetratrico peptide repeat	91.58
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	91.25
KOG1126	638	consensus DNA-binding cell division cycle control	91.18
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	91.16
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	91.14
KOG1129	478	consensus TPR repeat-containing protein [General f	91.12
PF03704	146	BTAD: Bacterial transcriptional activator domain;	90.96
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.96
PF13371	73	TPR_9: Tetratricopeptide repeat	90.88
KOG2376	652	consensus Signal recognition particle, subunit Srp	90.67
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	90.61
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.52
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	90.49
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	90.22
KOG3785	557	consensus Uncharacterized conserved protein [Funct	89.97
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	89.95
PRK14720	906	transcript cleavage factor/unknown domain fusion p	89.64
PRK14720	906	transcript cleavage factor/unknown domain fusion p	88.61
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.5
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	88.38
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	88.29
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	87.92
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	87.29
KOG2076	895	consensus RNA polymerase III transcription factor	87.25
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	87.24
KOG2003	840	consensus TPR repeat-containing protein [General f	87.1
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	86.72
KOG0547	606	consensus Translocase of outer mitochondrial membr	86.45
KOG3060	289	consensus Uncharacterized conserved protein [Funct	86.38
KOG3616	1636	consensus Selective LIM binding factor [Transcript	86.03
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	85.58
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	85.34
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	85.23
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	85.17
KOG0495	913	consensus HAT repeat protein [RNA processing and m	84.96
PRK04841	903	transcriptional regulator MalT; Provisional	84.91
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	84.74
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	84.66
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	84.46
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	84.39
smart00299	140	CLH Clathrin heavy chain repeat homology.	83.91
COG4783	484	Putative Zn-dependent protease, contains TPR repea	82.1
KOG0553	304	consensus TPR repeat-containing protein [General f	82.08
PRK15331	165	chaperone protein SicA; Provisional	82.07
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	80.71
PRK04841	903	transcriptional regulator MalT; Provisional	80.62
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	80.58
PLN02789	320	farnesyltranstransferase	80.29
KOG1128	777	consensus Uncharacterized conserved protein, conta	80.27
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	80.16

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

Probab=99.93  E-value=5.6e-25  Score=225.61  Aligned_cols=173  Identities=12%  Similarity=0.066  Sum_probs=145.1

Q ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH
Q 047178           77 NFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM  156 (287)
Q Consensus        77 ~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K  156 (287)
                      +.|+..+++.|+.+++ ...+..+...+..+...++..++..+++.|.+++|.++|..|.+.|+.||..+||+||++|||
T Consensus       294 n~li~~y~~~g~~~eA-~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k  372 (697)
T PLN03081        294 NSMLAGYALHGYSEEA-LCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK  372 (697)
T ss_pred             HHHHHHHHhCCCHHHH-HHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHH
Confidence            3466666666665443 233444444555667788888999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHH
Q 047178          157 DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKE  236 (287)
Q Consensus       157 ~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~  236 (287)
                      +|++++|.++|++|.++++     ++||+||.+|+++|+.++|+++|++|.+.|+.||. +||++||++|++.|.+++|.
T Consensus       373 ~G~~~~A~~vf~~m~~~d~-----~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~-~T~~~ll~a~~~~g~~~~a~  446 (697)
T PLN03081        373 WGRMEDARNVFDRMPRKNL-----ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH-VTFLAVLSACRYSGLSEQGW  446 (697)
T ss_pred             CCCHHHHHHHHHhCCCCCe-----eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCH-HHHHHHHHHHhcCCcHHHHH
Confidence            9999999999999987553     57999999999999999999999999999999995 99999999999999999999


Q ss_pred             HHHHHHhH-------------HHhhhhcccccc
Q 047178          237 RVLEKYKD-------------LFTEKEKRSNKK  256 (287)
Q Consensus       237 ~ll~~m~~-------------l~~~~~~~~~~~  256 (287)
                      ++|++|..             +++.|++.++..
T Consensus       447 ~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~  479 (697)
T PLN03081        447 EIFQSMSENHRIKPRAMHYACMIELLGREGLLD  479 (697)
T ss_pred             HHHHHHHHhcCCCCCccchHhHHHHHHhcCCHH
Confidence            99998754             566777665543

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.91  E-value=1.6e-23  Score=223.79  Aligned_cols=165  Identities=11%  Similarity=0.047  Sum_probs=137.4

Q ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH
Q 047178           77 NFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM  156 (287)
Q Consensus        77 ~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K  156 (287)
                      +.||+.+++.|+.+++ ...++.+...+..++..+++.++..+++.|++++|.++|+.|.+.|+.||..|||+||++||+
T Consensus       618 nsLI~ay~k~G~~deA-l~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k  696 (1060)
T PLN03218        618 TIAVNSCSQKGDWDFA-LSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSN  696 (1060)
T ss_pred             HHHHHHHHhcCCHHHH-HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            4567777777665443 233444445555667788888899999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHH
Q 047178          157 DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKE  236 (287)
Q Consensus       157 ~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~  236 (287)
                      +|++++|.++|++|...++. ++.++||+||++||+.|++++|+++|++|...|+.||. +||++||++|++.|++++|.
T Consensus       697 ~G~~eeA~~lf~eM~~~g~~-PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~-~Ty~sLL~a~~k~G~le~A~  774 (1060)
T PLN03218        697 AKNWKKALELYEDIKSIKLR-PTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT-ITYSILLVASERKDDADVGL  774 (1060)
T ss_pred             CCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999888874 56688999999999999999999999999999999994 89999999999999999999


Q ss_pred             HHHHHHhH
Q 047178          237 RVLEKYKD  244 (287)
Q Consensus       237 ~ll~~m~~  244 (287)
                      ++|++|..
T Consensus       775 ~l~~~M~k  782 (1060)
T PLN03218        775 DLLSQAKE  782 (1060)
T ss_pred             HHHHHHHH
Confidence            99987654

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.91  E-value=2.1e-23  Score=222.96  Aligned_cols=162  Identities=9%  Similarity=0.062  Sum_probs=83.4

Q ss_pred             HHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc
Q 047178           78 FLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD  157 (287)
Q Consensus        78 ~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~  157 (287)
                      .||+.+++.|+.+.+ ...++.+...+......+++.+|.+|++.|++++|.++|+.|.+.|+.||.+|||+||++||+.
T Consensus       477 sLI~~y~k~G~vd~A-~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~  555 (1060)
T PLN03218        477 TLISTCAKSGKVDAM-FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQS  555 (1060)
T ss_pred             HHHHHHHhCcCHHHH-HHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence            355555555544322 2223333333333445555555555555555555555555555555555555555555555555


Q ss_pred             CCHHHHHHHHHHhhh--CCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHH
Q 047178          158 HRAEEAHKFWEKRIG--IDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEK  235 (287)
Q Consensus       158 G~leeA~~lF~eM~~--~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA  235 (287)
                      |++++|.++|++|..  .++. ++.++||+||++||+.|++++|.++|++|.+.|+.|| .++|+++|++|++.|++++|
T Consensus       556 G~~deA~~lf~eM~~~~~gi~-PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~-~~tynsLI~ay~k~G~~deA  633 (1060)
T PLN03218        556 GAVDRAFDVLAEMKAETHPID-PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGT-PEVYTIAVNSCSQKGDWDFA  633 (1060)
T ss_pred             CCHHHHHHHHHHHHHhcCCCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC-hHHHHHHHHHHHhcCCHHHH
Confidence            555555555555543  2332 2334555555555555555555555555555555555 25555555555555555555


Q ss_pred             HHHHHHH
Q 047178          236 ERVLEKY  242 (287)
Q Consensus       236 ~~ll~~m  242 (287)
                      ..+|++|
T Consensus       634 l~lf~eM  640 (1060)
T PLN03218        634 LSIYDDM  640 (1060)
T ss_pred             HHHHHHH
Confidence            5555443

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

Probab=99.90  E-value=1.1e-22  Score=208.77  Aligned_cols=167  Identities=13%  Similarity=0.089  Sum_probs=137.7

Q ss_pred             HHHHHHHHHccCCCcch--HHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCC------------
Q 047178           76 INFLVNTLLDLKNSKED--VYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQG------------  141 (287)
Q Consensus        76 ~~~Li~~l~~lg~~~~~--v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~------------  141 (287)
                      .+.|++.+++.|+.+.+  +|..|.       .....+++.++.+|++.|++++|+++|++|.+.|..            
T Consensus       161 ~n~Li~~y~k~g~~~~A~~lf~~m~-------~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a  233 (697)
T PLN03081        161 MNRVLLMHVKCGMLIDARRLFDEMP-------ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRA  233 (697)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHhcCC-------CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHH
Confidence            46688888888876544  333332       135677888888888888888888888888766554            


Q ss_pred             -----------------------CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          142 -----------------------STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       142 -----------------------pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                                             ||..+||+||++|+|+|++++|.++|++|..++     .++||+||++|+++|++++
T Consensus       234 ~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~-----~vt~n~li~~y~~~g~~~e  308 (697)
T PLN03081        234 SAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKT-----TVAWNSMLAGYALHGYSEE  308 (697)
T ss_pred             HhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCC-----hhHHHHHHHHHHhCCCHHH
Confidence                                   455677899999999999999999999997654     3579999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH------------hHHHhhhhccccc
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY------------KDLFTEKEKRSNK  255 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m------------~~l~~~~~~~~~~  255 (287)
                      |+++|++|.+.|+.||. +||+++|++|++.|.+++|+++|++|            +.+++.|+|.++.
T Consensus       309 A~~lf~~M~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~  376 (697)
T PLN03081        309 ALCLYYEMRDSGVSIDQ-FTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRM  376 (697)
T ss_pred             HHHHHHHHHHcCCCCCH-HHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCH
Confidence            99999999999999995 99999999999999999999999865            4567788876654

>PLN03077 Protein ECB2; Provisional

Probab=99.89  E-value=4.8e-22  Score=208.11  Aligned_cols=170  Identities=15%  Similarity=0.135  Sum_probs=135.2

Q ss_pred             HHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC
Q 047178           79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH  158 (287)
Q Consensus        79 Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G  158 (287)
                      |+..+++.|...++ ...+.++...+..++..++..++.++++.++++.|.+++..|.+.|+.||..+||+||++|+++|
T Consensus       259 li~~~~~~g~~~eA-l~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g  337 (857)
T PLN03077        259 MISGYFENGECLEG-LELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG  337 (857)
T ss_pred             HHHHHHhCCCHHHH-HHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcC
Confidence            44444444444332 12333333444455667777777777777777777777888888888888999999999999999


Q ss_pred             CHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHH
Q 047178          159 RAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERV  238 (287)
Q Consensus       159 ~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~l  238 (287)
                      ++++|.++|++|..++.     ++||+||++|++.|++++|+++|++|.+.|+.||. +||+++|.+|++.|++++|.++
T Consensus       338 ~~~~A~~vf~~m~~~d~-----~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~-~t~~~ll~a~~~~g~~~~a~~l  411 (857)
T PLN03077        338 SWGEAEKVFSRMETKDA-----VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE-ITIASVLSACACLGDLDVGVKL  411 (857)
T ss_pred             CHHHHHHHHhhCCCCCe-----eeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCc-eeHHHHHHHHhccchHHHHHHH
Confidence            99999999999976543     57999999999999999999999999999999995 9999999999999999999999


Q ss_pred             HHHH------------hHHHhhhhccccc
Q 047178          239 LEKY------------KDLFTEKEKRSNK  255 (287)
Q Consensus       239 l~~m------------~~l~~~~~~~~~~  255 (287)
                      |+.|            +.+++.|+|.++.
T Consensus       412 ~~~~~~~g~~~~~~~~n~Li~~y~k~g~~  440 (857)
T PLN03077        412 HELAERKGLISYVVVANALIEMYSKCKCI  440 (857)
T ss_pred             HHHHHHhCCCcchHHHHHHHHHHHHcCCH
Confidence            9865            4566777776654

>PLN03077 Protein ECB2; Provisional

Probab=99.87  E-value=2e-21  Score=203.52  Aligned_cols=169  Identities=14%  Similarity=0.091  Sum_probs=125.8

Q ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCC-------------
Q 047178           77 NFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGST-------------  143 (287)
Q Consensus        77 ~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd-------------  143 (287)
                      +.|++.+++.|+...+ +..++.+.    ..+..+++.++.+|++.|++++|+++|++|...|+.||             
T Consensus       125 n~li~~~~~~g~~~~A-~~~f~~m~----~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~  199 (857)
T PLN03077        125 NAMLSMFVRFGELVHA-WYVFGKMP----ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGG  199 (857)
T ss_pred             HHHHHHHHhCCChHHH-HHHHhcCC----CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCC
Confidence            5577777777765433 12222221    12455666677777777777777777777666666555             


Q ss_pred             ----------------------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHH
Q 047178          144 ----------------------MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIK  201 (287)
Q Consensus       144 ----------------------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~  201 (287)
                                            +.+||+||++|+++|++++|.++|++|..++.     ++||+||.+|++.|++++|++
T Consensus       200 ~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~-----~s~n~li~~~~~~g~~~eAl~  274 (857)
T PLN03077        200 IPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDC-----ISWNAMISGYFENGECLEGLE  274 (857)
T ss_pred             ccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCc-----chhHHHHHHHHhCCCHHHHHH
Confidence                                  45568889999999999999999999986543     579999999999999999999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH------------hHHHhhhhcccccc
Q 047178          202 LFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY------------KDLFTEKEKRSNKK  256 (287)
Q Consensus       202 Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m------------~~l~~~~~~~~~~~  256 (287)
                      +|.+|.+.|+.||. +||+++|.+|++.|+++.|+++|..|            +.++..|++.+++.
T Consensus       275 lf~~M~~~g~~Pd~-~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~  340 (857)
T PLN03077        275 LFFTMRELSVDPDL-MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWG  340 (857)
T ss_pred             HHHHHHHcCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHH
Confidence            99999999999994 88999988888888888888887753            45566666655543

>PF13041 PPR_2: PPR repeat family

Probab=99.55  E-value=1.1e-14  Score=101.04  Aligned_cols=49  Identities=18%  Similarity=0.234  Sum_probs=43.2

Q ss_pred             ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh
Q 047178          179 PWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV  228 (287)
Q Consensus       179 ~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k  228 (287)
                      +.++||+||++||+.|++++|+++|++|.+.|+.||. .||++||++||+
T Consensus         2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~-~Ty~~li~~~~k   50 (50)
T PF13041_consen    2 DVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDS-YTYNILINGLCK   50 (50)
T ss_pred             chHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHcC
Confidence            4568999999999999999999999999999999994 899999999885

>PF13041 PPR_2: PPR repeat family

Probab=99.49  E-value=4.8e-14  Score=97.85  Aligned_cols=50  Identities=16%  Similarity=0.086  Sum_probs=47.4

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          142 STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      ||++|||+||++||+.|++++|.++|++|.+.|+. |+.+|||+||+||||
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~-P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIK-PDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999985 677999999999986

>PF12854 PPR_1: PPR repeat

Probab=99.22  E-value=1.2e-11  Score=79.88  Aligned_cols=34  Identities=21%  Similarity=0.290  Sum_probs=31.8

Q ss_pred             CCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhh
Q 047178          138 KGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRI  171 (287)
Q Consensus       138 ~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~  171 (287)
                      +|+.||++|||+||++|||.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            5899999999999999999999999999999984

>PF12854 PPR_1: PPR repeat

Probab=98.88  E-value=2.6e-09  Score=68.99  Aligned_cols=32  Identities=16%  Similarity=0.276  Sum_probs=19.5

Q ss_pred             CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          210 DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       210 Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      |+.|| ++|||+||++||+.|++++|.++|++|
T Consensus         2 G~~Pd-~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPD-VVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCc-HhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55666 366666666666666666666666655

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.87  E-value=3.4e-09  Score=66.38  Aligned_cols=33  Identities=18%  Similarity=0.281  Sum_probs=31.8

Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCC
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPP  214 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD  214 (287)
                      +||+||++|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            699999999999999999999999999999998

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.83  E-value=3.4e-07  Score=86.46  Aligned_cols=122  Identities=10%  Similarity=-0.034  Sum_probs=65.8

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      +.+.+++++|..+++.+.+.. ..+..++..|...|++.|+.++|.++|+++...+-. ....+|+.++.+|++.|++++
T Consensus       190 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~l~~~~~~~g~~~~  267 (389)
T PRK11788        190 ALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPE-YLSEVLPKLMECYQALGDEAE  267 (389)
T ss_pred             HHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChh-hHHHHHHHHHHHHHHcCCHHH
Confidence            344555555555555555432 122334555556666666666666666666543210 011245566666666666666


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |..+|+++.+.  .||. ..+..+...+.+.|++++|..+++++...
T Consensus       268 A~~~l~~~~~~--~p~~-~~~~~la~~~~~~g~~~~A~~~l~~~l~~  311 (389)
T PRK11788        268 GLEFLRRALEE--YPGA-DLLLALAQLLEEQEGPEAAQALLREQLRR  311 (389)
T ss_pred             HHHHHHHHHHh--CCCc-hHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            66666666554  3443 33455666666666666666666655443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.80  E-value=3.6e-07  Score=86.33  Aligned_cols=130  Identities=9%  Similarity=-0.017  Sum_probs=106.8

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+..+...+.+.|++++|.++++.+.+.+-.....+++.|..+|++.|+.++|..+|+++...+   ++...++.+...|
T Consensus       216 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~---p~~~~~~~la~~~  292 (389)
T PRK11788        216 ASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY---PGADLLLALAQLL  292 (389)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCchHHHHHHHHH
Confidence            3445667788999999999999999875433334678999999999999999999999998754   2223468899999


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh---cCCHHHHHHHHHHHhHHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV---LGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k---~G~leeA~~ll~~m~~l~  246 (287)
                      .+.|++++|..+|.++.+.  .||. .+++.++..++.   .|+.+++..++++|....
T Consensus       293 ~~~g~~~~A~~~l~~~l~~--~P~~-~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~  348 (389)
T PRK11788        293 EEQEGPEAAQALLREQLRR--HPSL-RGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQ  348 (389)
T ss_pred             HHhCCHHHHHHHHHHHHHh--CcCH-HHHHHHHHHhhhccCCccchhHHHHHHHHHHHH
Confidence            9999999999999998876  6995 789999988775   558999999998877644

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

Probab=98.58  E-value=5.6e-08  Score=59.72  Aligned_cols=30  Identities=17%  Similarity=0.299  Sum_probs=22.9

Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHHCCC
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEAFDR  211 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi  211 (287)
                      +||+||++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            577777777777777777777777777765

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.

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

Probab=98.56  E-value=7.5e-06  Score=83.00  Aligned_cols=127  Identities=11%  Similarity=0.053  Sum_probs=94.5

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+..+...+.+.|++++|.+.|+.+.+.. ..+..+|+.+...|.+.|+ ++|..++++......  .+..++..+...|
T Consensus       772 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~--~~~~~~~~~~~~~  847 (899)
T TIGR02917       772 LRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAP--NIPAILDTLGWLL  847 (899)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCC--CCcHHHHHHHHHH
Confidence            33444555667788888888888877653 3466778888888888888 778888887765432  1224577788888


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      .+.|++++|.+.|+++.+.+.. | ..++..+..++++.|+.++|.+++++|.
T Consensus       848 ~~~g~~~~A~~~~~~a~~~~~~-~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       848 VEKGEADRALPLLRKAVNIAPE-A-AAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHcCCHHHHHHHHHHHHhhCCC-C-hHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            8899999999999998887653 5 3678888889999999999999888774

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=98.53  E-value=1.3e-06  Score=85.70  Aligned_cols=138  Identities=10%  Similarity=0.050  Sum_probs=97.6

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      -++..+|+++||.-+.++|.+++++-.......+..+||.||.+-.-.-    ..++..+|....+. |+..|+|+++++
T Consensus       208 et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~-Pnl~TfNalL~c  282 (625)
T KOG4422|consen  208 ETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMT-PNLFTFNALLSC  282 (625)
T ss_pred             hhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcC-CchHhHHHHHHH
Confidence            4667888888888888888888888776666677888888877643221    16777888776653 456788888888


Q ss_pred             HHHcCCHhHH----HHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhhcccccc
Q 047178          190 YYRNNMLERL----IKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRSNKK  256 (287)
Q Consensus       190 Y~k~G~~eeA----~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~~~~~~~  256 (287)
                      ..+.|+++.|    ++++.||.+-|+.|. ..+|--+|.-+++.++-.+.  .-.-.+++.+..+. |.++
T Consensus       283 ~akfg~F~~ar~aalqil~EmKeiGVePs-LsSyh~iik~f~re~dp~k~--as~~i~dI~N~ltG-K~fk  349 (625)
T KOG4422|consen  283 AAKFGKFEDARKAALQILGEMKEIGVEPS-LSSYHLIIKNFKRESDPQKV--ASSWINDIQNSLTG-KTFK  349 (625)
T ss_pred             HHHhcchHHHHHHHHHHHHHHHHhCCCcc-hhhHHHHHHHhcccCCchhh--hHHHHHHHHHhhcc-Cccc
Confidence            8888887754    567788888888887 58888888888888765441  22234555555543 4443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.47  E-value=2.6e-07  Score=58.02  Aligned_cols=33  Identities=12%  Similarity=0.269  Sum_probs=28.3

Q ss_pred             hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCC
Q 047178          181 QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKP  213 (287)
Q Consensus       181 ~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~P  213 (287)
                      .+||+||.+|++.|+++.|.++|++|.+.|++|
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            368888888888888888888888888888887

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

Probab=98.44  E-value=2.3e-05  Score=79.49  Aligned_cols=126  Identities=11%  Similarity=-0.045  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      +..+...+...|++++|++.+..+.+.. ..+...+..+...|.+.|+.++|..+|+++...+-  ....+|+.++..|+
T Consensus       604 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~~~  680 (899)
T TIGR02917       604 WLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKP--DNTEAQIGLAQLLL  680 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHH
Confidence            3334444445555555555555554432 12333444555555555555555555555443321  11234455555555


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      ..|++++|..+++.|.+.+.  +....+..+...|...|++++|...+.++
T Consensus       681 ~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  729 (899)
T TIGR02917       681 AAKRTESAKKIAKSLQKQHP--KAALGFELEGDLYLRQKDYPAAIQAYRKA  729 (899)
T ss_pred             HcCCHHHHHHHHHHHHhhCc--CChHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            55555555555555544431  11233444445555555555555555443

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.

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

Probab=98.40  E-value=3e-07  Score=56.42  Aligned_cols=31  Identities=19%  Similarity=0.109  Sum_probs=29.0

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCC
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDL  175 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~  175 (287)
                      +|||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            5899999999999999999999999998774

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.31  E-value=2.4e-05  Score=76.96  Aligned_cols=159  Identities=13%  Similarity=0.088  Sum_probs=110.6

Q ss_pred             HHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc
Q 047178           78 FLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD  157 (287)
Q Consensus        78 ~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~  157 (287)
                      .+|.+||+-... +..|..+.+..+....+...+++.+|..-    .+-....+..+|.+..+.||.+|+|+|+.+.++.
T Consensus       212 ~mI~Gl~K~~~~-ERA~~L~kE~~~~k~kv~~~aFN~lI~~~----S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akf  286 (625)
T KOG4422|consen  212 IMIAGLCKFSSL-ERARELYKEHRAAKGKVYREAFNGLIGAS----SYSVGKKLVAEMISQKMTPNLFTFNALLSCAAKF  286 (625)
T ss_pred             HHHHHHHHHHhH-HHHHHHHHHHHHhhheeeHHhhhhhhhHH----HhhccHHHHHHHHHhhcCCchHhHHHHHHHHHHh
Confidence            388888887544 33344443332222222233444444332    2223367889999999999999999999999999


Q ss_pred             CCHHHHHH----HHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH-HHHHHHHHH----HCCCC---CChHHHHHHHHHH
Q 047178          158 HRAEEAHK----FWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER-LIKLFKGLE----AFDRK---PPEKSIVQRVADA  225 (287)
Q Consensus       158 G~leeA~~----lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee-A~~Lf~eM~----~~Gi~---PD~~~Ty~sLI~a  225 (287)
                      |+++.|..    ++.+|.+-|+. |...+|.-+|..+||.+...+ |..+..+..    ..-++   |+....|.+-++.
T Consensus       287 g~F~~ar~aalqil~EmKeiGVe-PsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~I  365 (625)
T KOG4422|consen  287 GKFEDARKAALQILGEMKEIGVE-PSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSI  365 (625)
T ss_pred             cchHHHHHHHHHHHHHHHHhCCC-cchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHH
Confidence            99988764    66678888885 455689999999999998855 444444443    33344   4444678899999


Q ss_pred             HHhcCCHHHHHHHHHHH
Q 047178          226 YEVLGLLEEKERVLEKY  242 (287)
Q Consensus       226 ~~k~G~leeA~~ll~~m  242 (287)
                      |.++.+.+-|++|+.-+
T Consensus       366 c~~l~d~~LA~~v~~ll  382 (625)
T KOG4422|consen  366 CSSLRDLELAYQVHGLL  382 (625)
T ss_pred             HHHhhhHHHHHHHHHHH
Confidence            99999999999998754

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.27  E-value=1.4e-06  Score=54.30  Aligned_cols=32  Identities=25%  Similarity=0.292  Sum_probs=30.1

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCC
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH  176 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~  176 (287)
                      +|||+||++|++.|++++|.++|++|...|+.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~   32 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIE   32 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            48999999999999999999999999999874

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.14  E-value=0.00026  Score=59.83  Aligned_cols=162  Identities=14%  Similarity=0.107  Sum_probs=114.5

Q ss_pred             HHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC
Q 047178           79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH  158 (287)
Q Consensus        79 Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G  158 (287)
                      |...+...|+...+. ..+....... .-....+..+...+...|++++|.+.+....+.. ..+...+..+-..|...|
T Consensus        37 la~~~~~~~~~~~A~-~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g  113 (234)
T TIGR02521        37 LALGYLEQGDLEVAK-ENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQG  113 (234)
T ss_pred             HHHHHHHCCCHHHHH-HHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcc
Confidence            334455556654442 2233332221 1123344445566778899999999999887753 234567888889999999


Q ss_pred             CHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHH
Q 047178          159 RAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERV  238 (287)
Q Consensus       159 ~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~l  238 (287)
                      +.++|.+.|++.......+.....|..+-..|...|++++|...|.+.....  |+....+..+...+...|++++|...
T Consensus       114 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~  191 (234)
T TIGR02521       114 KYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLRGQYKDARAY  191 (234)
T ss_pred             cHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999987642211122456778888999999999999999988753  44345677888899999999999999


Q ss_pred             HHHHhHH
Q 047178          239 LEKYKDL  245 (287)
Q Consensus       239 l~~m~~l  245 (287)
                      ++++..+
T Consensus       192 ~~~~~~~  198 (234)
T TIGR02521       192 LERYQQT  198 (234)
T ss_pred             HHHHHHh
Confidence            9988776

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.13  E-value=4.1e-06  Score=52.42  Aligned_cols=33  Identities=15%  Similarity=0.220  Sum_probs=30.6

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCC
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH  176 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~  176 (287)
                      +.|||++|++|++.|+++.|.++|++|.+.|+.
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~   33 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVK   33 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            469999999999999999999999999998873

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.05  E-value=0.00053  Score=57.95  Aligned_cols=131  Identities=10%  Similarity=0.038  Sum_probs=99.9

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQG-STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~-pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      .+......+...|++++|.+.+....+.... .+...+..+-..|.+.|+.++|...|++....+-  .....|..+...
T Consensus       101 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~la~~  178 (234)
T TIGR02521       101 VLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP--QRPESLLELAEL  178 (234)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--CChHHHHHHHHH
Confidence            3444555677889999999999998764322 2345677788889999999999999999876542  223467788899


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |.+.|++++|..+|++....  .|+....+..+...+...|+.++|..+.+.+..+
T Consensus       179 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       179 YYLRGQYKDARAYLERYQQT--YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999999999998876  3443466677788888999999999888776544

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.

>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=97.82  E-value=0.0002  Score=67.32  Aligned_cols=163  Identities=18%  Similarity=0.161  Sum_probs=105.2

Q ss_pred             CCcccHHHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHH-HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHH
Q 047178           71 PRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLK-KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQ  149 (287)
Q Consensus        71 s~~~~~~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~-~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYna  149 (287)
                      +..-++..++..++..+..++.+...|.+++.....-....+. .+-..+...|.+++|+++++.    |  .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~----~--~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHK----G--GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTT----T--TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHc----c--CcccHHHH
Confidence            3445566677777776666666666777664433221121221 122235667888888776643    2  45566677


Q ss_pred             HHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhc
Q 047178          150 LIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVL  229 (287)
Q Consensus       150 LI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~  229 (287)
                      .|..|.+.+|+|.|.+.|..|.+.+-.++......+.|+.+.-.+.+.+|+-+|++|.+. +.++ ..+.|.+.-++...
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t-~~~lng~A~~~l~~  214 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGST-PKLLNGLAVCHLQL  214 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--S-HHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCC-HHHHHHHHHHHHHh
Confidence            889999999999999999999865421111234566666555556799999999998654 5566 46778888888889


Q ss_pred             CCHHHHHHHHHH
Q 047178          230 GLLEEKERVLEK  241 (287)
Q Consensus       230 G~leeA~~ll~~  241 (287)
                      |++++|+.++.+
T Consensus       215 ~~~~eAe~~L~~  226 (290)
T PF04733_consen  215 GHYEEAEELLEE  226 (290)
T ss_dssp             T-HHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998875

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.

>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=97.81  E-value=0.00025  Score=64.36  Aligned_cols=90  Identities=13%  Similarity=0.151  Sum_probs=68.7

Q ss_pred             HccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHH
Q 047178          121 KEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLI  200 (287)
Q Consensus       121 k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~  200 (287)
                      +.|.++-+...++.|.+.|+..|+.+|+.||+.+=|..-+  -..+|+.|--.                |  --+-+-|+
T Consensus        64 RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fv--p~n~fQ~~F~h----------------y--p~Qq~c~i  123 (228)
T PF06239_consen   64 RRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFV--PRNFFQAEFMH----------------Y--PRQQECAI  123 (228)
T ss_pred             CcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcc--cccHHHHHhcc----------------C--cHHHHHHH
Confidence            4466666677788999999999999999999988763332  33445544321                1  12456689


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          201 KLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       201 ~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      +|+++|+..|+.||. -|+..|++.|++.+.
T Consensus       124 ~lL~qME~~gV~Pd~-Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDK-ETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcH-HHHHHHHHHhccccH
Confidence            999999999999994 999999999987775

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

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

Probab=97.79  E-value=0.00045  Score=68.40  Aligned_cols=98  Identities=10%  Similarity=0.083  Sum_probs=55.4

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHH
Q 047178          142 STMGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIV  219 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty  219 (287)
                      -..+...++++.+...-.+|+|+.++.+.....  ....|+ |..++|..|.+.|..++|++++..=...|+.||. +||
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~-t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~-~s~  141 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPS-THHALVRQCLELGAEDELLELLKNRLQYGIFPDN-FSF  141 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCc-cHHHHHHHHHhcCCHHHHHHHHhChhhcccCCCh-hhH
Confidence            344555555666655556666666665554321  111222 3346666666666666666666666666666664 666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHH
Q 047178          220 QRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       220 ~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      |.|++.+.+.|++..|.+|..+
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~  163 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATE  163 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHH
Confidence            6666666666666666666543

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=97.77  E-value=0.003  Score=65.48  Aligned_cols=123  Identities=16%  Similarity=0.133  Sum_probs=78.6

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHH----HHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEE----AHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~lee----A~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      ..|...|++++|++.+....+.. ..+...+..|-..|...|+.++    |...|++.....  +.....+..+-..|.+
T Consensus       220 ~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~  296 (656)
T PRK15174        220 DTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN--SDNVRIVTLYADALIR  296 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHH
Confidence            34556666666666666665542 2234556666667777777764    677777766543  1223456777777777


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      .|++++|+..|++....  .|+....+..+..+|...|++++|...++.+..
T Consensus       297 ~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~  346 (656)
T PRK15174        297 TGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAR  346 (656)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777777776654  455445556666777777888877777766554

>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=97.73  E-value=0.0045  Score=63.23  Aligned_cols=130  Identities=10%  Similarity=-0.012  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+...-..+...|++++|+..++..++.. ..+..+|..+-..|...|+.++|...|++....+-  .....|..+-..|
T Consensus       367 ~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P--~~~~~~~~la~~~  443 (615)
T TIGR00990       367 SYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP--DFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc--cCHHHHHHHHHHH
Confidence            34445556678899999999999887652 23567888899999999999999999999887542  2234577788889


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+.|++++|+..|++....  .|+....|+.+-..+...|++++|...+++...+
T Consensus       444 ~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            9999999999999998764  4665567888889999999999999998876655

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=97.67  E-value=0.0053  Score=63.67  Aligned_cols=130  Identities=14%  Similarity=0.008  Sum_probs=96.9

Q ss_pred             HHHHHHHHHHccchhh----HHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          112 LKKALLALEKEQQWHR----VVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~----A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      ...+-..+...|++++    |...++...+. .+.+..++..+-..|.+.|+.++|...|++....+-  .+...+..+-
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l-~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P--~~~~a~~~La  325 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQF-NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP--DLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHH
Confidence            3344455677888875    78888887764 223566788899999999999999999999877542  2234567788


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ..|.+.|++++|+..|+.+...  .|+....+..+..++...|+.++|...+++...+-
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            8999999999999999988875  46542334445667889999999999988876653

>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=97.64  E-value=0.0028  Score=62.31  Aligned_cols=126  Identities=15%  Similarity=0.158  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      +..++..+...++++.|+++|+.+.+..  |++  .-.|...|-..++-.+|.++.++.....-  .+....+.-..-|.
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~p--~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKENP--QDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHH
Confidence            3456777777889999999999998764  553  44578888888999999999999886532  23234555556688


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +.++++.|+++.+++..  +.|++..+|..|..+|...|++++|+..++.++..
T Consensus       246 ~k~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             hcCCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            99999999999999886  47888789999999999999999999999987755

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

>PRK12370 invasion protein regulator; Provisional

Probab=97.63  E-value=0.0036  Score=63.50  Aligned_cols=122  Identities=11%  Similarity=-0.023  Sum_probs=92.1

Q ss_pred             HHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHh
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLE  197 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~e  197 (287)
                      .+...|++++|...++..++.. +.+...|..+-..|...|+.++|...|++..+.+-.  +...+..+...+...|+++
T Consensus       347 ~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~--~~~~~~~~~~~~~~~g~~e  423 (553)
T PRK12370        347 INTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT--RAAAGITKLWITYYHTGID  423 (553)
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--ChhhHHHHHHHHHhccCHH
Confidence            4567889999999999988753 224557888888899999999999999999876521  2122334455677899999


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          198 RLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       198 eA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      +|...+.+..... .|+....+..+-.+|...|++++|...+.+..
T Consensus       424 eA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~  468 (553)
T PRK12370        424 DAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEIS  468 (553)
T ss_pred             HHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhh
Confidence            9999999987653 35433446667778889999999999988644

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

Probab=97.61  E-value=0.00011  Score=77.37  Aligned_cols=109  Identities=17%  Similarity=0.058  Sum_probs=87.4

Q ss_pred             HHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHC
Q 047178          130 QVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAF  209 (287)
Q Consensus       130 qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~  209 (287)
                      .++..|...|+.|+.+||..||.-||..|+++-|- +|.-|.-+++ ++....|+.++.+..++|+.+.|.         
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksL-pv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSL-PVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccc-cccchhHHHHHhcccccccccCCC---------
Confidence            45667888999999999999999999999999999 9999987776 345567999999999999998886         


Q ss_pred             CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhhcc
Q 047178          210 DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKR  252 (287)
Q Consensus       210 Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~~~  252 (287)
                        .|- .-||+.|+.+|...|++..-+.+-..+..+...|.+.
T Consensus        80 --ep~-aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~  119 (1088)
T KOG4318|consen   80 --EPL-ADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDH  119 (1088)
T ss_pred             --CCc-hhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhh
Confidence              344 3569999999999999876333333366666666643

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

Probab=97.59  E-value=0.00068  Score=67.16  Aligned_cols=135  Identities=10%  Similarity=0.016  Sum_probs=109.3

Q ss_pred             HHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHC--CCCCChhHHHHHHHHHHHcCCHHHHHHHHHHh
Q 047178           93 VYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSK--GQGSTMGTCGQLIRALDMDHRAEEAHKFWEKR  170 (287)
Q Consensus        93 v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~--G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM  170 (287)
                      .|..|+.-.......+..++...++......+.+.+..++......  ....-..|..++|..|-+.|..++|.++...=
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~  129 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNR  129 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhCh
Confidence            6667777655556677788889988888888888888777766543  11122346679999999999999999999988


Q ss_pred             hhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhc
Q 047178          171 IGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVL  229 (287)
Q Consensus       171 ~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~  229 (287)
                      ...|+. ++.++||.||+.|.+.|.+..|.+++.+|...+...+. .|+.--+.+|.+.
T Consensus       130 ~~yGiF-~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~-~t~~L~l~~~~~~  186 (429)
T PF10037_consen  130 LQYGIF-PDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNP-STQALALYSCYKY  186 (429)
T ss_pred             hhcccC-CChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCc-hHHHHHHHHHHHh
Confidence            889986 67799999999999999999999999999999888775 7777777676665

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 [].

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

Probab=97.56  E-value=0.00061  Score=62.31  Aligned_cols=124  Identities=15%  Similarity=0.083  Sum_probs=56.5

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCC-CCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKG-QGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G-~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      .++..+...++++++.++++...... ...+...|..+-..+.+.|+.++|.++|++..+.+-  .+....+.++..+..
T Consensus       115 ~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P--~~~~~~~~l~~~li~  192 (280)
T PF13429_consen  115 SALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDP--DDPDARNALAWLLID  192 (280)
T ss_dssp             ---H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-T--T-HHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHH
Confidence            34444555555555555555544321 223444455555555556666666666555554321  112234555555555


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      .|+.++|.+++....... ..| ...+..+..+|..+|+.++|...+++
T Consensus       193 ~~~~~~~~~~l~~~~~~~-~~~-~~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  193 MGDYDEAREALKRLLKAA-PDD-PDLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             TCHHHHHHHHHHHHHHH--HTS-CCHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHC-cCH-HHHHHHHHHHhccccccccccccccc
Confidence            555555555555544432 112 13344555555555555555555544

>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=97.44  E-value=0.0036  Score=44.03  Aligned_cols=93  Identities=22%  Similarity=0.199  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAY  226 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~  226 (287)
                      |..+...|...|+.++|..+|++.....-  .+...|..+-..|...|++++|.++|.......  |+...++..+...+
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~   78 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP--DNADAYYNLAAAYYKLGKYEEALEDYEKALELD--PDNAKAYYNLGLAY   78 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC--ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcchhHHHHHHHHH
Confidence            44566667777888888888887765431  222456667777778888888888887776654  22224566677777


Q ss_pred             HhcCCHHHHHHHHHHHh
Q 047178          227 EVLGLLEEKERVLEKYK  243 (287)
Q Consensus       227 ~k~G~leeA~~ll~~m~  243 (287)
                      ...|+.++|...+.+..
T Consensus        79 ~~~~~~~~a~~~~~~~~   95 (100)
T cd00189          79 YKLGKYEEALEAYEKAL   95 (100)
T ss_pred             HHHHhHHHHHHHHHHHH
Confidence            78888888877776543

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

Probab=97.36  E-value=0.001  Score=60.85  Aligned_cols=125  Identities=14%  Similarity=0.063  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      +...-..+.+.|+.++|+.+++..++.  .| |....+.|+..+...|+.++|.+++.......-  .+...|..+-.+|
T Consensus       149 ~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~--~~~~~~~~la~~~  224 (280)
T PF13429_consen  149 WLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAP--DDPDLWDALAAAY  224 (280)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-H--TSCCHCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCc--CHHHHHHHHHHHh
Confidence            444455678899999999999998874  45 466788999999999999999999988765431  1224578899999


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      ...|+.++|+.+|.+....  .|++..+...+.+++...|+.++|..+..+.
T Consensus       225 ~~lg~~~~Al~~~~~~~~~--~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  225 LQLGRYEEALEYLEKALKL--NPDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHT---------------
T ss_pred             ccccccccccccccccccc--ccccccccccccccccccccccccccccccc
Confidence            9999999999999998763  4655688889999999999999999987654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.33  E-value=0.022  Score=62.07  Aligned_cols=121  Identities=7%  Similarity=-0.014  Sum_probs=97.1

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      +...|++++|+..+...++  +.|+...|..+-..|.+.|+.++|...|++....+-  .....++.+-..|...|++++
T Consensus       586 l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~P--d~~~a~~nLG~aL~~~G~~ee  661 (987)
T PRK09782        586 RYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEP--NNSNYQAALGYALWDSGDIAQ  661 (987)
T ss_pred             HHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHCCCHHH
Confidence            3445889999888888765  346777888899999999999999999999887642  223467888889999999999


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |+.+|..-.+.  .|+....+..+-.++...|++++|+..+++...+
T Consensus       662 Ai~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        662 SREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999987764  5766677788888999999999999888865433

>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=97.33  E-value=0.014  Score=59.73  Aligned_cols=125  Identities=5%  Similarity=-0.088  Sum_probs=100.1

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      .+-..+...|++++|+..++..++.  .|+ ..+|..+-..|...|+.++|...|++....+-  .....|..+-..|..
T Consensus       336 ~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p--~~~~~~~~lg~~~~~  411 (615)
T TIGR00990       336 LRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNS--EDPDIYYHRAQLHFI  411 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHH
Confidence            3334456789999999999887764  454 45788888899999999999999999877542  223468888899999


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      .|++++|+..|++....  .|+....+..+...|.+.|++++|...+++...
T Consensus       412 ~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  461 (615)
T TIGR00990       412 KGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKEGSIASSMATFRRCKK  461 (615)
T ss_pred             cCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999988764  576556677778889999999999999987654

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

Probab=97.21  E-value=0.0091  Score=47.98  Aligned_cols=95  Identities=19%  Similarity=0.129  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAY  226 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~  226 (287)
                      ...+...|.+.|+.++|.+.|++....+-  .+...|..+-..|.+.|++++|...|......+  |+...++..+-..|
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p--~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~   95 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDP--YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD--PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCChHHHHHHHHHH
Confidence            44445555566666666666666554331  122345555556666666666666666554443  32223344444556


Q ss_pred             HhcCCHHHHHHHHHHHhHH
Q 047178          227 EVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       227 ~k~G~leeA~~ll~~m~~l  245 (287)
                      ...|+.++|...++....+
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666554443

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

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.20  E-value=0.0095  Score=49.86  Aligned_cols=89  Identities=12%  Similarity=0.004  Sum_probs=49.3

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML  196 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~  196 (287)
                      ..+...|++++|+..|.+..... ..+..+|..+-..+.+.|++++|...|++....+-  .+...|..+=.+|.+.|++
T Consensus        32 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p--~~~~a~~~lg~~l~~~g~~  108 (144)
T PRK15359         32 YASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA--SHPEPVYQTGVCLKMMGEP  108 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCcHHHHHHHHHHHHcCCH
Confidence            34455566666666666655432 12444555566666666666666666666655431  1223455555566666666


Q ss_pred             hHHHHHHHHHHH
Q 047178          197 ERLIKLFKGLEA  208 (287)
Q Consensus       197 eeA~~Lf~eM~~  208 (287)
                      ++|+..|+.-..
T Consensus       109 ~eAi~~~~~Al~  120 (144)
T PRK15359        109 GLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHH
Confidence            666666666544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.18  E-value=0.046  Score=57.69  Aligned_cols=131  Identities=8%  Similarity=-0.051  Sum_probs=99.7

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCC-----------CCCC---hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKG-----------QGST---MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV  178 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G-----------~~pd---~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv  178 (287)
                      ..+...+...+++++|.+++..+.+..           -.|+   ...+..+...+...|+.++|.++|+++....-  -
T Consensus       314 ~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P--~  391 (765)
T PRK10049        314 ADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAP--G  391 (765)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--C
Confidence            344556778899999999999887642           1122   12455677788899999999999999987531  2


Q ss_pred             ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          179 PWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       179 ~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ....+..+...|...|++++|++++++...  ..||....+-.....+...|++++|+.+++++...+-
T Consensus       392 n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        392 NQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            234688899999999999999999998776  4588655666666688889999999999988776543

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

Probab=97.12  E-value=0.008  Score=49.54  Aligned_cols=87  Identities=8%  Similarity=0.127  Sum_probs=60.0

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQ-GSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~-~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      ...|..+...+.+..+.-++..+++.|+ -|++.+||.++.+.++..-=.                            ..
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~----------------------------~~   80 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDS----------------------------ED   80 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccc----------------------------hh
Confidence            3444445555777777778888777787 778888888777766432110                            00


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV  228 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k  228 (287)
                      -.+++-+++.++++|...+++|+. .||++||.++.+
T Consensus        81 ie~kl~~LLtvYqDiL~~~lKP~~-etYnivl~~Llk  116 (120)
T PF08579_consen   81 IENKLTNLLTVYQDILSNKLKPND-ETYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHHHHHHHHhccCCcH-HHHHHHHHHHHH
Confidence            112233567888999999999995 999999988765

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 [, , ].

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.02  E-value=0.041  Score=58.87  Aligned_cols=163  Identities=11%  Similarity=0.073  Sum_probs=114.1

Q ss_pred             HHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc
Q 047178           78 FLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD  157 (287)
Q Consensus        78 ~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~  157 (287)
                      .|+..+...|+...++ ..++..+ -....+...+..+...+...|++++|+++++.+.+..- -|...+..|+..|...
T Consensus        73 dll~l~~~~G~~~~A~-~~~eka~-~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP-~n~~~l~gLa~~y~~~  149 (822)
T PRK14574         73 DWLQIAGWAGRDQEVI-DVYERYQ-SSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDP-TNPDLISGMIMTQADA  149 (822)
T ss_pred             HHHHHHHHcCCcHHHH-HHHHHhc-cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHhhc
Confidence            4555555556554432 3333333 22223333444445567778999999999999987532 2355677888999999


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHH
Q 047178          158 HRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKER  237 (287)
Q Consensus       158 G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~  237 (287)
                      |+.++|.+.+.+....+   +....|-.++..|...+...+|++.+++|.+..  |+..-.+.-++.++.+.|...-|.+
T Consensus       150 ~q~~eAl~~l~~l~~~d---p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~--P~n~e~~~~~~~~l~~~~~~~~a~~  224 (822)
T PRK14574        150 GRGGVVLKQATELAERD---PTVQNYMTLSYLNRATDRNYDALQASSEAVRLA--PTSEEVLKNHLEILQRNRIVEPALR  224 (822)
T ss_pred             CCHHHHHHHHHHhcccC---cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCcHHHHH
Confidence            99999999999998764   233445444444444566667999999999874  7655667888899999999999999


Q ss_pred             HHHHHhHHHhh
Q 047178          238 VLEKYKDLFTE  248 (287)
Q Consensus       238 ll~~m~~l~~~  248 (287)
                      +..+.+.+|+.
T Consensus       225 l~~~~p~~f~~  235 (822)
T PRK14574        225 LAKENPNLVSA  235 (822)
T ss_pred             HHHhCccccCH
Confidence            99998877753

>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=97.02  E-value=0.02  Score=40.11  Aligned_cols=91  Identities=14%  Similarity=0.060  Sum_probs=71.3

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      ....+...+++++|++++....+.. ..+..++..+-..|...|+.++|.+.|++......  ....+|..+...|...|
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP--DNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC--cchhHHHHHHHHHHHHH
Confidence            3445567889999999999887653 23446778888889999999999999999876542  22246788889999999


Q ss_pred             CHhHHHHHHHHHHH
Q 047178          195 MLERLIKLFKGLEA  208 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~  208 (287)
                      ++++|...|.....
T Consensus        83 ~~~~a~~~~~~~~~   96 (100)
T cd00189          83 KYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHc
Confidence            99999999988664

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.01  E-value=0.04  Score=58.12  Aligned_cols=160  Identities=12%  Similarity=0.051  Sum_probs=118.1

Q ss_pred             cHHHHHHHHHccCCCcchHHHHHHHHHHcc--CCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHH
Q 047178           75 KINFLVNTLLDLKNSKEDVYGTLDAWVAWE--QNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIR  152 (287)
Q Consensus        75 ~~~~Li~~l~~lg~~~~~v~~~Ld~~~~~~--~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~  152 (287)
                      +..+...-..-.|+..+++    ..|....  ...+...+..+-..+...+++.+|.+++...++. -+.+...+..+..
T Consensus        17 ~~~d~~~ia~~~g~~~~A~----~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~   91 (765)
T PRK10049         17 QIADWLQIALWAGQDAEVI----TVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL-EPQNDDYQRGLIL   91 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHH----HHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence            3455555666667765543    4443322  3333444666777789999999999999997764 2234556778889


Q ss_pred             HHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCH
Q 047178          153 ALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       153 ~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~l  232 (287)
                      .+...|+.++|...+++.....-  .... |..+-..|.+.|++++|+..|++..+.  .|+....+..+..++...|..
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~P--~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~  166 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGAP--DKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLS  166 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC--CCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCh
Confidence            99999999999999999987642  2223 788888999999999999999999875  566545566777888889999


Q ss_pred             HHHHHHHHHHhH
Q 047178          233 EEKERVLEKYKD  244 (287)
Q Consensus       233 eeA~~ll~~m~~  244 (287)
                      ++|...++....
T Consensus       167 e~Al~~l~~~~~  178 (765)
T PRK10049        167 APALGAIDDANL  178 (765)
T ss_pred             HHHHHHHHhCCC
Confidence            999998876554

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

Probab=96.91  E-value=0.041  Score=45.65  Aligned_cols=122  Identities=16%  Similarity=0.084  Sum_probs=83.8

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhH-HH--HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC--hhhHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGT-CG--QLIRALDMDHRAEEAHKFWEKRIGIDLHSVP--WQLCKSMIA  188 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~T-Yn--aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~--~~tyNsmIs  188 (287)
                      .++..+ ..+.+..+...++.+.+..- .+... .-  .+-..+...|++++|...|+....... .++  ....-.|-.
T Consensus        17 ~~~~~~-~~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~-d~~l~~~a~l~LA~   93 (145)
T PF09976_consen   17 QALQAL-QAGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAP-DPELKPLARLRLAR   93 (145)
T ss_pred             HHHHHH-HCCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCC-CHHHHHHHHHHHHH
Confidence            344444 36677777777777776422 22122 12  234678889999999999999987541 111  123445678


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      .+...|++++|+..+.......+.|   ..+...-+.|...|+.++|...+++
T Consensus        94 ~~~~~~~~d~Al~~L~~~~~~~~~~---~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   94 ILLQQGQYDEALATLQQIPDEAFKA---LAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHcCCHHHHHHHHHhccCcchHH---HHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            8889999999999998765555544   3356777889999999999998865

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=96.89  E-value=0.033  Score=61.40  Aligned_cols=124  Identities=15%  Similarity=0.115  Sum_probs=94.3

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHH------------
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSM------------  186 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsm------------  186 (287)
                      +...|++++|+..|+..++.. ..|..++..|-..|.+.|+.++|...|++..+.+-.......|..+            
T Consensus       279 ~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~  357 (1157)
T PRK11447        279 AVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQ  357 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHH
Confidence            456789999999999887742 2367788999999999999999999999987654211111123222            


Q ss_pred             HHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          187 IAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       187 IsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      -..+.+.|++++|...|++....  .|+....+..+-..|...|++++|.+.+++...+
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~  414 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRM  414 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            23567899999999999999876  4554466777888999999999999999876654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=96.88  E-value=0.13  Score=54.19  Aligned_cols=127  Identities=13%  Similarity=-0.015  Sum_probs=100.0

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCCh-hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTM-GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~-~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      +-..+...|..++|..+++...+  +.||. ...-.+...|.+.+++|+|....++....+-.  .-...+.+=.++.+.
T Consensus        92 La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~--~~~~~~~~a~~l~~~  167 (694)
T PRK15179         92 VARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS--SAREILLEAKSWDEI  167 (694)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC--CHHHHHHHHHHHHHh
Confidence            33456778899999999988776  45654 45677889999999999999999999876532  223566677788999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      |++++|.++|++....  .||..-++..+-.++-+.|+.++|...|+...+.+.
T Consensus       168 g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~  219 (694)
T PRK15179        168 GQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG  219 (694)
T ss_pred             cchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC
Confidence            9999999999999984  355345678888899999999999999987655543

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

Probab=96.87  E-value=0.0021  Score=48.41  Aligned_cols=83  Identities=25%  Similarity=0.313  Sum_probs=54.6

Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHH
Q 047178          157 DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKE  236 (287)
Q Consensus       157 ~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~  236 (287)
                      .|+.++|..+|+++.+..-.......|-.+-.+|.+.|++++|+++++.....   |+..-..-.+-.+|.++|+.++|.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~---~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLD---PSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHH---HCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHhCCHHHHH
Confidence            47889999999998875421001123444788999999999999999882222   221122234467788999999999


Q ss_pred             HHHHHH
Q 047178          237 RVLEKY  242 (287)
Q Consensus       237 ~ll~~m  242 (287)
                      .+++++
T Consensus        79 ~~l~~~   84 (84)
T PF12895_consen   79 KALEKA   84 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHhcC
Confidence            988763

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=96.86  E-value=0.033  Score=61.33  Aligned_cols=118  Identities=13%  Similarity=0.047  Sum_probs=64.5

Q ss_pred             HHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHh
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLE  197 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~e  197 (287)
                      .+...|+.++|..++..     ...+...+..|-..|.+.|+.++|.++|++.....-  .....+..+...|...|+++
T Consensus       582 ~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P--~~~~a~~~la~~~~~~g~~~  654 (1157)
T PRK11447        582 RLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREP--GNADARLGLIEVDIAQGDLA  654 (1157)
T ss_pred             HHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHCCCHH
Confidence            34555666666555541     223334455556666666666666666666655431  12234555666666666666


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          198 RLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       198 eA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      +|.+.|+....  ..||...++..+..++...|+.++|.+++++...
T Consensus       655 eA~~~l~~ll~--~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        655 AARAQLAKLPA--TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             HHHHHHHHHhc--cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            66666665443  2344334444455556666666666666665443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=96.86  E-value=0.038  Score=42.61  Aligned_cols=91  Identities=11%  Similarity=-0.075  Sum_probs=36.8

Q ss_pred             HHHccchhhHHHHHHHHHHCCCC--CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC-ChhhHHHHHHHHHHcCC
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQG--STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV-PWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~--pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv-~~~tyNsmIsgY~k~G~  195 (287)
                      +.+.+++++|.+.+..+.+..-.  .....+..+-..|.+.|+.++|...|++.....-..+ ....+..+-..|.+.|+
T Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~   91 (119)
T TIGR02795        12 VLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGD   91 (119)
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCC
Confidence            34444555555555444432100  0012233344445555555555555554443210000 01123333444444555


Q ss_pred             HhHHHHHHHHHHHC
Q 047178          196 LERLIKLFKGLEAF  209 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~  209 (287)
                      .++|...|.+....
T Consensus        92 ~~~A~~~~~~~~~~  105 (119)
T TIGR02795        92 KEKAKATLQQVIKR  105 (119)
T ss_pred             hHHHHHHHHHHHHH
Confidence            55555555554443

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=96.82  E-value=0.2  Score=50.83  Aligned_cols=126  Identities=13%  Similarity=-0.030  Sum_probs=86.9

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCCh-hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTM-GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~-~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      +..+-..+...|++++|+..++...+.  .|+. ..+..+...+...|+.++|...+++.....- +-....+..+-..|
T Consensus       375 ~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~-p~~~~~~~~la~~l  451 (553)
T PRK12370        375 KYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHL-QDNPILLSMQVMFL  451 (553)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhcc-ccCHHHHHHHHHHH
Confidence            334445678889999999999998774  3442 2344455567778999999999999875431 11123466677788


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      ...|++++|...+.++...  .|+.....+.+-..|+..|  +.+...++++..
T Consensus       452 ~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        452 SLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            8999999999999987654  4553344455556677777  577776665443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=96.79  E-value=0.065  Score=58.45  Aligned_cols=124  Identities=10%  Similarity=0.004  Sum_probs=80.0

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      -..+.+.|+.++|.+.+...++.. ..+...+..+...+.+.|+.++|...|++....+   |+...|..+-..|.+.|+
T Consensus       549 a~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~---P~~~a~~~LA~~l~~lG~  624 (987)
T PRK09782        549 ANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA---PSANAYVARATIYRQRHN  624 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCC
Confidence            334556667777777776666543 1122222233333344578888888887776543   223457777778888888


Q ss_pred             HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          196 LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +++|+..|.+....  .||....++.+-..+...|+.++|..++++...+
T Consensus       625 ~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        625 VPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            88888888876654  4666566677777788888888888887765443

>PRK11189 lipoprotein NlpI; Provisional

Probab=96.78  E-value=0.072  Score=49.71  Aligned_cols=117  Identities=9%  Similarity=-0.106  Sum_probs=68.0

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      +...|++.+|...|...++.. ..+...|+.+=..|...|+.++|...|++..+.+-  ....+|.-+-..|...|++++
T Consensus        74 ~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P--~~~~a~~~lg~~l~~~g~~~e  150 (296)
T PRK11189         74 YDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDP--TYNYAYLNRGIALYYGGRYEL  150 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHCCCHHH
Confidence            455666777766666665532 12455677777777777777777777777665431  122345556666677777777


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      |++.|+.-...  .|+. .........+...++.++|...+.+
T Consensus       151 A~~~~~~al~~--~P~~-~~~~~~~~l~~~~~~~~~A~~~l~~  190 (296)
T PRK11189        151 AQDDLLAFYQD--DPND-PYRALWLYLAESKLDPKQAKENLKQ  190 (296)
T ss_pred             HHHHHHHHHHh--CCCC-HHHHHHHHHHHccCCHHHHHHHHHH
Confidence            77777766553  4543 2112222223345567777766644

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.71  E-value=0.067  Score=54.31  Aligned_cols=132  Identities=17%  Similarity=0.150  Sum_probs=98.7

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC---CCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhC----CCCCCC-
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK---GQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGI----DLHSVP-  179 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~---G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~----g~~sv~-  179 (287)
                      +..+...++..+++++|..++..-.+.   -.+++    ..+|+-|=..|-+.|+.+||+++|.+...+    +....+ 
T Consensus       328 l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~  407 (508)
T KOG1840|consen  328 LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYG  407 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChh
Confidence            445666678888888887777654431   12222    357999999999999999999999987542    111011 


Q ss_pred             -hhhHHHHHHHHHHcCCHhHHHHHHHHH----HHCC-CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          180 -WQLCKSMIAIYYRNNMLERLIKLFKGL----EAFD-RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       180 -~~tyNsmIsgY~k~G~~eeA~~Lf~eM----~~~G-i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                       ...+|-|=..|.+.+..++|..+|.+-    +..| ..||...+|.-|...|...|++|+|.++++...
T Consensus       408 ~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  408 VGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             134677888999999999999999874    4445 357777889999999999999999999987644

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

Probab=96.59  E-value=0.12  Score=41.26  Aligned_cols=96  Identities=9%  Similarity=-0.036  Sum_probs=75.2

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      ....+...+++.+|.+.+......+ ..+...|..+-..|.+.|+.++|...|++....+-  .+..+|..+=..|...|
T Consensus        23 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p--~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        23 LAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP--DDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--CChHHHHHHHHHHHHcC
Confidence            3444667889999999998887754 34667888899999999999999999999876542  23344555667899999


Q ss_pred             CHhHHHHHHHHHHHCCCCCCh
Q 047178          195 MLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      ++++|+..|+...+..  ||.
T Consensus       100 ~~~~A~~~~~~al~~~--p~~  118 (135)
T TIGR02552       100 EPESALKALDLAIEIC--GEN  118 (135)
T ss_pred             CHHHHHHHHHHHHHhc--ccc
Confidence            9999999999887753  664

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

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

Probab=96.57  E-value=0.13  Score=45.40  Aligned_cols=118  Identities=11%  Similarity=0.061  Sum_probs=79.5

Q ss_pred             hhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH-HHHcCC--HhHHHH
Q 047178          125 WHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI-YYRNNM--LERLIK  201 (287)
Q Consensus       125 ~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg-Y~k~G~--~eeA~~  201 (287)
                      .++++..+...+.. -..|...|..|-..|...|+.++|...|++....+-  .+...|..+-.+ |.+.|+  .++|.+
T Consensus        55 ~~~~i~~l~~~L~~-~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P--~~~~~~~~lA~aL~~~~g~~~~~~A~~  131 (198)
T PRK10370         55 PEAQLQALQDKIRA-NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG--ENAELYAALATVLYYQAGQHMTPQTRE  131 (198)
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            34444444443332 234566788888888888889999888888776542  122345555555 467676  488888


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          202 LFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       202 Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +|++..+.+  |+....+..+-.++...|++++|...++++..+..
T Consensus       132 ~l~~al~~d--P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        132 MIDKALALD--ANEVTALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHhC--CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            888887754  44456677777788888888888888888766554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=96.53  E-value=0.12  Score=39.70  Aligned_cols=101  Identities=12%  Similarity=0.042  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC-ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCC-CChHHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV-PWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRK-PPEKSIVQRVA  223 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv-~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~-PD~~~Ty~sLI  223 (287)
                      +|-.+...+.+.|+.++|.+.|.++....-..+ ....+..+-..|.+.|++++|...|+......-. |.....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            566777888999999999999999976532111 1134566889999999999999999998864211 11113356677


Q ss_pred             HHHHhcCCHHHHHHHHHHHhHHH
Q 047178          224 DAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       224 ~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ..+.+.|+.++|...+++....+
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            78999999999999998877664

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

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

Probab=96.50  E-value=0.073  Score=49.54  Aligned_cols=133  Identities=14%  Similarity=0.105  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCC-CCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKG-QGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G-~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      |...+..+.+.+..+.|.++|+.-++.+ +..++....++|.-+| .++.+.|..+|+.....-.  .+...|..-|+-+
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-NKDPKRARKIFERGLKKFP--SDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHHHT--T-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHH
Confidence            4455666777777888999999987643 4566777777776443 4556679999998876421  2334688888889


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCCh--HHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPE--KSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~--~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      .+.|+.+.|..||+.-... +.++.  ...|...|+-=.+.|+++.+..|...+.+++..
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~  139 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPE  139 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTT
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhh
Confidence            9999999999999998766 43331  147888888888899999999998888777644

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.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=96.48  E-value=0.48  Score=41.70  Aligned_cols=131  Identities=12%  Similarity=0.051  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChh--HHHHHHHHHHHc--------CCHHHHHHHHHHhhhCCCCCCChh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMG--TCGQLIRALDMD--------HRAEEAHKFWEKRIGIDLHSVPWQ  181 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~--TYnaLI~~y~K~--------G~leeA~~lF~eM~~~g~~sv~~~  181 (287)
                      +...-..+...+++++|+..++.+.+..-.....  ++..+-.+|.+.        |+.++|.+.|++.....-.  +..
T Consensus        73 ~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~--~~~  150 (235)
T TIGR03302        73 QLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN--SEY  150 (235)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC--Chh
Confidence            3445567788899999999999988743211111  333333334433        7899999999999865421  111


Q ss_pred             hH-----------------HHHHHHHHHcCCHhHHHHHHHHHHHCCC-CCChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          182 LC-----------------KSMIAIYYRNNMLERLIKLFKGLEAFDR-KPPEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       182 ty-----------------NsmIsgY~k~G~~eeA~~Lf~eM~~~Gi-~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      .+                 -.+-..|.+.|++++|+..|.+.....- .|+..-.+..+..++.+.|+.++|...++...
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            11                 1344568889999999999999876521 23323457788899999999999999887654


Q ss_pred             H
Q 047178          244 D  244 (287)
Q Consensus       244 ~  244 (287)
                      .
T Consensus       231 ~  231 (235)
T TIGR03302       231 A  231 (235)
T ss_pred             h
Confidence            3

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).

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

Probab=96.48  E-value=0.011  Score=62.62  Aligned_cols=93  Identities=9%  Similarity=-0.010  Sum_probs=76.6

Q ss_pred             CCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHH
Q 047178          141 GSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQ  220 (287)
Q Consensus       141 ~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~  220 (287)
                      .||..+|.++++.-.-+|+++-|..+..+|.++|+. +....|-.||-|   .|...-+..+++.|.+.|+.||. .||.
T Consensus       201 ~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfp-ir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~s-eT~a  275 (1088)
T KOG4318|consen  201 APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFP-IRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGS-ETQA  275 (1088)
T ss_pred             CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCC-cccccchhhhhc---CccchHHHHHHHHHHHhcCCCCc-chhH
Confidence            388999999999999999999999999999999984 443333445544   78888888999999999999997 9998


Q ss_pred             HHHHHHHhcCCHHHHHHH
Q 047178          221 RVADAYEVLGLLEEKERV  238 (287)
Q Consensus       221 sLI~a~~k~G~leeA~~l  238 (287)
                      ..+-.+...|.+..+.+.
T Consensus       276 dyvip~l~N~~t~~~~e~  293 (1088)
T KOG4318|consen  276 DYVIPQLSNGQTKYGEEG  293 (1088)
T ss_pred             HHHHhhhcchhhhhcccc
Confidence            888888887776666654

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

Probab=96.47  E-value=0.097  Score=49.14  Aligned_cols=154  Identities=19%  Similarity=0.202  Sum_probs=93.5

Q ss_pred             HHHHHHHccCCCcchHHHHHHHHHHccCCCCH-HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH
Q 047178           78 FLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPV-GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM  156 (287)
Q Consensus        78 ~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~-~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K  156 (287)
                      -++..+...+..+++....+.+|++....-+. +....+.-.+++.+.+++|+...+.    |-  ++..+-.=+..+-|
T Consensus        76 r~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~----~~--~lE~~Al~VqI~lk  149 (299)
T KOG3081|consen   76 RLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHL----GE--NLEAAALNVQILLK  149 (299)
T ss_pred             HHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhc----cc--hHHHHHHHHHHHHH
Confidence            34455555566667777777777665443332 3444555567888888888766544    22  22222222444567


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCChhh----HHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCH
Q 047178          157 DHRAEEAHKFWEKRIGIDLHSVPWQL----CKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       157 ~G~leeA~~lF~eM~~~g~~sv~~~t----yNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~l  232 (287)
                      ..++|-|+....+|..-+    ...|    =++.|....-.+.+.+|+-+|++|-++ +.|+. -+.+-..-++-..|++
T Consensus       150 ~~r~d~A~~~lk~mq~id----ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~-~llnG~Av~~l~~~~~  223 (299)
T KOG3081|consen  150 MHRFDLAEKELKKMQQID----EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTP-LLLNGQAVCHLQLGRY  223 (299)
T ss_pred             HHHHHHHHHHHHHHHccc----hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCCh-HHHccHHHHHHHhcCH
Confidence            777888888888886543    1122    334555555556778888888887652 44553 4566666666677888


Q ss_pred             HHHHHHHHHHh
Q 047178          233 EEKERVLEKYK  243 (287)
Q Consensus       233 eeA~~ll~~m~  243 (287)
                      ++|+.++++..
T Consensus       224 eeAe~lL~eaL  234 (299)
T KOG3081|consen  224 EEAESLLEEAL  234 (299)
T ss_pred             HHHHHHHHHHH
Confidence            88888877543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.46  E-value=0.18  Score=42.04  Aligned_cols=95  Identities=6%  Similarity=-0.025  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAY  226 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~  226 (287)
                      +..+-..+...|++++|...|+.....+-  .+...|..+-..+.+.|++++|...|+.....  .|+....+..+-.++
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P--~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l--~p~~~~a~~~lg~~l  102 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQP--WSWRAHIALAGTWMMLKEYTTAINFYGHALML--DASHPEPVYQTGVCL  102 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHHHH
Confidence            44566778899999999999999887652  34457888999999999999999999999874  465567788888899


Q ss_pred             HhcCCHHHHHHHHHHHhHH
Q 047178          227 EVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       227 ~k~G~leeA~~ll~~m~~l  245 (287)
                      ...|+.++|...+.....+
T Consensus       103 ~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        103 KMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            9999999999999876554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=96.28  E-value=0.17  Score=54.31  Aligned_cols=53  Identities=19%  Similarity=0.222  Sum_probs=24.9

Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      ++..+.-.|++.+|.++++++...  -|...-....+-+.+..-|...+|++.++
T Consensus       422 ~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k  474 (822)
T PRK14574        422 LVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELK  474 (822)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            344444555555555555555332  23223334444444555555555555553

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

Probab=96.27  E-value=0.099  Score=49.18  Aligned_cols=127  Identities=14%  Similarity=0.044  Sum_probs=89.0

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCCCCChhH---HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGT---CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~T---YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      .-.+..+.+.++.+.|.+.++.|.+.  ..|...   ..+.|+.+--...+.+|..+|++|.++.  +.++.+.|.+-.+
T Consensus       135 al~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  135 ALAVQILLKMNRPDLAEKELKNMQQI--DEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKF--GSTPKLLNGLAVC  210 (290)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHCC--SCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS----SHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcc--CCCHHHHHHHHHH
Confidence            34667788999999999999999764  345432   2334444433457999999999998763  2345678999999


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCH-HHHHHHHHHHhHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLL-EEKERVLEKYKDL  245 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~l-eeA~~ll~~m~~l  245 (287)
                      +...|++++|.+++.+-...  .|+...|..-+|-.....|+- +.+.+.+.++...
T Consensus       211 ~l~~~~~~eAe~~L~~al~~--~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  211 HLQLGHYEEAEELLEEALEK--DPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHCT-HHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHh--ccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            99999999999999986544  455445555667677778877 6677777765544

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=96.25  E-value=0.91  Score=44.13  Aligned_cols=131  Identities=11%  Similarity=0.021  Sum_probs=87.0

Q ss_pred             CHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHH--HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHH
Q 047178          108 PVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCG--QLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKS  185 (287)
Q Consensus       108 ~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYn--aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNs  185 (287)
                      +...+.-+-..-.+.|+.+.|.+.+..+.+  ..||...+-  ..-..+...|+.++|...++++.+.+-  -+...+..
T Consensus       117 p~l~~llaA~aA~~~g~~~~A~~~l~~A~~--~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P--~~~~al~l  192 (398)
T PRK10747        117 PVVNYLLAAEAAQQRGDEARANQHLERAAE--LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAP--RHPEVLRL  192 (398)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC--CCHHHHHH
Confidence            333443333333677888888888888865  345543332  335677888889999988888877652  22245777


Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHCCCCCCh----------------------------------------HHHHHHHHHH
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAFDRKPPE----------------------------------------KSIVQRVADA  225 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~----------------------------------------~~Ty~sLI~a  225 (287)
                      +...|.+.|++++|.+++..+...+..++.                                        ......+..+
T Consensus       193 l~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~  272 (398)
T PRK10747        193 AEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEH  272 (398)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHH
Confidence            888888889999888888888876654321                                        1223344566


Q ss_pred             HHhcCCHHHHHHHHHHH
Q 047178          226 YEVLGLLEEKERVLEKY  242 (287)
Q Consensus       226 ~~k~G~leeA~~ll~~m  242 (287)
                      +...|+.++|..++++.
T Consensus       273 l~~~g~~~~A~~~L~~~  289 (398)
T PRK10747        273 LIECDDHDTAQQIILDG  289 (398)
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            77788888888887653

>PRK11189 lipoprotein NlpI; Provisional

Probab=96.09  E-value=0.25  Score=46.04  Aligned_cols=118  Identities=8%  Similarity=-0.070  Sum_probs=87.7

Q ss_pred             chhhHHHHHHHHHHCC-CCCC--hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHH
Q 047178          124 QWHRVVQVIKWMLSKG-QGST--MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLI  200 (287)
Q Consensus       124 ~~~~A~qv~~~M~~~G-~~pd--~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~  200 (287)
                      +.+.++.-+..++... +.|+  ...|.-+=..|...|+.++|...|++....+-  .....|+.+=..|.+.|++++|.
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P--~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP--DMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHHCCCHHHHH
Confidence            3344444455555432 2222  24466666778999999999999999887652  23357999999999999999999


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          201 KLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       201 ~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +.|+...+  +.|+...+|.-+..++...|+.++|.+.++....+
T Consensus       119 ~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~  161 (296)
T PRK11189        119 EAFDSVLE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD  161 (296)
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999886  45765566777777889999999999999875554

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

Probab=96.08  E-value=0.09  Score=50.65  Aligned_cols=102  Identities=9%  Similarity=-0.056  Sum_probs=78.3

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      -..+...+++.+|++++...++..- .+...|..+-.+|.+.|++++|...+++....+-  .....|..+-.+|.+.|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P--~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELDP--SLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--CCHHHHHHHHHHHHHhCC
Confidence            4456778999999999999887532 3566788888899999999999999999987542  223467778889999999


Q ss_pred             HhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          196 LERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      +++|...|++....  .|+. ..+..++
T Consensus        86 ~~eA~~~~~~al~l--~P~~-~~~~~~l  110 (356)
T PLN03088         86 YQTAKAALEKGASL--APGD-SRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHHHh--CCCC-HHHHHHH
Confidence            99999999998864  4664 3334444

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

Probab=96.05  E-value=0.093  Score=49.92  Aligned_cols=90  Identities=14%  Similarity=0.192  Sum_probs=64.7

Q ss_pred             HccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHH
Q 047178          121 KEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLI  200 (287)
Q Consensus       121 k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~  200 (287)
                      +.+.++-+.-.++.|.+.|+..|..+|+.||+.+=|..-+.  ..+|....-                -|=+  +-+-++
T Consensus        84 ~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP--~nvfQ~~F~----------------HYP~--QQ~C~I  143 (406)
T KOG3941|consen   84 GRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIP--QNVFQKVFL----------------HYPQ--QQNCAI  143 (406)
T ss_pred             ccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccccc--HHHHHHHHh----------------hCch--hhhHHH
Confidence            34455556667789999999999999999999776644332  122322211                1111  234478


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          201 KLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       201 ~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      .++++|+..|+.|| .-+--+||++|++-|-
T Consensus       144 ~vLeqME~hGVmPd-kE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPD-KEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCc-hHHHHHHHHHhccccc
Confidence            99999999999999 5888999999998885

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.01  E-value=0.25  Score=50.18  Aligned_cols=138  Identities=12%  Similarity=0.174  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHH---CCCCCChhHHHHHH----HHHHHcCCHHHHHHHHHHhhh-----CCCCC
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLS---KGQGSTMGTCGQLI----RALDMDHRAEEAHKFWEKRIG-----IDLHS  177 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~---~G~~pd~~TYnaLI----~~y~K~G~leeA~~lF~eM~~-----~g~~s  177 (287)
                      .+...+...+...|+++.|.+++++-++   ++.+.+.-...+++    ..|...+++++|..+|+++..     .|-..
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            4455577778899999999999998654   23333333344444    467889999999999999863     22111


Q ss_pred             CC-hhhHHHHHHHHHHcCCHhHHHHHHHHHH-----HCCC-CCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          178 VP-WQLCKSMIAIYYRNNMLERLIKLFKGLE-----AFDR-KPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       178 v~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~-----~~Gi-~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +. ..+++.|=..|++.|++++|...+++-.     ..|. .|+...-++.+...|+..+.+++|..++.+-..+|.
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~  356 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYL  356 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHH
Confidence            11 1367777778999999998887776542     2233 344334467777789999999999999987777776

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

Probab=95.99  E-value=0.28  Score=52.33  Aligned_cols=172  Identities=15%  Similarity=0.159  Sum_probs=112.3

Q ss_pred             cCcCCCCcccHHHHHHHHHccCCCcchHHHHHHHHHHccCCC---CHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCC
Q 047178           66 IGENVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNF---PVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGS  142 (287)
Q Consensus        66 ~~~~~s~~~~~~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~---~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p  142 (287)
                      +|..+|+.=++-.|.-|+.++...  ..-..|..+.......   ...-+..+...|-..|+++.|+.+|..+...-..-
T Consensus       370 ~~~~~s~~l~v~rl~icL~~L~~~--e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~  447 (895)
T KOG2076|consen  370 VGKELSYDLRVIRLMICLVHLKER--ELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQ  447 (895)
T ss_pred             CCCCCCccchhHhHhhhhhccccc--chHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcccc
Confidence            555688876653333344444322  2223344432221111   12335577888999999999999999988765556


Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHH--------HCCCCCC
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLE--------AFDRKPP  214 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~--------~~Gi~PD  214 (287)
                      +.+.|--+=.+|-.-|..++|.+.|++.....-.-.+  .=-+|=+.|-+.|++|+|++.+..|.        ..+..|+
T Consensus       448 ~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D--~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e  525 (895)
T KOG2076|consen  448 NAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLD--ARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPE  525 (895)
T ss_pred             chhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchh--hhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHH
Confidence            6788999999999999999999999998764310011  12234456889999999999999964        3446666


Q ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          215 EKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       215 ~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      . -.---..+-|...|+.++=..+..+|
T Consensus       526 ~-ri~~~r~d~l~~~gk~E~fi~t~~~L  552 (895)
T KOG2076|consen  526 R-RILAHRCDILFQVGKREEFINTASTL  552 (895)
T ss_pred             H-HHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            4 33344556788889887744443333

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

Probab=95.89  E-value=0.096  Score=43.25  Aligned_cols=50  Identities=18%  Similarity=0.151  Sum_probs=37.6

Q ss_pred             CCHHHHHHHHHHHHHcc--------chhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH
Q 047178          107 FPVGSLKKALLALEKEQ--------QWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM  156 (287)
Q Consensus       107 ~~~~s~~~ai~~L~k~~--------~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K  156 (287)
                      +++..++.++....+..        +.-+.+.++..|+..++.|+..|||.+|..+.+
T Consensus        59 Psv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Llk  116 (120)
T PF08579_consen   59 PSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLLK  116 (120)
T ss_pred             CcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            45667888888776643        233457788888888899999999999988765

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 [, , ].

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

Probab=95.89  E-value=0.24  Score=46.09  Aligned_cols=93  Identities=10%  Similarity=-0.010  Sum_probs=61.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCC-CCCh-HHHHHHHHHH
Q 047178          148 GQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDR-KPPE-KSIVQRVADA  225 (287)
Q Consensus       148 naLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi-~PD~-~~Ty~sLI~a  225 (287)
                      ..+-..|...|++++|+..|++.....-  .+...+..+-..|...|++++|..++.+.....- .|+. ...|..+...
T Consensus       118 ~~~a~~~~~~G~~~~A~~~~~~al~~~p--~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~  195 (355)
T cd05804         118 GMLAFGLEEAGQYDRAEEAARRALELNP--DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALF  195 (355)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCC--CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHH
Confidence            3444567778888888888888776542  1223466677778888888888888887665321 2331 0123356667


Q ss_pred             HHhcCCHHHHHHHHHHH
Q 047178          226 YEVLGLLEEKERVLEKY  242 (287)
Q Consensus       226 ~~k~G~leeA~~ll~~m  242 (287)
                      +...|+.++|..++++.
T Consensus       196 ~~~~G~~~~A~~~~~~~  212 (355)
T cd05804         196 YLERGDYEAALAIYDTH  212 (355)
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            77888888888888765

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.

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=95.83  E-value=0.79  Score=38.92  Aligned_cols=111  Identities=6%  Similarity=0.098  Sum_probs=70.3

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCC--hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGST--MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd--~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      ..-..+...|++++|+..|+...+..-.++  ...|..+-..|.+.|+.++|...+.+.....-  .....|..+-..|.
T Consensus        40 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~  117 (172)
T PRK02603         40 RDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP--KQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--ccHHHHHHHHHHHH
Confidence            344445677888888888888776433222  35677788888888999999988888776431  12234555666677


Q ss_pred             HcCC--------------HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          192 RNNM--------------LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       192 k~G~--------------~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      ..|.              +++|.+++.+...  ..|+.   |..++.-+...|.
T Consensus       118 ~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~--~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        118 KRGEKAEEAGDQDEAEALFDKAAEYWKQAIR--LAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HcCChHhHhhCHHHHHHHHHHHHHHHHHHHh--hCchh---HHHHHHHHHhcCc
Confidence            7666              4556666665444  34653   4555555555553

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=95.76  E-value=0.3  Score=41.52  Aligned_cols=102  Identities=16%  Similarity=0.178  Sum_probs=72.3

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC-hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP-WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRV  222 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sL  222 (287)
                      ...|..+-..|...|+.++|...|++....+-.+.. ...|..+-..|.+.|++++|...|.+....  .|+....+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHH
Confidence            346777778888999999999999998754321111 246888899999999999999999998874  46544556666


Q ss_pred             HHHHHhcCC-------HHHHHHHHHHHhHHHh
Q 047178          223 ADAYEVLGL-------LEEKERVLEKYKDLFT  247 (287)
Q Consensus       223 I~a~~k~G~-------leeA~~ll~~m~~l~~  247 (287)
                      ...|...|.       .+.|...+++-...+.
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~  144 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEALFDKAAEYWK  144 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHHHHHHHHHHHH
Confidence            667777665       4555555554444443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=95.75  E-value=1.5  Score=42.60  Aligned_cols=124  Identities=14%  Similarity=-0.012  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      ...+...+...|+.++|..++....+.  .||.  --.++.+.+..|+.++|.+..++..++.-  -+...+-++=..+.
T Consensus       266 ~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~--~l~~l~~~l~~~~~~~al~~~e~~lk~~P--~~~~l~l~lgrl~~  339 (398)
T PRK10747        266 QVAMAEHLIECDDHDTAQQIILDGLKR--QYDE--RLVLLIPRLKTNNPEQLEKVLRQQIKQHG--DTPLLWSTLGQLLM  339 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCH--HHHHHHhhccCCChHHHHHHHHHHHhhCC--CCHHHHHHHHHHHH
Confidence            334566677888888888888777664  3333  12244555566888888888888876542  22234556667778


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      +.|++++|.+.|+...+.  .||. .+|..+-..+.+.|+.++|.+++.+-..
T Consensus       340 ~~~~~~~A~~~le~al~~--~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        340 KHGEWQEASLAFRAALKQ--RPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HCCCHHHHHHHHHHHHhc--CCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            888899999999888764  5885 7778888888889998888887765433

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

Probab=95.74  E-value=0.051  Score=38.56  Aligned_cols=51  Identities=14%  Similarity=0.094  Sum_probs=23.8

Q ss_pred             HcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHH
Q 047178          156 MDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEA  208 (287)
Q Consensus       156 K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~  208 (287)
                      +.|++++|.++|+++....-  -+.-.+-.|..+|.+.|++++|..+|..+..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p--~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNP--DNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTT--TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555555555555544321  1112233455555555555555555555544

...

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

Probab=95.73  E-value=0.33  Score=46.78  Aligned_cols=91  Identities=14%  Similarity=0.061  Sum_probs=72.9

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      ..+...|++++|.++|++....+-  .....|..+-.+|.+.|++++|+..+++....  .|+....|..+-.+|...|+
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P--~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDP--NNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCC
Confidence            345678999999999999987652  23346777888999999999999999998875  46555667888889999999


Q ss_pred             HHHHHHHHHHHhHHH
Q 047178          232 LEEKERVLEKYKDLF  246 (287)
Q Consensus       232 leeA~~ll~~m~~l~  246 (287)
                      +++|...|++...+.
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999998765553

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

Probab=95.69  E-value=0.37  Score=46.51  Aligned_cols=138  Identities=14%  Similarity=0.232  Sum_probs=97.1

Q ss_pred             CCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChh----HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChh
Q 047178          106 NFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMG----TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQ  181 (287)
Q Consensus       106 ~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~----TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~  181 (287)
                      .|....+..++..+...+.|++|+++-..+.+.|-.+.-+    -|.-|-..+.-..+++.|..++.+-...+-..+   
T Consensus       138 efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cv---  214 (389)
T COG2956         138 EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCV---  214 (389)
T ss_pred             hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccce---
Confidence            4666778889999999999999999999888755433211    123333333356788889999988766442211   


Q ss_pred             hHHHHH--HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          182 LCKSMI--AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       182 tyNsmI--sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                       =.+||  ..+...|+++.|++-++...+.+..-=. -+...|..+|...|+.+++...+..+.+-+.+
T Consensus       215 -RAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~-evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g  281 (389)
T COG2956         215 -RASIILGRVELAKGDYQKAVEALERVLEQNPEYLS-EVLEMLYECYAQLGKPAEGLNFLRRAMETNTG  281 (389)
T ss_pred             -ehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHH-HHHHHHHHHHHHhCCHHHHHHHHHHHHHccCC
Confidence             23344  3467899999999999998887632211 23577888999999999999998877766554

>TIGR00540 hemY_coli hemY protein

Probab=95.64  E-value=2.4  Score=41.28  Aligned_cols=125  Identities=6%  Similarity=-0.113  Sum_probs=63.2

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHH-HH---HHHHHH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCK-SM---IAIYYR  192 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyN-sm---IsgY~k  192 (287)
                      ..+-..|+++.|.+.++.+.+.. +-+..++-.+...|...|++++|.+++....+.+... +. .+. .-   -.++..
T Consensus       161 ~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~-~~-~~~~l~~~a~~~~l~  237 (409)
T TIGR00540       161 RILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD-DE-EFADLEQKAEIGLLD  237 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC-HH-HHHHHHHHHHHHHHH
Confidence            33444566666666666665543 1233455566666666666666666666666554321 11 111 00   111122


Q ss_pred             cCCHhHHHHHHHHHHHCCCC---CChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          193 NNMLERLIKLFKGLEAFDRK---PPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~---PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+..+++.+.+..+....-.   .| ...+..+...+...|+.++|..++++....
T Consensus       238 ~~~~~~~~~~L~~~~~~~p~~~~~~-~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~  292 (409)
T TIGR00540       238 EAMADEGIDGLLNWWKNQPRHRRHN-IALKIALAEHLIDCDDHDSAQEIIFDGLKK  292 (409)
T ss_pred             HHHHhcCHHHHHHHHHHCCHHHhCC-HHHHHHHHHHHHHCCChHHHHHHHHHHHhh
Confidence            22223233344444332210   13 355666667788888888888888765553

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.

>TIGR00540 hemY_coli hemY protein

Probab=95.62  E-value=2.2  Score=41.49  Aligned_cols=128  Identities=14%  Similarity=0.029  Sum_probs=86.3

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHH-HHHHHHH--HHcCCHHHHHHHHHHhhhCCCCCCCh--hhHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTC-GQLIRAL--DMDHRAEEAHKFWEKRIGIDLHSVPW--QLCKSMIA  188 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TY-naLI~~y--~K~G~leeA~~lF~eM~~~g~~sv~~--~tyNsmIs  188 (287)
                      .....+...|+.++|.+++....++.  ||...- -.++..+  ...++.+.+.+.+++..+..-  .+.  ....+|=.
T Consensus       268 ~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p--~~~~~~ll~sLg~  343 (409)
T TIGR00540       268 ALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVD--DKPKCCINRALGQ  343 (409)
T ss_pred             HHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCC--CChhHHHHHHHHH
Confidence            44456788888888888888877643  333210 0133332  335677888888877765432  122  23446667


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .|.+.|++++|.+.|+.-......||. ..+..+...+.+.|+.++|.+++.+-..+.
T Consensus       344 l~~~~~~~~~A~~~le~a~a~~~~p~~-~~~~~La~ll~~~g~~~~A~~~~~~~l~~~  400 (409)
T TIGR00540       344 LLMKHGEFIEAADAFKNVAACKEQLDA-NDLAMAADAFDQAGDKAEAAAMRQDSLGLM  400 (409)
T ss_pred             HHHHcccHHHHHHHHHHhHHhhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            788999999999999854444557885 668889999999999999999887654443

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.

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

Probab=95.58  E-value=0.04  Score=39.15  Aligned_cols=55  Identities=15%  Similarity=0.196  Sum_probs=42.0

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGID  174 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g  174 (287)
                      |.+.|++.+|+++|+.+.... +-+...+-.|..+|.+.|++++|..+|+++...+
T Consensus         1 ll~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    1 LLKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             ChhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            346788899999998887652 2256667778999999999999999999887654

...

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

Probab=95.55  E-value=0.55  Score=47.18  Aligned_cols=130  Identities=16%  Similarity=0.145  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHH-HHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTC-GQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TY-naLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      ..-+..++..+ ..++.++|+..+..++..  .||-.-| ....+-+.+.++.++|.+.|+++....-.. ++. +=.+=
T Consensus       307 aa~YG~A~~~~-~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~-~~l-~~~~a  381 (484)
T COG4783         307 AAQYGRALQTY-LAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNS-PLL-QLNLA  381 (484)
T ss_pred             HHHHHHHHHHH-HhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCc-cHH-HHHHH
Confidence            44556666654 467889999999987653  4554444 556788999999999999999998765321 332 33355


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+|.+.|++.+|+.++++-....  |+....|..|-.+|...|+..++..-..++..+
T Consensus       382 ~all~~g~~~eai~~L~~~~~~~--p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~  437 (484)
T COG4783         382 QALLKGGKPQEAIRILNRYLFND--PEDPNGWDLLAQAYAELGNRAEALLARAEGYAL  437 (484)
T ss_pred             HHHHhcCChHHHHHHHHHHhhcC--CCCchHHHHHHHHHHHhCchHHHHHHHHHHHHh
Confidence            78899999999999999877553  444577999999999999999988877665433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=95.53  E-value=0.52  Score=39.77  Aligned_cols=101  Identities=10%  Similarity=-0.002  Sum_probs=69.7

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC-hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP-WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      ..|..+...+-..|+.++|...|++.......+.. ..+|..|=..|.+.|++++|+..|......  .|+...++..+.
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~la  113 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHH
Confidence            45666777777889999999999987654221111 136777778889999999999999887754  454334455666


Q ss_pred             HHHH-------hcCCHHHHHHHHHHHhHHHh
Q 047178          224 DAYE-------VLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       224 ~a~~-------k~G~leeA~~ll~~m~~l~~  247 (287)
                      ..|.       ..|++++|...+++-...|.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  144 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQAAEYWK  144 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHHHHHHH
Confidence            5666       77888877777766555443

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

Probab=95.48  E-value=0.82  Score=51.19  Aligned_cols=126  Identities=19%  Similarity=0.176  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh----hhHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW----QLCKSMI  187 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~----~tyNsmI  187 (287)
                      +..++..|.+.+++++|.++++.|.++ ++-..-+|...++.+.+...-+.|++++.+-...    +|-    -.-.-.+
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~----lPk~eHv~~IskfA 1607 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS----LPKQEHVEFISKFA 1607 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh----cchhhhHHHHHHHH
Confidence            445666777788888888888888765 2245567888888888888777777777765432    121    0112222


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      ..=.++|..+.+..+|......--+-  .-.|+..|+.=.++|..+.++.||+...+
T Consensus      1608 qLEFk~GDaeRGRtlfEgll~ayPKR--tDlW~VYid~eik~~~~~~vR~lfeRvi~ 1662 (1710)
T KOG1070|consen 1608 QLEFKYGDAERGRTLFEGLLSAYPKR--TDLWSVYIDMEIKHGDIKYVRDLFERVIE 1662 (1710)
T ss_pred             HHHhhcCCchhhHHHHHHHHhhCccc--hhHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            33356777777777887776654322  22378888888888888888888875443

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

Probab=95.47  E-value=0.75  Score=42.83  Aligned_cols=121  Identities=14%  Similarity=0.045  Sum_probs=90.9

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      ....+.+.|++..|+.+|.+... .-.+|-.+||.+=-+|.+.|++++|..-|.+-.+-..  -....+|-|--.|.-.|
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA~~-l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~--~~p~~~nNlgms~~L~g  182 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKAAR-LAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAP--NEPSIANNLGMSLLLRG  182 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhc-cCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhcc--CCchhhhhHHHHHHHcC
Confidence            44556788899999988888654 4567888999999999999999999998888765322  12234666666778889


Q ss_pred             CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          195 MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      +.++|..++..-...+-...  ..-.-+.-+....|++++|+.+-.
T Consensus       183 d~~~A~~lll~a~l~~~ad~--~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         183 DLEDAETLLLPAYLSPAADS--RVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             CHHHHHHHHHHHHhCCCCch--HHHHHHHHHHhhcCChHHHHhhcc
Confidence            99999999998888776543  334555557888899999987753

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

Probab=95.45  E-value=0.27  Score=45.69  Aligned_cols=118  Identities=14%  Similarity=0.085  Sum_probs=87.0

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      +.-.|+-+...-+..... .....|...-++++....+.|++.+|..+|.+.....  +.+|-+||-+=-+|-+.|++++
T Consensus        76 ~~~~G~a~~~l~~~~~~~-~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~--p~d~~~~~~lgaaldq~Gr~~~  152 (257)
T COG5010          76 LYLRGDADSSLAVLQKSA-IAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA--PTDWEAWNLLGAALDQLGRFDE  152 (257)
T ss_pred             HHhcccccchHHHHhhhh-ccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC--CCChhhhhHHHHHHHHccChhH
Confidence            334444444444333311 1233454556668889999999999999999987754  4678899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      |..-|.+-.+.  .|++...+|-|.-.|.-.|+++.|+.++.+
T Consensus       153 Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~  193 (257)
T COG5010         153 ARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLP  193 (257)
T ss_pred             HHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHH
Confidence            99999876653  444445577777788889999999999864

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

Probab=95.44  E-value=0.39  Score=44.75  Aligned_cols=122  Identities=11%  Similarity=0.108  Sum_probs=81.5

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHH---HHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQ---LIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYna---LI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      +...|+.++|..++....+. .+.|...++.   +.......|..+.+.+.++... .. .+.....+..+-..|...|+
T Consensus        53 ~~~~g~~~~A~~~~~~~l~~-~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~-~~~~~~~~~~~a~~~~~~G~  129 (355)
T cd05804          53 AWIAGDLPKALALLEQLLDD-YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWA-PE-NPDYWYLLGMLAFGLEEAGQ  129 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHHH-CCCcHHHHHHhHHHHHhcccccCchhHHHHHhccC-cC-CCCcHHHHHHHHHHHHHcCC
Confidence            45668899999999887764 2334445442   2222234566677776665521 11 11112233444567789999


Q ss_pred             HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          196 LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +++|...|++..+..  |+....+..+-..|...|++++|...+++...+
T Consensus       130 ~~~A~~~~~~al~~~--p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~  177 (355)
T cd05804         130 YDRAEEAARRALELN--PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDT  177 (355)
T ss_pred             HHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhc
Confidence            999999999998754  554566788888999999999999998875554

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.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=95.41  E-value=0.5  Score=49.79  Aligned_cols=100  Identities=15%  Similarity=0.051  Sum_probs=83.7

Q ss_pred             CCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC-hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHH
Q 047178          140 QGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP-WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSI  218 (287)
Q Consensus       140 ~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~T  218 (287)
                      +..++..|--|-...-..|+.|+|+.+|+...+..   |+ ....-.+..++.+.+++++|+..++.....  .||....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~---Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~  156 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF---PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSARE  156 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC---CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHH
Confidence            44567778888888999999999999999998753   23 235677889999999999999999998765  5777777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          219 VQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       219 y~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      ...+-.++...|..++|..+|++...
T Consensus       157 ~~~~a~~l~~~g~~~~A~~~y~~~~~  182 (694)
T PRK15179        157 ILLEAKSWDEIGQSEQADACFERLSR  182 (694)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHh
Confidence            88888899999999999999987654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=95.37  E-value=1.3  Score=38.84  Aligned_cols=131  Identities=13%  Similarity=0.015  Sum_probs=88.6

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChh--hHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQ--LCK  184 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~--tyN  184 (287)
                      .+......+...|++++|...++......  |+    ..++..+-.+|-+.|+.++|...|+++.+..-.. +..  .+.
T Consensus        35 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~-~~~~~a~~  111 (235)
T TIGR03302        35 ELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNH-PDADYAYY  111 (235)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCC-CchHHHHH
Confidence            33445556778899999999998876632  32    2356778889999999999999999998754211 111  233


Q ss_pred             HHHHHHHHc--------CCHhHHHHHHHHHHHCCCCCChHHHHH-----------------HHHHHHHhcCCHHHHHHHH
Q 047178          185 SMIAIYYRN--------NMLERLIKLFKGLEAFDRKPPEKSIVQ-----------------RVADAYEVLGLLEEKERVL  239 (287)
Q Consensus       185 smIsgY~k~--------G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~-----------------sLI~a~~k~G~leeA~~ll  239 (287)
                      .+=.+|.+.        |++++|.+.|......  .|+....+.                 .+-..|.+.|+.++|...+
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~  189 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRF  189 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            333344443        7899999999999865  344322211                 2345677889999999888


Q ss_pred             HHHhHHH
Q 047178          240 EKYKDLF  246 (287)
Q Consensus       240 ~~m~~l~  246 (287)
                      .+....+
T Consensus       190 ~~al~~~  196 (235)
T TIGR03302       190 ETVVENY  196 (235)
T ss_pred             HHHHHHC
Confidence            7765543

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).

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

Probab=95.23  E-value=0.041  Score=41.25  Aligned_cols=81  Identities=14%  Similarity=0.120  Sum_probs=55.4

Q ss_pred             ccchhhHHHHHHHHHHCCCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHH
Q 047178          122 EQQWHRVVQVIKWMLSKGQG-STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLI  200 (287)
Q Consensus       122 ~~~~~~A~qv~~~M~~~G~~-pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~  200 (287)
                      .++++.|+.+++.+.+..-. ++...+-.|-.+|.+.|+.++|..++++ ...+.. .+...| .+-.+|.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~-l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHY-LLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHH-HHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHH-HHHHHHHHhCCHHHHH
Confidence            46788999999998875432 2334444489999999999999999988 322211 112223 3356688999999999


Q ss_pred             HHHHH
Q 047178          201 KLFKG  205 (287)
Q Consensus       201 ~Lf~e  205 (287)
                      +.|.+
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            99875

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

Probab=95.23  E-value=0.1  Score=42.90  Aligned_cols=68  Identities=12%  Similarity=0.197  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHH-----HCCCCCCh
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLE-----AFDRKPPE  215 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~-----~~Gi~PD~  215 (287)
                      +...++..+...|+.++|..+...+...+  |.+...|-.+|.+|...|+..+|++.|..+.     +.|+.|..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d--P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD--PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            45667778888999999999999998765  2455689999999999999999999999884     56999984

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

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

Probab=95.23  E-value=1.4  Score=42.72  Aligned_cols=121  Identities=12%  Similarity=0.126  Sum_probs=83.3

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHH-------HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCG-------QLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYn-------aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      +=+.+...|..++|+.+|.-+.++   ||. |++       .|=.=|...|-+|.|+.+|..+.+.+-...  -.---|+
T Consensus        75 LGnLfRsRGEvDRAIRiHQ~L~~s---pdl-T~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~--~AlqqLl  148 (389)
T COG2956          75 LGNLFRSRGEVDRAIRIHQTLLES---PDL-TFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAE--GALQQLL  148 (389)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcC---CCC-chHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhH--HHHHHHH
Confidence            334567889999999999998765   663 443       345557889999999999999987543222  2456789


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChH---HHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEK---SIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~---~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      ..|-+...+++|++.-.++...|-.+..+   -.|.-|-..+--..+++.|..++.+
T Consensus       149 ~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         149 NIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            99999999999999999998877554421   1223333333334455555555543

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

Probab=95.21  E-value=0.13  Score=36.34  Aligned_cols=55  Identities=16%  Similarity=0.129  Sum_probs=34.4

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHH
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEA  208 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~  208 (287)
                      ..|.+.|++++|.++|++....+-  -..-.|..+=..|.+.|++++|..+|++..+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P--~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDP--DNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCST--THHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            456677777777777777766541  1223455566667777777777777776654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.18  E-value=0.76  Score=39.81  Aligned_cols=93  Identities=8%  Similarity=-0.071  Sum_probs=70.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhc
Q 047178          150 LIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVL  229 (287)
Q Consensus       150 LI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~  229 (287)
                      +=.-+...|++++|+.+|+-...-+.. .. ..|-.|=.+|-..|++++|+..|.......  ||....|--+-.++...
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~-~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~--~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIYDAW-SF-DYWFRLGECCQAQKHWGEAIYAYGRAAQIK--IDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcc-cH-HHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCchHHHHHHHHHHHc
Confidence            334467899999999999988766531 12 234456667778999999999999887765  55556666667789999


Q ss_pred             CCHHHHHHHHHHHhHHH
Q 047178          230 GLLEEKERVLEKYKDLF  246 (287)
Q Consensus       230 G~leeA~~ll~~m~~l~  246 (287)
                      |+.+.|++-|+.....-
T Consensus       117 G~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        117 DNVCYAIKALKAVVRIC  133 (157)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999998766544

>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=95.14  E-value=1.1  Score=45.60  Aligned_cols=130  Identities=14%  Similarity=0.094  Sum_probs=99.2

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCCh-hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTM-GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~-~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      +...+...|++++|+++++.-++  +.|+. -.|.+--..|-+.|++++|.+..++-...+.  .+.+.-|--+..+-|+
T Consensus       200 lAqhyd~~g~~~~Al~~Id~aI~--htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~--~DRyiNsK~aKy~LRa  275 (517)
T PF12569_consen  200 LAQHYDYLGDYEKALEYIDKAIE--HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL--ADRYINSKCAKYLLRA  275 (517)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh--hhHHHHHHHHHHHHHC
Confidence            34456789999999999998766  45663 4577778889999999999999999887775  3555556666777799


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHH--------HHHHHHHHHhcCCHHHHHHHHHHHhHHHhhh
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSI--------VQRVADAYEVLGLLEEKERVLEKYKDLFTEK  249 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~T--------y~sLI~a~~k~G~leeA~~ll~~m~~l~~~~  249 (287)
                      |++++|.+++..--..+..|-. -.        ..-.-.+|.+.|++..|++-|..+...|..+
T Consensus       276 ~~~e~A~~~~~~Ftr~~~~~~~-~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~  338 (517)
T PF12569_consen  276 GRIEEAEKTASLFTREDVDPLS-NLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDF  338 (517)
T ss_pred             CCHHHHHHHHHhhcCCCCCccc-CHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            9999999999888777764431 11        1334568999999999998888777766643

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 [], [].

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

Probab=95.10  E-value=0.064  Score=39.31  Aligned_cols=65  Identities=15%  Similarity=0.295  Sum_probs=41.9

Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHHC----C-CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEAF----D-RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~~----G-i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +|+.|=..|...|++++|+..|++...-    | -.|+.+.++..+-..|...|++++|++.+++..+++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i~   76 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDIF   76 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            4666666677777777777777665432    2 113334566777777888888888888887766654

...

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

Probab=94.90  E-value=0.2  Score=46.57  Aligned_cols=95  Identities=16%  Similarity=0.125  Sum_probs=68.2

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVAD  224 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~  224 (287)
                      .+|-.+++..-+.+.++.|+.+|.+-...+-.....+...++|- |...+..+.|..+|+..... + |+....+..-|+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~-f-~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-F-PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-H-TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-C-CCCHHHHHHHHH
Confidence            57899999999999999999999998754421112233444443 33356677799999988764 3 333466788889


Q ss_pred             HHHhcCCHHHHHHHHHHH
Q 047178          225 AYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       225 a~~k~G~leeA~~ll~~m  242 (287)
                      -+.+.|+.+.|+.||+..
T Consensus        79 ~l~~~~d~~~aR~lfer~   96 (280)
T PF05843_consen   79 FLIKLNDINNARALFERA   96 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHH
Confidence            999999999999999853

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=94.69  E-value=0.2  Score=52.93  Aligned_cols=112  Identities=19%  Similarity=0.282  Sum_probs=78.7

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      .+++..--..++|.+|+.+++.+..+..  -..-|.-+-+-|+..|.++-|+++|-+-   |+       ++--|..|.+
T Consensus       736 ~kaieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---~~-------~~dai~my~k  803 (1636)
T KOG3616|consen  736 IKAIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---DL-------FKDAIDMYGK  803 (1636)
T ss_pred             HHHHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---ch-------hHHHHHHHhc
Confidence            3555556667889999999887765422  2234777788899999999999999763   32       6778999999


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVL  239 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll  239 (287)
                      +|++++|++|-.+.  .|-... .+.|-+-..-+-+.|++.+|++++
T Consensus       804 ~~kw~da~kla~e~--~~~e~t-~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  804 AGKWEDAFKLAEEC--HGPEAT-ISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             cccHHHHHHHHHHh--cCchhH-HHHHHHhHHhHHhhcchhhhhhee
Confidence            99999999986543  333322 344555455566677777777664

>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=94.67  E-value=0.069  Score=44.34  Aligned_cols=88  Identities=17%  Similarity=0.151  Sum_probs=59.7

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC---------CC-----CCChhhHHHHHHHHHHcCCHhHHHHHHHHHH-
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGID---------LH-----SVPWQLCKSMIAIYYRNNMLERLIKLFKGLE-  207 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g---------~~-----sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~-  207 (287)
                      |..++.++|-++++.|+++..+.+.+..=.-+         +.     .|+..+-.+++.+|+.+|++..|+++.+... 
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            45688999999999999999998887642111         10     0122456777888888888888888777664 


Q ss_pred             HCCCCCChHHHHHHHHHHHHhcCC
Q 047178          208 AFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       208 ~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      ..++.-+ ..++..|+.-+...-+
T Consensus        81 ~Y~I~i~-~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   81 KYPIPIP-KEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HcCCCCC-HHHHHHHHHHHHHhcC
Confidence            3466555 3667777765555444

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

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=94.66  E-value=1.2  Score=37.51  Aligned_cols=113  Identities=10%  Similarity=0.004  Sum_probs=73.6

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCC--ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH-
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGS--TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY-  191 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~p--d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~-  191 (287)
                      ....+...+++++|+..|.......-.+  ...+|..|=..|.+.|+.++|...|++.....-  ....+++.+-..|. 
T Consensus        41 ~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~--~~~~~~~~la~i~~~  118 (168)
T CHL00033         41 DGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNP--FLPQALNNMAVICHY  118 (168)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--CcHHHHHHHHHHHHH
Confidence            3444556788999999888876543222  234788888889999999999999999876431  12235677777777 


Q ss_pred             ------HcCCHhHHHHHHHHHH-----HCCCCCChHHHHHHHHHHHHhcCCH
Q 047178          192 ------RNNMLERLIKLFKGLE-----AFDRKPPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       192 ------k~G~~eeA~~Lf~eM~-----~~Gi~PD~~~Ty~sLI~a~~k~G~l  232 (287)
                            +.|++++|...|.+=.     ..|..|+.   +..+...+...|.+
T Consensus       119 ~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~---~~~~~~~~~~~~~~  167 (168)
T CHL00033        119 RGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGN---YIEAQNWLKITGRF  167 (168)
T ss_pred             hhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCccc---HHHHHHHHHHhcCC
Confidence                  7888886666665432     23455653   34444445555543

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

Probab=94.56  E-value=0.89  Score=47.45  Aligned_cols=124  Identities=15%  Similarity=0.191  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh--hhHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW--QLCKSMIA  188 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~--~tyNsmIs  188 (287)
                      .++.+-..|-..|++.+|.+.+..-+.. +....-+-|-|=+.|...|++++|..+|..-.+-.    |.  -.+|-|-.
T Consensus       322 Ay~NlanALkd~G~V~ea~~cYnkaL~l-~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~----p~~aaa~nNLa~  396 (966)
T KOG4626|consen  322 AYNNLANALKDKGSVTEAVDCYNKALRL-CPNHADAMNNLGNIYREQGKIEEATRLYLKALEVF----PEFAAAHNNLAS  396 (966)
T ss_pred             HHhHHHHHHHhccchHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC----hhhhhhhhhHHH
Confidence            3444555666777888887777665542 22233456778888888888888888888776521    22  24788888


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      .|-+.|++++|+.-+++-.  .+.|+-+-.|+-+-..|-..|+++.|.+...+
T Consensus       397 i~kqqgnl~~Ai~~Ykeal--rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~r  447 (966)
T KOG4626|consen  397 IYKQQGNLDDAIMCYKEAL--RIKPTFADALSNMGNTYKEMGDVSAAIQCYTR  447 (966)
T ss_pred             HHHhcccHHHHHHHHHHHH--hcCchHHHHHHhcchHHHHhhhHHHHHHHHHH
Confidence            8999999999999888755  36776555677777777788888888877654

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

Probab=94.48  E-value=0.24  Score=34.94  Aligned_cols=56  Identities=16%  Similarity=0.152  Sum_probs=34.5

Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..|.+.|++++|.+.|++.....  |+..-.+..+-..+...|++++|..++++...+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34566677777777777766654  554455555666666677777777666665443

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

Probab=94.43  E-value=0.59  Score=48.39  Aligned_cols=85  Identities=19%  Similarity=0.234  Sum_probs=43.2

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      ..|-+.|+.|+|..+|++-...+-. .|..-|. .+..+.-.++.++|+..|+++++  +.||+.+.|-.+...|-+.|+
T Consensus       531 ~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~-~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~  606 (638)
T KOG1126|consen  531 RIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYH-RASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGN  606 (638)
T ss_pred             HHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHH-HHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHcc
Confidence            3344555666666666654433321 1111233 34445555566666666666554  355555555555555666666


Q ss_pred             HHHHHHHHH
Q 047178          232 LEEKERVLE  240 (287)
Q Consensus       232 leeA~~ll~  240 (287)
                      .+.|..-|.
T Consensus       607 ~~~Al~~f~  615 (638)
T KOG1126|consen  607 TDLALLHFS  615 (638)
T ss_pred             chHHHHhhH
Confidence            555554443

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

Probab=94.35  E-value=2.5  Score=34.84  Aligned_cols=89  Identities=10%  Similarity=0.043  Sum_probs=66.2

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCCh--hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTM--GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~--~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      .+-..+...|++++|...|++.....-.++.  ...-.|-..+...|+.++|..+++.......   ....+..+=+.|.
T Consensus        53 ~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~---~~~~~~~~Gdi~~  129 (145)
T PF09976_consen   53 QLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAF---KALAAELLGDIYL  129 (145)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcch---HHHHHHHHHHHHH
Confidence            3445678889999999999999987633332  2344467778899999999999977543322   1134566667899


Q ss_pred             HcCCHhHHHHHHHH
Q 047178          192 RNNMLERLIKLFKG  205 (287)
Q Consensus       192 k~G~~eeA~~Lf~e  205 (287)
                      +.|+.++|...|+.
T Consensus       130 ~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  130 AQGDYDEARAAYQK  143 (145)
T ss_pred             HCCCHHHHHHHHHH
Confidence            99999999999874

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

Probab=94.12  E-value=1.4  Score=38.85  Aligned_cols=108  Identities=9%  Similarity=0.088  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHH-HHcCC--HHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRAL-DMDHR--AEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y-~K~G~--leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      +..+-..+...+++++|++.++...+.. +.|...+..+-.++ ...|+  .++|.++|++....+-  .+...+..+=.
T Consensus        76 w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP--~~~~al~~LA~  152 (198)
T PRK10370         76 WALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA--NEVTALMLLAS  152 (198)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC--CChhHHHHHHH
Confidence            3344456678899999999998877643 23566777777764 67787  5999999999988763  23456888888


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADA  225 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a  225 (287)
                      .|.+.|++++|+..|+.+.+.. .||+ .-+. +|.+
T Consensus       153 ~~~~~g~~~~Ai~~~~~aL~l~-~~~~-~r~~-~i~~  186 (198)
T PRK10370        153 DAFMQADYAQAIELWQKVLDLN-SPRV-NRTQ-LVES  186 (198)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-CCCc-cHHH-HHHH
Confidence            9999999999999999998754 4553 4333 3344

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

Probab=94.06  E-value=0.31  Score=52.47  Aligned_cols=120  Identities=14%  Similarity=0.136  Sum_probs=90.5

Q ss_pred             ccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHH
Q 047178          122 EQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIK  201 (287)
Q Consensus       122 ~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~  201 (287)
                      .+...+|+++|...+.. .+.|+..-|-+=-.|+..|++++|..+|.+..+....-.+  +|=-+=++|.-.|++-.|++
T Consensus       625 kk~~~KAlq~y~kvL~~-dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~d--v~lNlah~~~e~~qy~~AIq  701 (1018)
T KOG2002|consen  625 KKHQEKALQLYGKVLRN-DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFED--VWLNLAHCYVEQGQYRLAIQ  701 (1018)
T ss_pred             HHHHHHHHHHHHHHHhc-CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCc--eeeeHHHHHHHHHHHHHHHH
Confidence            34577889999887763 3457777787877899999999999999999874321112  25557899999999999999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          202 LFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       202 Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      +|+.-...=.+-|.......|-.++...|.+.+|.+.+....+
T Consensus       702 mYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~  744 (1018)
T KOG2002|consen  702 MYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH  744 (1018)
T ss_pred             HHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            9998765544333345678888899999999999987654333

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=93.76  E-value=1.2  Score=44.74  Aligned_cols=63  Identities=6%  Similarity=-0.060  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCCh----hHHHHHHHHHHHcCCHHHHHHHHHHhhhC
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTM----GTCGQLIRALDMDHRAEEAHKFWEKRIGI  173 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~----~TYnaLI~~y~K~G~leeA~~lF~eM~~~  173 (287)
                      ...+...=..|.+.|++++|+..|+.-++.  .||.    .+|..+-.+|.+.|++++|.+.|++..+.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445555566778889999999988886653  4653    35888899999999999999999888764

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=93.28  E-value=1.4  Score=40.87  Aligned_cols=98  Identities=10%  Similarity=0.077  Sum_probs=70.0

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC--ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHC----CCCCChHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV--PWQLCKSMIAIYYRNNMLERLIKLFKGLEAF----DRKPPEKSI  218 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv--~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~~T  218 (287)
                      ..|..-+.-+.+.|+.++|...|+......-.+.  + ..+--+-..|...|++++|...|..+...    ...||.   
T Consensus       144 ~~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        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQP-NANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA---  219 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH---
Confidence            4577777777788999999999999987542111  1 13445667889999999999999999753    233442   


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          219 VQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       219 y~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +-.+...|...|+.++|..++++....|
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            2334456778999999999988766554

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

Probab=92.98  E-value=1.5  Score=41.29  Aligned_cols=109  Identities=16%  Similarity=0.071  Sum_probs=76.6

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHH----HHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQ----LIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYna----LI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      +..+-+..+++-|.+.++.|.+-   -+-.|-+-    .|+...-.+.+.+|.-+|++|.++-.  +++-+-|-+-.+..
T Consensus       144 VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~--~T~~llnG~Av~~l  218 (299)
T KOG3081|consen  144 VQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTP--PTPLLLNGQAVCHL  218 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccC--CChHHHccHHHHHH
Confidence            34466777888888888998763   33345554    44444456689999999999988642  45567788888888


Q ss_pred             HcCCHhHHHHHHHHHHHCCCC-CChHHHHHHHHHHHHhcCCH
Q 047178          192 RNNMLERLIKLFKGLEAFDRK-PPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~-PD~~~Ty~sLI~a~~k~G~l  232 (287)
                      ..|++++|..++.+-....-. |+  +.-|.++.+. ..|.-
T Consensus       219 ~~~~~eeAe~lL~eaL~kd~~dpe--tL~Nliv~a~-~~Gkd  257 (299)
T KOG3081|consen  219 QLGRYEEAESLLEEALDKDAKDPE--TLANLIVLAL-HLGKD  257 (299)
T ss_pred             HhcCHHHHHHHHHHHHhccCCCHH--HHHHHHHHHH-HhCCC
Confidence            999999999999999877644 33  3345555443 44543

>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=92.90  E-value=0.29  Score=44.73  Aligned_cols=67  Identities=15%  Similarity=0.156  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHccCCCCHHHHHHHHHHHHHc----------------cchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH
Q 047178           93 VYGTLDAWVAWEQNFPVGSLKKALLALEKE----------------QQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM  156 (287)
Q Consensus        93 v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~----------------~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K  156 (287)
                      +|.+|..+.+.+..-.+..|+.+++.+=|.                .+-+.|++|++.|...|+.||..|+..||+.|++
T Consensus        71 I~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~  150 (228)
T PF06239_consen   71 IYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGR  150 (228)
T ss_pred             HHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcc
Confidence            556666666666666666666666664331                2345567777777777777777777777777766


Q ss_pred             cCC
Q 047178          157 DHR  159 (287)
Q Consensus       157 ~G~  159 (287)
                      .+.
T Consensus       151 ~s~  153 (228)
T PF06239_consen  151 KSH  153 (228)
T ss_pred             ccH
Confidence            554

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=92.89  E-value=0.6  Score=33.40  Aligned_cols=57  Identities=12%  Similarity=0.070  Sum_probs=40.5

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      ..|.+.+++++|.++++.+...+-  .+...|-..=..|.+.|++++|.+.|+...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p--~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDP--DDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCc--ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            467778888888888888877542  233445556667788888888888888877543

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

Probab=92.89  E-value=4.6  Score=41.60  Aligned_cols=131  Identities=11%  Similarity=0.041  Sum_probs=101.0

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHH-hhhCCCCCCChhhHHHHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEK-RIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~e-M~~~g~~sv~~~tyNsmIsgY  190 (287)
                      ...++...+..-..-|..+|....+.+..+ +++++++||.-||. ++-+-|.++|+- |...+-  .|. .-+.-++-+
T Consensus       370 ~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~d--~p~-yv~~YldfL  445 (656)
T KOG1914|consen  370 CQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFGD--SPE-YVLKYLDFL  445 (656)
T ss_pred             hHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcCC--ChH-HHHHHHHHH
Confidence            345555566667778889999998888777 89999999999995 556889999995 443332  232 335567788


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEK-SIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~-~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ...|.-..|..||+.....++.||.. -.|..+|+-=.+.|++..+.+|-+.+.+-|.
T Consensus       446 ~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             HHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            88999999999999999998777631 4689999888889999999988776666555

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

Probab=92.72  E-value=1.1  Score=41.35  Aligned_cols=109  Identities=13%  Similarity=0.112  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHhhh----CCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCC-----CChH
Q 047178          147 CGQLIRALDMD-HRAEEAHKFWEKRIG----IDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRK-----PPEK  216 (287)
Q Consensus       147 YnaLI~~y~K~-G~leeA~~lF~eM~~----~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~-----PD~~  216 (287)
                      +.-+=..|-.. |+.++|.+.|.+-.+    .+....-...+.-+...|.+.|++++|.++|++....-..     ++..
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~  196 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAK  196 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHH
Confidence            34444455556 788888888877542    2210000135777888999999999999999998764332     2211


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhhcccccc
Q 047178          217 -SIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRSNKK  256 (287)
Q Consensus       217 -~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~~~~~~~  256 (287)
                       ..++.+| .+-..|+...|.+.++++......|...+..+
T Consensus       197 ~~~l~a~l-~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  197 EYFLKAIL-CHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHH-HHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHH-HHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence             2234444 56667899999999999888777776544433

>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=92.67  E-value=2.6  Score=41.59  Aligned_cols=90  Identities=8%  Similarity=-0.019  Sum_probs=68.6

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh-hhHHHHHHHHHHc
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW-QLCKSMIAIYYRN  193 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~-~tyNsmIsgY~k~  193 (287)
                      +...+...++-.+|++++...+.. ..-|......-...|.+.++.+.|..+..++....   |+. .+|..|..+|.+.
T Consensus       206 LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~ls---P~~f~~W~~La~~Yi~~  281 (395)
T PF09295_consen  206 LARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKKKYELALEIAKKAVELS---PSEFETWYQLAECYIQL  281 (395)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---chhHHHHHHHHHHHHhc
Confidence            344444456677888888887753 22355555666777889999999999999998752   333 4899999999999


Q ss_pred             CCHhHHHHHHHHHHH
Q 047178          194 NMLERLIKLFKGLEA  208 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~  208 (287)
                      |++++|+-.+..|..
T Consensus       282 ~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  282 GDFENALLALNSCPM  296 (395)
T ss_pred             CCHHHHHHHHhcCcC
Confidence            999999999988753

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

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

Probab=92.49  E-value=0.34  Score=35.38  Aligned_cols=62  Identities=23%  Similarity=0.338  Sum_probs=46.4

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhC--CCC-CCC--hhhHHHHHHHHHHcCCHhHHHHHHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGI--DLH-SVP--WQLCKSMIAIYYRNNMLERLIKLFKGL  206 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~--g~~-sv~--~~tyNsmIsgY~k~G~~eeA~~Lf~eM  206 (287)
                      .+|+.|=..|...|+.++|...|++....  ... ..+  ..+|+.|=..|...|++++|++.|++-
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            46788888899999999999999987532  010 011  246888899999999999999999864

...

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

Probab=92.42  E-value=2.3  Score=44.58  Aligned_cols=117  Identities=15%  Similarity=0.144  Sum_probs=76.1

Q ss_pred             HHccchhhHHHHHHHHHHCCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          120 EKEQQWHRVVQVIKWMLSKGQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       120 ~k~~~~~~A~qv~~~M~~~G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      ...|..+-|+..++.-++.  .|+ ...||-|-+++-..|++.||+..+.+-..-.-. -+ -.-|-|=+.|..-|++++
T Consensus       297 yeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~-ha-dam~NLgni~~E~~~~e~  372 (966)
T KOG4626|consen  297 YEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPN-HA-DAMNNLGNIYREQGKIEE  372 (966)
T ss_pred             eccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCc-cH-HHHHHHHHHHHHhccchH
Confidence            3456666666666665542  333 346888888888888888888888776543210 01 124447778888888888


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      |..||..-.+  +.|+-...+|-|-..|-..|++++|..-+.+.
T Consensus       373 A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykea  414 (966)
T KOG4626|consen  373 ATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEA  414 (966)
T ss_pred             HHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHH
Confidence            8888876443  45554455677777788888888887766543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.34  E-value=3  Score=39.53  Aligned_cols=130  Identities=16%  Similarity=0.126  Sum_probs=85.4

Q ss_pred             cchhhHHHHHHHHHHCCC---CCChhHHHHHHHHHHH--cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC--
Q 047178          123 QQWHRVVQVIKWMLSKGQ---GSTMGTCGQLIRALDM--DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM--  195 (287)
Q Consensus       123 ~~~~~A~qv~~~M~~~G~---~pd~~TYnaLI~~y~K--~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~--  195 (287)
                      ....+|..+++.|.+.-.   .++-+++.+|+.+=..  .-.++.++..|+.+...|+..-+..-+-+-|-+++..-.  
T Consensus       117 ~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~  196 (297)
T PF13170_consen  117 EIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQE  196 (297)
T ss_pred             HHHHHHHHHHHHHHHhCccccCccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchH
Confidence            456778999999987643   3566788888776221  113467788888888877754333333444444443322  


Q ss_pred             -HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhhcccccc
Q 047178          196 -LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRSNKK  256 (287)
Q Consensus       196 -~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~~~~~~~  256 (287)
                       ..++.++++.+.+.|+++-. ..|. +|..++-.+.-+  .++.+.+.++.+.+|+.+.++
T Consensus       197 ~v~r~~~l~~~l~~~~~kik~-~~yp-~lGlLall~~~~--~~~~~~i~ev~~~L~~~k~~~  254 (297)
T PF13170_consen  197 KVARVIELYNALKKNGVKIKY-MHYP-TLGLLALLEDPE--EKIVEEIKEVIDELKEQKGFG  254 (297)
T ss_pred             HHHHHHHHHHHHHHcCCcccc-cccc-HHHHHHhcCCch--HHHHHHHHHHHHHHhhCcccC
Confidence             45789999999999999874 4444 444555555432  256677888888899888766

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.26  E-value=5.2  Score=32.50  Aligned_cols=114  Identities=11%  Similarity=0.088  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      .....++..|.+.+.......+++++...|. .+...+|.||..|++... ++..+.|..  ...     .+....++..
T Consensus         8 ~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~--~~~-----~yd~~~~~~~   78 (140)
T smart00299        8 IDVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN--KSN-----HYDIEKVGKL   78 (140)
T ss_pred             CCHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh--ccc-----cCCHHHHHHH
Confidence            3456778888888888899999999888874 677789999999998754 444455552  111     1123457777


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      +.+.+.+++|.-++..|..   ..+ +  ...+|.   ..++++.|.+.+.+
T Consensus        79 c~~~~l~~~~~~l~~k~~~---~~~-A--l~~~l~---~~~d~~~a~~~~~~  121 (140)
T smart00299       79 CEKAKLYEEAVELYKKDGN---FKD-A--IVTLIE---HLGNYEKAIEYFVK  121 (140)
T ss_pred             HHHcCcHHHHHHHHHhhcC---HHH-H--HHHHHH---cccCHHHHHHHHHh
Confidence            7777888888888776532   112 1  122222   22667777776654

>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=92.25  E-value=0.97  Score=31.97  Aligned_cols=59  Identities=24%  Similarity=0.271  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcC-CHHHHHHHHHHHh
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLG-LLEEKERVLEKYK  243 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G-~leeA~~ll~~m~  243 (287)
                      |..+=..|.+.|++++|+..|.+-.+.  -|+....|..+-.+|...| +.++|.+.+++..
T Consensus         6 ~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    6 WYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            444444555555555555555555543  2444444455555555555 4555555554433

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=92.18  E-value=2.2  Score=35.12  Aligned_cols=103  Identities=14%  Similarity=0.041  Sum_probs=60.7

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCCh--hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh--hhHHHHHHHHHHcC
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTM--GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW--QLCKSMIAIYYRNN  194 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~--~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~--~tyNsmIsgY~k~G  194 (287)
                      +...|+.++|+.++..-...|...+.  ..+-.|=..|..-|+.++|..+|++.....- ..++  ...-.+--++...|
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p-~~~~~~~l~~f~Al~L~~~g   89 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFP-DDELNAALRVFLALALYNLG   89 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CccccHHHHHHHHHHHHHCC
Confidence            44567778888888887777765442  2344455667788888888888887765311 0011  11111223567778


Q ss_pred             CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHH
Q 047178          195 MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYE  227 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~  227 (287)
                      +.++|++++-.-..    ++ ..-|.--|..|+
T Consensus        90 r~~eAl~~~l~~la----~~-~~~y~ra~~~ya  117 (120)
T PF12688_consen   90 RPKEALEWLLEALA----ET-LPRYRRAIRFYA  117 (120)
T ss_pred             CHHHHHHHHHHHHH----HH-HHHHHHHHHHHH
Confidence            88888887765443    22 233555554443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=92.11  E-value=3.8  Score=38.09  Aligned_cols=101  Identities=7%  Similarity=-0.014  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCCh----hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCC--CChhhH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTM----GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHS--VPWQLC  183 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~----~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~s--v~~~ty  183 (287)
                      ..+..++..+.+.+++++|+..|+.+++.-  |+.    .++--|-..|...|+.++|...|..+....-.+  .+. .+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~d-Al  220 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAAD-AM  220 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhH-HH
Confidence            456667776677799999999999988752  432    355667788899999999999999998643211  111 23


Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHHCCCCCCh
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      =-+...|...|+.++|...|+.....  .|+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~--yP~s  250 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK--YPGT  250 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH--CcCC
Confidence            33566778999999999999988765  3653

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.84  E-value=1.5  Score=42.42  Aligned_cols=104  Identities=10%  Similarity=0.030  Sum_probs=76.2

Q ss_pred             HCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCC-CCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCCh
Q 047178          137 SKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDL-HSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       137 ~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~-~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      ..|......|-..+|+.-....++++|+..+.++...-- --++..+--++|. +|-.=++++++-++..=...|+.||.
T Consensus        57 ~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~ir-lllky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   57 ERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIR-LLLKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             hcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHH-HHHccChHHHHHHHhCcchhccccch
Confidence            456666777788888888888899999999998864210 0011111112222 33344788999999999999999995


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          216 KSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       216 ~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                       +|++.||+.+-+.++..+|.++.-.|
T Consensus       136 -f~~c~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  136 -FTFCLLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             -hhHHHHHHHHHhcccHHHHHHHHHHH
Confidence             99999999999999999998876543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=91.58  E-value=3.9  Score=33.57  Aligned_cols=87  Identities=17%  Similarity=0.088  Sum_probs=61.4

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCC-hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCC---hHHHHHHHHHHHH
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVP-WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPP---EKSIVQRVADAYE  227 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD---~~~Ty~sLI~a~~  227 (287)
                      .++-..|+.++|..+|++-...|+.... ...+=.+=+.|...|++++|+.+|++....-  ||   .......+--++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            3566789999999999999888763211 1234446678999999999999999887642  44   1111122334677


Q ss_pred             hcCCHHHHHHHHH
Q 047178          228 VLGLLEEKERVLE  240 (287)
Q Consensus       228 k~G~leeA~~ll~  240 (287)
                      ..|+.++|...+-
T Consensus        87 ~~gr~~eAl~~~l   99 (120)
T PF12688_consen   87 NLGRPKEALEWLL   99 (120)
T ss_pred             HCCCHHHHHHHHH
Confidence            8999999998764

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

Probab=91.25  E-value=9.7  Score=35.28  Aligned_cols=128  Identities=15%  Similarity=0.071  Sum_probs=68.7

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChh-HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMG-TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~-TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      .-..+.+.|+.+.|.+-+..-++.  .|+-. +-|--=..||..|+.++|...|++-...-.-.-+..+|.-+--+..+.
T Consensus        75 ~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~  152 (250)
T COG3063          75 RAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKA  152 (250)
T ss_pred             HHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhc
Confidence            333456666666666666655442  23211 112122235667777777777776543211111223455555555567


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |+++.|.+.|++-.+..-.-+  .+.-.+-.-..+.|+.-.|...++.+..-.
T Consensus       153 gq~~~A~~~l~raL~~dp~~~--~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~  203 (250)
T COG3063         153 GQFDQAEEYLKRALELDPQFP--PALLELARLHYKAGDYAPARLYLERYQQRG  203 (250)
T ss_pred             CCchhHHHHHHHHHHhCcCCC--hHHHHHHHHHHhcccchHHHHHHHHHHhcc
Confidence            777777777776655443222  234555566666677777777666665543

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

Probab=91.18  E-value=2.5  Score=43.87  Aligned_cols=101  Identities=17%  Similarity=0.106  Sum_probs=68.1

Q ss_pred             CChhHHHHH---HHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHH
Q 047178          142 STMGTCGQL---IRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSI  218 (287)
Q Consensus       142 pd~~TYnaL---I~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~T  218 (287)
                      .|..-||+.   =-.|.|.++.|.|+-.|.+-.+-+  +...+.-..+-..|-+.|+.|+|+.+|++-....-+ |...-
T Consensus       484 ~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN--P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~  560 (638)
T KOG1126|consen  484 VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN--PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCK  560 (638)
T ss_pred             CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC--ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhH
Confidence            455556664   334779999999999999887654  222233333445677899999999999986654432 11122


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          219 VQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       219 y~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |.. ...+..+++.++|+++|++.+.+.
T Consensus       561 ~~~-~~il~~~~~~~eal~~LEeLk~~v  587 (638)
T KOG1126|consen  561 YHR-ASILFSLGRYVEALQELEELKELV  587 (638)
T ss_pred             HHH-HHHHHhhcchHHHHHHHHHHHHhC
Confidence            322 335677899999999999988765

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

Probab=91.16  E-value=13  Score=34.55  Aligned_cols=116  Identities=9%  Similarity=0.031  Sum_probs=72.3

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHh
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLE  197 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~e  197 (287)
                      +-..|+...|..-++.-++  +.| +..+|.++-..|-+.|..+.|.+-|++-....-..-+ | -|--=.-+|..|+++
T Consensus        45 YL~~gd~~~A~~nlekAL~--~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~Gd-V-LNNYG~FLC~qg~~~  120 (250)
T COG3063          45 YLQQGDYAQAKKNLEKALE--HDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGD-V-LNNYGAFLCAQGRPE  120 (250)
T ss_pred             HHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccc-h-hhhhhHHHHhCCChH
Confidence            4556777777776666655  234 3456778888888888888888888876543211001 1 122222458888888


Q ss_pred             HHHHHHHHHHHC---CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          198 RLIKLFKGLEAF---DRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       198 eA~~Lf~eM~~~---Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      +|...|++-...   |-.+|   ||.-+.-+..+.|+++.|+..|..
T Consensus       121 eA~q~F~~Al~~P~Y~~~s~---t~eN~G~Cal~~gq~~~A~~~l~r  164 (250)
T COG3063         121 EAMQQFERALADPAYGEPSD---TLENLGLCALKAGQFDQAEEYLKR  164 (250)
T ss_pred             HHHHHHHHHHhCCCCCCcch---hhhhhHHHHhhcCCchhHHHHHHH
Confidence            888888877654   44444   233333355567888888887764

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

Probab=91.14  E-value=4.4  Score=38.78  Aligned_cols=113  Identities=17%  Similarity=0.063  Sum_probs=79.4

Q ss_pred             CCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHH
Q 047178          106 NFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKS  185 (287)
Q Consensus       106 ~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNs  185 (287)
                      .|.-.++...+..|-..|+...|.++.+..   . .||---|-.-|.+|++.|++++-+.+...  .+   + | +-|-.
T Consensus       174 ~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s--kK---s-P-IGyep  242 (319)
T PF04840_consen  174 NFVGLSLNDTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS--KK---S-P-IGYEP  242 (319)
T ss_pred             chhcCCHHHHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CC---C-C-CChHH
Confidence            343456777777777788877776665443   2 37777788889999999999887776443  11   1 2 34888


Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      .|..+.+.|...+|......     +. |     ..-+..|.+.|++.+|-++--
T Consensus       243 Fv~~~~~~~~~~eA~~yI~k-----~~-~-----~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  243 FVEACLKYGNKKEASKYIPK-----IP-D-----EERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHh-----CC-h-----HHHHHHHHHCCCHHHHHHHHH
Confidence            88888889999888888765     22 2     344667888888888876643

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

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

Probab=91.12  E-value=4.7  Score=39.38  Aligned_cols=127  Identities=11%  Similarity=0.085  Sum_probs=82.3

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHH-HHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQ-LIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYna-LI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      -++.-+-+.+.+..+-..|+.++.+-++.  .|--+||-. +-.-+-..+..++|.+++....+..  +..+-.-.++-.
T Consensus       257 dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~--~~nvEaiAcia~  332 (478)
T KOG1129|consen  257 DTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH--PINVEAIACIAV  332 (478)
T ss_pred             hHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC--Cccceeeeeeee
Confidence            34555566677777888888887775543  344455532 3344555677888888888766532  112223344556


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      +|.-.|++|-|+..++++.+.|+.-.+  .|+-+--+|.-.+.+|-++--|...
T Consensus       333 ~yfY~~~PE~AlryYRRiLqmG~~spe--Lf~NigLCC~yaqQ~D~~L~sf~RA  384 (478)
T KOG1129|consen  333 GYFYDNNPEMALRYYRRILQMGAQSPE--LFCNIGLCCLYAQQIDLVLPSFQRA  384 (478)
T ss_pred             ccccCCChHHHHHHHHHHHHhcCCChH--HHhhHHHHHHhhcchhhhHHHHHHH
Confidence            788889999999999999999987543  3555554666677777777666543

>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=90.96  E-value=1.9  Score=35.35  Aligned_cols=63  Identities=19%  Similarity=0.235  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ...++..+...|++++|..+...+....-. |+ ..|..+|.+|...|+..+|.++++++...+.
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E-~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~  127 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDPY-DE-EAYRLLMRALAAQGRRAEALRVYERYRRRLR  127 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--H-HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CH-HHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence            566788888999999999999999876532 54 7799999999999999999999999877665

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

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.96  E-value=0.83  Score=44.11  Aligned_cols=93  Identities=12%  Similarity=0.071  Sum_probs=66.9

Q ss_pred             CCCCcccHHHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHH
Q 047178           69 NVPRKDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCG  148 (287)
Q Consensus        69 ~~s~~~~~~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYn  148 (287)
                      ++|..+.+.+++..+.++.+...+-|-  ..       .+..++   ++.|-+. +-.+++.+...=+.-|+-||-+|++
T Consensus        73 v~~~~~~idd~~~~LyKlRhs~~a~~~--~~-------~~~~~~---irlllky-~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   73 VISSREEIDDAEYYLYKLRHSPNAWYL--RN-------WTIHTW---IRLLLKY-DPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             ccccccchhHHHHHHHHHhcCcchhhh--cc-------ccHHHH---HHHHHcc-ChHHHHHHHhCcchhccccchhhHH
Confidence            567777788899999999887755332  11       123333   3333332 3447777776667889999999999


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhhhCC
Q 047178          149 QLIRALDMDHRAEEAHKFWEKRIGID  174 (287)
Q Consensus       149 aLI~~y~K~G~leeA~~lF~eM~~~g  174 (287)
                      .||+.|-|.+++.+|..+.-.|....
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999998877776543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=90.88  E-value=1.1  Score=31.93  Aligned_cols=51  Identities=20%  Similarity=0.261  Sum_probs=23.1

Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      |.+.+++++|++.++.+...  .|+....+.-.-..|...|++++|.+.++.+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~   55 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERA   55 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHH
Confidence            44445555555555554443  2332333333444444455555555544443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.67  E-value=3.8  Score=42.41  Aligned_cols=90  Identities=13%  Similarity=0.164  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHH--HHHHH--HcCCHHHHHHHHHHhhhCCCCCCChhhHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQL--IRALD--MDHRAEEAHKFWEKRIGIDLHSVPWQLCKSM  186 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaL--I~~y~--K~G~leeA~~lF~eM~~~g~~sv~~~tyNsm  186 (287)
                      .+..-+..|-+.+++++|+.+.+.-      +-..++|..  =.+||  +.++.|+|.........     .+..+--.=
T Consensus        48 a~~cKvValIq~~ky~~ALk~ikk~------~~~~~~~~~~fEKAYc~Yrlnk~Dealk~~~~~~~-----~~~~ll~L~  116 (652)
T KOG2376|consen   48 AIRCKVVALIQLDKYEDALKLIKKN------GALLVINSFFFEKAYCEYRLNKLDEALKTLKGLDR-----LDDKLLELR  116 (652)
T ss_pred             hHhhhHhhhhhhhHHHHHHHHHHhc------chhhhcchhhHHHHHHHHHcccHHHHHHHHhcccc-----cchHHHHHH
Confidence            3444455567778888887655431      111334444  66776  67889999888773221     222111111


Q ss_pred             HHHHHHcCCHhHHHHHHHHHHHCCC
Q 047178          187 IAIYYRNNMLERLIKLFKGLEAFDR  211 (287)
Q Consensus       187 IsgY~k~G~~eeA~~Lf~eM~~~Gi  211 (287)
                      =-.+.+.|++++|+.+++.+..++.
T Consensus       117 AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen  117 AQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            2346788999999999999988776

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

Probab=90.61  E-value=18  Score=35.74  Aligned_cols=123  Identities=19%  Similarity=0.103  Sum_probs=86.2

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      .++..|-+.|..++|.++..+-.+++..|+..++   | ...+-++.+.=.+..++-.....  .+.-.|.+|=.-|.++
T Consensus       268 ~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~---~-~~l~~~d~~~l~k~~e~~l~~h~--~~p~L~~tLG~L~~k~  341 (400)
T COG3071         268 AYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRL---I-PRLRPGDPEPLIKAAEKWLKQHP--EDPLLLSTLGRLALKN  341 (400)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHhccChhHHHH---H-hhcCCCCchHHHHHHHHHHHhCC--CChhHHHHHHHHHHHh
Confidence            4555678888999999998888888877773222   1 12233333333333333322221  1224577788888999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +.+.+|-+.|+  ......|+ ..+|+.+-++|.+.|..++|.++.++-..+
T Consensus       342 ~~w~kA~~~le--aAl~~~~s-~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         342 KLWGKASEALE--AALKLRPS-ASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             hHHHHHHHHHH--HHHhcCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            99999999999  45566788 599999999999999999999999876533

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

Probab=90.52  E-value=2.6  Score=39.78  Aligned_cols=77  Identities=17%  Similarity=0.195  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHH-----HCCCCCChHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLE-----AFDRKPPEKSIV  219 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~-----~~Gi~PD~~~Ty  219 (287)
                      .++..++..+..+|+.+.+.+.+++....+.  -+.-.|-.||.+|.+.|+...|+..|+.|.     +.|+.|-. .+-
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp--~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~-~~~  230 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDP--YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAP-ELR  230 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCc--cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccH-HHH
Confidence            4678899999999999999999999988763  345679999999999999999999999875     47899874 544


Q ss_pred             HHHHH
Q 047178          220 QRVAD  224 (287)
Q Consensus       220 ~sLI~  224 (287)
                      .....
T Consensus       231 ~~y~~  235 (280)
T COG3629         231 ALYEE  235 (280)
T ss_pred             HHHHH
Confidence            43333

>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=90.49  E-value=1.5  Score=31.04  Aligned_cols=62  Identities=19%  Similarity=0.102  Sum_probs=46.0

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC-CHhHHHHHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN-MLERLIKLFKGLE  207 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G-~~eeA~~Lf~eM~  207 (287)
                      ..+|..+=..|...|++++|...|.+..+.+-  .....|..|=.+|.+.| ++++|++.|+.-.
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p--~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDP--NNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHST--THHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            45666677778888999999999998877542  22345777777888888 6889988887654

...

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

Probab=90.22  E-value=6.8  Score=39.75  Aligned_cols=117  Identities=15%  Similarity=0.166  Sum_probs=51.9

Q ss_pred             cchhhHHHHHHHHHHCC-CCCChhHHHHHHHHHHHcCCHHHHHHHHHH-hhhCCCCCCChhhHHHHHHHHHHcCCHhHHH
Q 047178          123 QQWHRVVQVIKWMLSKG-QGSTMGTCGQLIRALDMDHRAEEAHKFWEK-RIGIDLHSVPWQLCKSMIAIYYRNNMLERLI  200 (287)
Q Consensus       123 ~~~~~A~qv~~~M~~~G-~~pd~~TYnaLI~~y~K~G~leeA~~lF~e-M~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~  200 (287)
                      .....|..+|-...+.| +.+++..|+++|.-+|. |+..-|..+|+- |...+-  ++ ..-+--+.-+.+-|.-+.|.
T Consensus       411 ~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~f~d--~~-~y~~kyl~fLi~inde~nar  486 (660)
T COG5107         411 RGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLKFPD--ST-LYKEKYLLFLIRINDEENAR  486 (660)
T ss_pred             hhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhCCC--ch-HHHHHHHHHHHHhCcHHHHH
Confidence            33444455555555545 44555555555555543 233345555542 222110  11 11122333344455555555


Q ss_pred             HHHH----HHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          201 KLFK----GLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       201 ~Lf~----eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .||+    ++.....+    -.|-.+|+-=.+.|++..+..+-+.|-.+|.
T Consensus       487 aLFetsv~r~~~~q~k----~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~p  533 (660)
T COG5107         487 ALFETSVERLEKTQLK----RIYDKMIEYESMVGSLNNVYSLEERFRELVP  533 (660)
T ss_pred             HHHHHhHHHHHHhhhh----HHHHHHHHHHHhhcchHHHHhHHHHHHHHcC
Confidence            5555    23222222    2355555555555555555555555444444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.97  E-value=3.4  Score=40.73  Aligned_cols=123  Identities=15%  Similarity=0.058  Sum_probs=83.8

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH-HHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI-AIYYR  192 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI-sgY~k  192 (287)
                      +.-..+.-..++++++-.+....+-=..-|.+.|| +-.++|-.|...+|+++|-......+  .+.++|-+|+ .+|.+
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i--kn~~~Y~s~LArCyi~  440 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI--KNKILYKSMLARCYIR  440 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh--hhhHHHHHHHHHHHHh
Confidence            33344455556676666666655544445555555 56788899999999999998866554  2446676665 57889


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      ++.++-|.++|-.|...+   +..+....+.+-|.+.+.+--|-+.|++.
T Consensus       441 nkkP~lAW~~~lk~~t~~---e~fsLLqlIAn~CYk~~eFyyaaKAFd~l  487 (557)
T KOG3785|consen  441 NKKPQLAWDMMLKTNTPS---ERFSLLQLIANDCYKANEFYYAAKAFDEL  487 (557)
T ss_pred             cCCchHHHHHHHhcCCch---hHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            999999999987776543   32233344456788999888887777653

>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=89.95  E-value=3.2  Score=34.37  Aligned_cols=79  Identities=14%  Similarity=0.078  Sum_probs=55.0

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHH---------------HCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCC
Q 047178          113 KKALLALEKEQQWHRVVQVIKWML---------------SKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHS  177 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~---------------~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~s  177 (287)
                      ..++-++++.|+.+...++++..=               ...+.||..+-.+++.+||.+|++..|.++.+.....--.+
T Consensus         6 ~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~   85 (126)
T PF12921_consen    6 CNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIP   85 (126)
T ss_pred             HHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCC
Confidence            345566666666665555543321               12245788899999999999999999999999987643234


Q ss_pred             CChhhHHHHHHHHH
Q 047178          178 VPWQLCKSMIAIYY  191 (287)
Q Consensus       178 v~~~tyNsmIsgY~  191 (287)
                      .|..+|..|+.-..
T Consensus        86 i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   86 IPKEFWRRLLEWAY   99 (126)
T ss_pred             CCHHHHHHHHHHHH
Confidence            56678888876443

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

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

Probab=89.64  E-value=12  Score=40.77  Aligned_cols=130  Identities=15%  Similarity=0.085  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhH---HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCC---------
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGT---CGQLIRALDMDHRAEEAHKFWEKRIGIDLHS---------  177 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~T---YnaLI~~y~K~G~leeA~~lF~eM~~~g~~s---------  177 (287)
                      ..+..++..+...+++++|.++.+.-.+  ..|+...   |..+  -|-..++.++|..+  .+...-...         
T Consensus        32 ~a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~--l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~~  105 (906)
T PRK14720         32 KELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGI--LSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEHI  105 (906)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHH--HHHhhcchhhhhhh--hhhhhcccccchhHHHHH
Confidence            4455677777788888888888775443  2344322   2222  45555666666555  332210000         


Q ss_pred             --------CChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          178 --------VPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       178 --------v~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                              -....+-++-.+|-+.|+.++|..+++++.+..  |+.+...|-+--.|+.. ++++|+++..+....|..
T Consensus       106 ~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i~  181 (906)
T PRK14720        106 CDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFIK  181 (906)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHh
Confidence                    011234456667778899999999999999987  76678888888899999 999999998876665543

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

Probab=88.61  E-value=7.6  Score=42.33  Aligned_cols=77  Identities=12%  Similarity=0.160  Sum_probs=54.9

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      +-.+|.+.|+.+++..+++.+++.. .-|..+-|-+=..|+.. ++++|++++.+-..+                |....
T Consensus       122 LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~----------------~i~~k  183 (906)
T PRK14720        122 LAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR----------------FIKKK  183 (906)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH----------------HHhhh
Confidence            4445678888889999998888765 34667777788888888 899998887765432                44445


Q ss_pred             CHhHHHHHHHHHHHC
Q 047178          195 MLERLIKLFKGLEAF  209 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~  209 (287)
                      ++.++.+++.++...
T Consensus       184 q~~~~~e~W~k~~~~  198 (906)
T PRK14720        184 QYVGIEEIWSKLVHY  198 (906)
T ss_pred             cchHHHHHHHHHHhc
Confidence            666666666666654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.50  E-value=23  Score=33.59  Aligned_cols=123  Identities=13%  Similarity=0.087  Sum_probs=78.6

Q ss_pred             hhhHHHHHHHHHHCCCCCChhHHHH--HHHHHHH----cCCHHHHHHHHHHhhhCC--CCCCChhhHHHHHHHHHHcCC-
Q 047178          125 WHRVVQVIKWMLSKGQGSTMGTCGQ--LIRALDM----DHRAEEAHKFWEKRIGID--LHSVPWQLCKSMIAIYYRNNM-  195 (287)
Q Consensus       125 ~~~A~qv~~~M~~~G~~pd~~TYna--LI~~y~K----~G~leeA~~lF~eM~~~g--~~sv~~~tyNsmIsgY~k~G~-  195 (287)
                      +++.+.+++.|.+.|+..+..+|-+  +|...+.    .-.+..|.++|+.|.+..  +.+..++.+.+|+.+  .... 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            6677899999999999998888766  3333321    235678999999998743  222335678888876  3333 


Q ss_pred             ---HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhhccc
Q 047178          196 ---LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRS  253 (287)
Q Consensus       196 ---~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~~~~  253 (287)
                         .+++...|+.+...|+....-.-+.+-|-+++..-.-+.    ..+...+++.+.+++
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~----v~r~~~l~~~l~~~~  212 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEK----VARVIELYNALKKNG  212 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHH----HHHHHHHHHHHHHcC
Confidence               356677888888889887643333333334433332222    456666777777653

>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1

Probab=88.38  E-value=3.1  Score=33.54  Aligned_cols=49  Identities=12%  Similarity=0.295  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHC--CCCCCh--HHHHHHHHHHHHhcCC
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAF--DRKPPE--KSIVQRVADAYEVLGL  231 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~--Gi~PD~--~~Ty~sLI~a~~k~G~  231 (287)
                      |..|+.-|...|+.++|++++.++...  +-..|.  .-...++|+-+.++|.
T Consensus        42 ~~eL~~lY~~kg~h~~AL~ll~~l~~~~~~~~~~~~~~~~~~~iv~yL~~L~~   94 (108)
T PF10366_consen   42 YQELVDLYQGKGLHRKALELLKKLADEEDSDEEDPFLSGVKETIVQYLQKLGN   94 (108)
T ss_pred             HHHHHHHHHccCccHHHHHHHHHHhcccccccccccccCchhHHHHHHHhCCh
Confidence            999999999999999999999999872  111111  0112345667777764

Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.

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

Probab=88.29  E-value=34  Score=39.15  Aligned_cols=131  Identities=11%  Similarity=0.023  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGS---TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKS  185 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p---d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNs  185 (287)
                      ...|......|-+..+-+.|..++.+-++.  -|   .+..-......-.|+|+.+.++.+|+......-...+  .|+.
T Consensus      1564 ~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtD--lW~V 1639 (1710)
T KOG1070|consen 1564 RKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTD--LWSV 1639 (1710)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchh--HHHH
Confidence            344556666777777777777777765542  22   2333445556667999999999999998764321112  4999


Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHCCCCCC-hHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAFDRKPP-EKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD-~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      .|+.=.++|..+.+..||++....++.|- -.+.|..+|.-=-..|+-+.++.+-.+..
T Consensus      1640 Yid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~VKarA~ 1698 (1710)
T KOG1070|consen 1640 YIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYVKARAK 1698 (1710)
T ss_pred             HHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence            99999999999999999999999999874 23678999966666687777666655433

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

Probab=87.92  E-value=34  Score=34.90  Aligned_cols=101  Identities=23%  Similarity=0.219  Sum_probs=78.8

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHH
Q 047178          142 STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQR  221 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~s  221 (287)
                      .|-..|-.|=.+|.-.+...=|.-.|.+-...  .|-+...|.+|=.+|.+.+++++|++-|..-...|=. + ...|..
T Consensus       396 ~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e-~~~l~~  471 (559)
T KOG1155|consen  396 RDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-E-GSALVR  471 (559)
T ss_pred             hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-c-hHHHHH
Confidence            45566666777777778888888888876553  3345578999999999999999999999988776633 2 256888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          222 VADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       222 LI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |-+.|-+.++.++|.+.++++.+-+
T Consensus       472 LakLye~l~d~~eAa~~yek~v~~~  496 (559)
T KOG1155|consen  472 LAKLYEELKDLNEAAQYYEKYVEVS  496 (559)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            9999999999999999998877755

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=87.29  E-value=36  Score=34.71  Aligned_cols=113  Identities=5%  Similarity=-0.033  Sum_probs=73.7

Q ss_pred             hhhHHHHHHHHHHCCCCCCh-hHHHHHHHHHHHc--------CCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          125 WHRVVQVIKWMLSKGQGSTM-GTCGQLIRALDMD--------HRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       125 ~~~A~qv~~~M~~~G~~pd~-~TYnaLI~~y~K~--------G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      ..+|.++|++.++  ..||- ..|..|--+|...        ..++.|.+...+.........+...|.++--.+...|+
T Consensus       358 ~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~  435 (517)
T PRK10153        358 LNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALPELNVLPRIYEILAVQALVKGK  435 (517)
T ss_pred             HHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCC
Confidence            5678888888776  34653 3444433333221        23445555555433321111222457766445556799


Q ss_pred             HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          196 LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      +++|...|++..+..  |+ ...|..+-..|...|+.++|...+.+.
T Consensus       436 ~~~A~~~l~rAl~L~--ps-~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        436 TDEAYQAINKAIDLE--MS-WLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             HHHHHHHHHHHHHcC--CC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999999988876  77 478999999999999999999988763

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

Probab=87.25  E-value=10  Score=41.00  Aligned_cols=125  Identities=14%  Similarity=0.146  Sum_probs=89.8

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCC--CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQG--STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~--pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      .++.+|.+....+...-+..........  -++.-|.-+-++|...|+..+|..+|......... .....|=-+=.+|-
T Consensus       382 rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~-~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  382 RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGY-QNAFVWYKLARCYM  460 (895)
T ss_pred             hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccc-cchhhhHHHHHHHH
Confidence            4555566665555554555555555533  35567889999999999999999999999765321 12235667889999


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      ..|..++|.+.|......  .||..-.-.+|-.-+-..|+.|+|.+.++.
T Consensus       461 ~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~  508 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQ  508 (895)
T ss_pred             HHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhc
Confidence            999999999999987764  455422234555668889999999988875

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

Probab=87.24  E-value=10  Score=40.99  Aligned_cols=65  Identities=15%  Similarity=0.055  Sum_probs=30.1

Q ss_pred             CHHHHHHHHHHH--HHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC
Q 047178          108 PVGSLKKALLAL--EKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGI  173 (287)
Q Consensus       108 ~~~s~~~ai~~L--~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~  173 (287)
                      |...+..++.+|  .+.|+.++|..+++.....+.. |..|-.+|-..|-..|+.|+|..+++.....
T Consensus        40 Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~  106 (932)
T KOG2053|consen   40 PNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK  106 (932)
T ss_pred             CCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh
Confidence            333344444432  3444555555444443322221 4445555555555555555555555554443

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

Probab=87.10  E-value=4.2  Score=41.23  Aligned_cols=113  Identities=17%  Similarity=0.138  Sum_probs=74.7

Q ss_pred             ccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHH
Q 047178          122 EQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIK  201 (287)
Q Consensus       122 ~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~  201 (287)
                      .|.+++|.+++++-+...-.-+...||+=+. +-+.|++|+|.+.|-++..--+  ......--+-+.|--......|++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfniglt-~e~~~~ldeald~f~klh~il~--nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNIGLT-AEALGNLDEALDCFLKLHAILL--NNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHhccc-HHHhcCHHHHHHHHHHHHHHHH--hhHHHHHHHHHHHHHhhCHHHHHH
Confidence            4667777777776654322222233444332 4577999999999998754211  111112235567777788889999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHH
Q 047178          202 LFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVL  239 (287)
Q Consensus       202 Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll  239 (287)
                      |+  |....+.|++..+.+-|-+.|-+.|+-..|.+.|
T Consensus       580 ~~--~q~~slip~dp~ilskl~dlydqegdksqafq~~  615 (840)
T KOG2003|consen  580 LL--MQANSLIPNDPAILSKLADLYDQEGDKSQAFQCH  615 (840)
T ss_pred             HH--HHhcccCCCCHHHHHHHHHHhhcccchhhhhhhh
Confidence            88  4566677877788888999999999988888765

>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=86.72  E-value=0.18  Score=41.29  Aligned_cols=84  Identities=12%  Similarity=0.187  Sum_probs=52.4

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      ++..+.+.+.......+++.+...+...+....|.|+..|++.++.++..+++.....-+        ...++..+.+.|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~yd--------~~~~~~~c~~~~   84 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNNYD--------LDKALRLCEKHG   84 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSSS---------CTHHHHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccccC--------HHHHHHHHHhcc
Confidence            455566666777777777777776666677788999999999988788887776332211        133444445555


Q ss_pred             CHhHHHHHHHHH
Q 047178          195 MLERLIKLFKGL  206 (287)
Q Consensus       195 ~~eeA~~Lf~eM  206 (287)
                      .+++|.-++..|
T Consensus        85 l~~~a~~Ly~~~   96 (143)
T PF00637_consen   85 LYEEAVYLYSKL   96 (143)
T ss_dssp             SHHHHHHHHHCC
T ss_pred             hHHHHHHHHHHc
Confidence            555555555443

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.

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

Probab=86.45  E-value=35  Score=35.04  Aligned_cols=127  Identities=13%  Similarity=0.102  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC-----CCC--CCChhh
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGI-----DLH--SVPWQL  182 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~-----g~~--sv~~~t  182 (287)
                      ..+..++..+.+.+++.++...|.+-.++ ++.-+..||-.-..|.-.++++.|.+.|+.-.+-     ++.  ..|.+-
T Consensus       429 ~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~  507 (606)
T KOG0547|consen  429 YAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVH  507 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhh
Confidence            34445566667777888888888886654 4444567888888888999999999999876431     110  011111


Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      =.+|+--  =.+.+..|.+|+..-.+-+-+.|  ..|-+|-..-...|++++|.++|++
T Consensus       508 Ka~l~~q--wk~d~~~a~~Ll~KA~e~Dpkce--~A~~tlaq~~lQ~~~i~eAielFEk  562 (606)
T KOG0547|consen  508 KALLVLQ--WKEDINQAENLLRKAIELDPKCE--QAYETLAQFELQRGKIDEAIELFEK  562 (606)
T ss_pred             hhHhhhc--hhhhHHHHHHHHHHHHccCchHH--HHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            1122211  12788899999988877776665  4578888888888999999999983

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.38  E-value=26  Score=33.04  Aligned_cols=100  Identities=20%  Similarity=0.133  Sum_probs=43.6

Q ss_pred             CCCChhH-HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh-hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHH
Q 047178          140 QGSTMGT-CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW-QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKS  217 (287)
Q Consensus       140 ~~pd~~T-YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~-~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~  217 (287)
                      .+++..+ |--++-+..-+|+.+.|...+.++..+--.|.-+ ..+..++   --.|+.++|++.++.+.+.+  |...+
T Consensus        47 ~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~l---Ea~~~~~~A~e~y~~lL~dd--pt~~v  121 (289)
T KOG3060|consen   47 LGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLL---EATGNYKEAIEYYESLLEDD--PTDTV  121 (289)
T ss_pred             cCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHH---HHhhchhhHHHHHHHHhccC--cchhH
Confidence            4454432 3334444445566666666666654432111101 1122222   23455666666666665554  33334


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          218 IVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       218 Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      +|--=|-..-..|.--+|.+-+.+|.+
T Consensus       122 ~~KRKlAilka~GK~l~aIk~ln~YL~  148 (289)
T KOG3060|consen  122 IRKRKLAILKAQGKNLEAIKELNEYLD  148 (289)
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            444333333334444444444444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=86.03  E-value=4  Score=43.67  Aligned_cols=47  Identities=11%  Similarity=0.024  Sum_probs=26.0

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHh
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKR  170 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM  170 (287)
                      +-..+...|.++.|.++|-+-         ..++--|++|.++|++++|.++-++.
T Consensus       771 iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~  817 (1636)
T KOG3616|consen  771 IADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEEC  817 (1636)
T ss_pred             HHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHh
Confidence            334455556666666555331         12455566666666666666665543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=85.58  E-value=4.7  Score=40.53  Aligned_cols=67  Identities=10%  Similarity=-0.058  Sum_probs=55.6

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh---hhHHHHHHHHHHcCCHhHHHHHHHHHHHCC
Q 047178          142 STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW---QLCKSMIAIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~---~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      .+...|+-|=.+|.+.|++++|...|++-.+.+-  -+.   .+|..+-.+|.+.|++++|++.|++..+.+
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~P--d~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels  142 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNP--NPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY  142 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC--CchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3566889999999999999999999999776542  111   357889999999999999999999988863

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

Probab=85.34  E-value=16  Score=37.25  Aligned_cols=94  Identities=12%  Similarity=-0.017  Sum_probs=72.7

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHH-HHHCCCCCChHHHHHH
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKG-LEAFDRKPPEKSIVQR  221 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~e-M~~~Gi~PD~~~Ty~s  221 (287)
                      -.++|.++|+..-+..-++.|+.+|-+....+..+..++.|+++|.-||. |...-|..+|+- |..   .||+.+...-
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 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK---FPDSTLYKEK  471 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh---CCCchHHHHH
Confidence            34688999999999999999999999998877655556789999998875 566778888863 222   4665455566


Q ss_pred             HHHHHHhcCCHHHHHHHHH
Q 047178          222 VADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       222 LI~a~~k~G~leeA~~ll~  240 (287)
                      .++-+...++-+.|+.+|+
T Consensus       472 yl~fLi~inde~naraLFe  490 (660)
T COG5107         472 YLLFLIRINDEENARALFE  490 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHH
Confidence            6777778888888888887

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

Probab=85.23  E-value=14  Score=37.18  Aligned_cols=121  Identities=16%  Similarity=0.089  Sum_probs=78.2

Q ss_pred             cchhhHHHHHHHHHHCCCCCChhHHHHHH-HHHHHcCCHHHHHHHHHHhhhC--CCCCCChhhHHHHHHHHHHcCCHhHH
Q 047178          123 QQWHRVVQVIKWMLSKGQGSTMGTCGQLI-RALDMDHRAEEAHKFWEKRIGI--DLHSVPWQLCKSMIAIYYRNNMLERL  199 (287)
Q Consensus       123 ~~~~~A~qv~~~M~~~G~~pd~~TYnaLI-~~y~K~G~leeA~~lF~eM~~~--g~~sv~~~tyNsmIsgY~k~G~~eeA  199 (287)
                      ...+.+.+++.+|..+  -|+..-|...- ..+...|++++|.+.|++....  ....+....|=-+.-.|.-.+++++|
T Consensus       247 ~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A  324 (468)
T PF10300_consen  247 VPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEA  324 (468)
T ss_pred             CCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHH
Confidence            4466778888888764  47765554432 3356789999999999976531  11111122333455567888999999


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHH-HHHhcCCH-------HHHHHHHHHHhHHHh
Q 047178          200 IKLFKGLEAFDRKPPEKSIVQRVAD-AYEVLGLL-------EEKERVLEKYKDLFT  247 (287)
Q Consensus       200 ~~Lf~eM~~~Gi~PD~~~Ty~sLI~-a~~k~G~l-------eeA~~ll~~m~~l~~  247 (287)
                      .+.|..+.+..---  ..+|.=+.- ++...|+.       ++|.++|.+.+.+..
T Consensus       325 ~~~f~~L~~~s~WS--ka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~~  378 (468)
T PF10300_consen  325 AEYFLRLLKESKWS--KAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKLKQ  378 (468)
T ss_pred             HHHHHHHHhccccH--HHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHHHh
Confidence            99999998754332  233433332 45567888       777788877777664

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.

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

Probab=85.17  E-value=22  Score=36.85  Aligned_cols=73  Identities=21%  Similarity=0.220  Sum_probs=38.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 047178          148 GQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADA  225 (287)
Q Consensus       148 naLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a  225 (287)
                      +-|=..|.|.++.++|...|++-....  +.++.+|+++=-.|...|+++.|.+.|.+  ...+.||. .+.+.++..
T Consensus       459 ~NLGH~~Rkl~~~~eAI~~~q~aL~l~--~k~~~~~asig~iy~llgnld~Aid~fhK--aL~l~p~n-~~~~~lL~~  531 (611)
T KOG1173|consen  459 NNLGHAYRKLNKYEEAIDYYQKALLLS--PKDASTHASIGYIYHLLGNLDKAIDHFHK--ALALKPDN-IFISELLKL  531 (611)
T ss_pred             HhHHHHHHHHhhHHHHHHHHHHHHHcC--CCchhHHHHHHHHHHHhcChHHHHHHHHH--HHhcCCcc-HHHHHHHHH
Confidence            334445556666666666666554432  12344555555555566666666666654  33455664 334445443

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

Probab=84.96  E-value=46  Score=35.44  Aligned_cols=102  Identities=16%  Similarity=0.130  Sum_probs=74.0

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVAD  224 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~  224 (287)
                      +.|-.....+-++|++..|..++.+..+.+-.  +.-.|=+-+..-..+..+|+|..||..-...  .|.+ -.|.--++
T Consensus       585 ~lwlM~ake~w~agdv~~ar~il~~af~~~pn--seeiwlaavKle~en~e~eraR~llakar~~--sgTe-Rv~mKs~~  659 (913)
T KOG0495|consen  585 ILWLMYAKEKWKAGDVPAARVILDQAFEANPN--SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTE-RVWMKSAN  659 (913)
T ss_pred             hHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC--cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcc-hhhHHHhH
Confidence            44455556667889999999999988876532  2235777888889999999999999986654  4544 33444444


Q ss_pred             HHHhcCCHHHHHHHHHHHhHHHhhhhc
Q 047178          225 AYEVLGLLEEKERVLEKYKDLFTEKEK  251 (287)
Q Consensus       225 a~~k~G~leeA~~ll~~m~~l~~~~~~  251 (287)
                      ----.+.+++|.+++++....|-.|-|
T Consensus       660 ~er~ld~~eeA~rllEe~lk~fp~f~K  686 (913)
T KOG0495|consen  660 LERYLDNVEEALRLLEEALKSFPDFHK  686 (913)
T ss_pred             HHHHhhhHHHHHHHHHHHHHhCCchHH
Confidence            556678999999999887777766654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=84.91  E-value=34  Score=36.30  Aligned_cols=130  Identities=13%  Similarity=0.084  Sum_probs=84.4

Q ss_pred             HHHHccchhhHHHHHHHHHHCC--CCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhhh----CCCCCCC--hhhHHHH
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKG--QGS---TMGTCGQLIRALDMDHRAEEAHKFWEKRIG----IDLHSVP--WQLCKSM  186 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G--~~p---d~~TYnaLI~~y~K~G~leeA~~lF~eM~~----~g~~sv~--~~tyNsm  186 (287)
                      .+...|++++|...+.......  .++   ...+++.+-..+...|++++|...+++...    .+....+  ...+..+
T Consensus       500 ~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  579 (903)
T PRK04841        500 VHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIR  579 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            3566888999988887765421  111   123455566678889999999999887643    2211111  1234455


Q ss_pred             HHHHHHcCCHhHHHHHHHHHHHC--CCCCC-hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          187 IAIYYRNNMLERLIKLFKGLEAF--DRKPP-EKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       187 IsgY~k~G~~eeA~~Lf~eM~~~--Gi~PD-~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      -..+...|++++|...+.+....  ...|. ....+..+...+...|+.++|...+++...++.
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~  643 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLG  643 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            55677789999999999887542  11122 223344455677789999999999888766544

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

Probab=84.74  E-value=28  Score=36.62  Aligned_cols=131  Identities=11%  Similarity=0.033  Sum_probs=89.6

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChh-HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHH-HHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMG-TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCK-SMI  187 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~-TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyN-smI  187 (287)
                      +++--++..+-+.|+.+.|...++.-.  +..|+.+ -|-+=-..++.+|.+++|...+++-.+-|.   +++.-| -=.
T Consensus       372 Wt~y~laqh~D~~g~~~~A~~yId~AI--dHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~---aDR~INsKcA  446 (700)
T KOG1156|consen  372 WTLYFLAQHYDKLGDYEVALEYIDLAI--DHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT---ADRAINSKCA  446 (700)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHh--ccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc---hhHHHHHHHH
Confidence            445567777888899999988887643  4556543 344445778999999999999999887764   222223 112


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHH----------HHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRV----------ADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sL----------I~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      .-..++++.++|.++....-..|.  + ++-+-.-          -.+|.+.|.+.+|++=|.+....|+.
T Consensus       447 KYmLrAn~i~eA~~~~skFTr~~~--~-~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~~  514 (700)
T KOG1156|consen  447 KYMLRANEIEEAEEVLSKFTREGF--G-AVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYKT  514 (700)
T ss_pred             HHHHHccccHHHHHHHHHhhhccc--c-hhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            234488999999999988888876  3 2222111          24788888888888777666666554

>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=84.66  E-value=51  Score=33.79  Aligned_cols=91  Identities=19%  Similarity=0.114  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADA  225 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a  225 (287)
                      ||.-|-.-|...|+.++|.++.++-.+..-  ...-.|-+--..|-+.|++++|.+.+++-...... |. ..-+-....
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htP--t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DR-yiNsK~aKy  271 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTP--TLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DR-YINSKCAKY  271 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCC--CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hH-HHHHHHHHH
Confidence            344455567789999999999998877541  11235777788888999999999999988777654 53 666677778


Q ss_pred             HHhcCCHHHHHHHHH
Q 047178          226 YEVLGLLEEKERVLE  240 (287)
Q Consensus       226 ~~k~G~leeA~~ll~  240 (287)
                      +-+.|++++|.+++.
T Consensus       272 ~LRa~~~e~A~~~~~  286 (517)
T PF12569_consen  272 LLRAGRIEEAEKTAS  286 (517)
T ss_pred             HHHCCCHHHHHHHHH
Confidence            888999999988765

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 [], [].

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

Probab=84.46  E-value=13  Score=34.26  Aligned_cols=130  Identities=17%  Similarity=0.227  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHH----CCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhh----CCCCCCCh--
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLS----KGQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIG----IDLHSVPW--  180 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~----~G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~----~g~~sv~~--  180 (287)
                      +..+-..+...++|++|.+.|....+    .|-..+ ...|.-....| +.++.++|...+++-..    .|-  +..  
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~-k~~~~~~Ai~~~~~A~~~y~~~G~--~~~aA  114 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCY-KKGDPDEAIECYEKAIEIYREAGR--FSQAA  114 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH-HHTTHHHHHHHHHHHHHHHHHCT---HHHHH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HhhCHHHHHHHHHHHHHHHHhcCc--HHHHH
Confidence            34444555555666666555544321    111111 11233333333 33366666655555432    221  110  


Q ss_pred             hhHHHHHHHHHHc-CCHhHHHHHHHHHH----HCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          181 QLCKSMIAIYYRN-NMLERLIKLFKGLE----AFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       181 ~tyNsmIsgY~k~-G~~eeA~~Lf~eM~----~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      ..+.-+=..|-.. |++++|++.|.+-.    ..|-.-...-.+.-+...+.+.|++++|.+++++...
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            1344444455566 78888888887653    3342111123456677789999999999999986543

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

Probab=84.39  E-value=7.8  Score=39.96  Aligned_cols=55  Identities=18%  Similarity=0.276  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHH
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVL  239 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll  239 (287)
                      +|-|=+.|.+.+++++|+..|+.-...  .|....||+++-=.|...|+++.|..-|
T Consensus       458 ~~NLGH~~Rkl~~~~eAI~~~q~aL~l--~~k~~~~~asig~iy~llgnld~Aid~f  512 (611)
T KOG1173|consen  458 LNNLGHAYRKLNKYEEAIDYYQKALLL--SPKDASTHASIGYIYHLLGNLDKAIDHF  512 (611)
T ss_pred             HHhHHHHHHHHhhHHHHHHHHHHHHHc--CCCchhHHHHHHHHHHHhcChHHHHHHH
Confidence            444444455555555555555443322  1212344444444444455555544433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=83.91  E-value=16  Score=29.54  Aligned_cols=56  Identities=13%  Similarity=0.237  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFK  204 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~  204 (287)
                      -...+|..|-..+....+..+++.+...+.  .....+|.+|..|++.+ ..+.++.|.
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~--~~~~~~~~li~ly~~~~-~~~ll~~l~   64 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNS--ENPALQTKLIELYAKYD-PQKEIERLD   64 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCc--cchhHHHHHHHHHHHHC-HHHHHHHHH
Confidence            356788889889999999999999988763  33347999999999875 456666666

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

Probab=82.10  E-value=62  Score=32.91  Aligned_cols=119  Identities=13%  Similarity=-0.042  Sum_probs=85.3

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      .-+...+.+.++.++|.+.++.++..  .|+ ....-.+=++|.+.|+..+|..++..-...+-  .+...|..|=.+|.
T Consensus       344 ~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p--~dp~~w~~LAqay~  419 (484)
T COG4783         344 ELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDP--EDPNGWDLLAQAYA  419 (484)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCC--CCchHHHHHHHHHH
Confidence            34566788999999999999998874  455 44455567889999999999999998876542  23357999999999


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEK  235 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA  235 (287)
                      ..|+..+|..-..|+....=.++....+-+...--.+.|.++-+
T Consensus       420 ~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~~~~~~~~~~a  463 (484)
T COG4783         420 ELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQVKLGFPDWA  463 (484)
T ss_pred             HhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhccCCcHHHH
Confidence            99999999988888765544444334343333344444544433

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=82.08  E-value=15  Score=35.16  Aligned_cols=91  Identities=16%  Similarity=0.084  Sum_probs=49.8

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHh
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLE  197 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~e  197 (287)
                      +-+.+++.+|++.+..-++  +.| |.+-|.-=-.+|++-|..+.|.+=-+.-..-+-  --+.+|..|=-+|.-.|+++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp--~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDP--HYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcCh--HHHHHHHHHHHHHHccCcHH
Confidence            4455666666666665554  333 333344445566666666666665554443321  11235666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCh
Q 047178          198 RLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       198 eA~~Lf~eM~~~Gi~PD~  215 (287)
                      +|++-|+.-.  .+.||.
T Consensus       167 ~A~~aykKaL--eldP~N  182 (304)
T KOG0553|consen  167 EAIEAYKKAL--ELDPDN  182 (304)
T ss_pred             HHHHHHHhhh--ccCCCc
Confidence            6666665432  345664

>PRK15331 chaperone protein SicA; Provisional

Probab=82.07  E-value=11  Score=32.83  Aligned_cols=86  Identities=9%  Similarity=0.080  Sum_probs=56.4

Q ss_pred             HHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCC-CCChHHHHHHHHHHHHhcCCH
Q 047178          154 LDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDR-KPPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       154 y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi-~PD~~~Ty~sLI~a~~k~G~l  232 (287)
                      +-..|++++|+.+|.-+..-+..  +...|..|=.+|-..+.+++|+.+|......+. -|-  ..|- .-..|-..|+.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~--n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~--p~f~-agqC~l~l~~~  121 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY--NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYR--PVFF-TGQCQLLMRKA  121 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCC--ccch-HHHHHHHhCCH
Confidence            34678999999999877665532  222456666667778889999998886654432 121  1122 33467788899


Q ss_pred             HHHHHHHHHHhH
Q 047178          233 EEKERVLEKYKD  244 (287)
Q Consensus       233 eeA~~ll~~m~~  244 (287)
                      +.|+..|+....
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999888775544

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

Probab=80.71  E-value=25  Score=38.47  Aligned_cols=87  Identities=11%  Similarity=0.081  Sum_probs=66.1

Q ss_pred             HcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCC-CCChHHHHHHHHHHHHhcCCHHH
Q 047178          156 MDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDR-KPPEKSIVQRVADAYEVLGLLEE  234 (287)
Q Consensus       156 K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi-~PD~~~Ty~sLI~a~~k~G~lee  234 (287)
                      ..+..+.|.++|.+....+-  .+.+.=|-+=-.++..|++++|..+|....+... .+|.   |--+-+.|...|++-.
T Consensus       624 ~kk~~~KAlq~y~kvL~~dp--kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv---~lNlah~~~e~~qy~~  698 (1018)
T KOG2002|consen  624 EKKHQEKALQLYGKVLRNDP--KNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDV---WLNLAHCYVEQGQYRL  698 (1018)
T ss_pred             HHHHHHHHHHHHHHHHhcCc--chhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCce---eeeHHHHHHHHHHHHH
Confidence            34578899999999876541  2222334455568899999999999999999887 5662   6778899999999999


Q ss_pred             HHHHHHHHhHHHh
Q 047178          235 KERVLEKYKDLFT  247 (287)
Q Consensus       235 A~~ll~~m~~l~~  247 (287)
                      |.++++....-|.
T Consensus       699 AIqmYe~~lkkf~  711 (1018)
T KOG2002|consen  699 AIQMYENCLKKFY  711 (1018)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999986554443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=80.62  E-value=83  Score=33.40  Aligned_cols=130  Identities=8%  Similarity=-0.022  Sum_probs=83.1

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCC-CChhHH-----HHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChh---hHHHHH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQG-STMGTC-----GQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQ---LCKSMI  187 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~-pd~~TY-----naLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~---tyNsmI  187 (287)
                      ..+...|+.+.|.+.+.......-. .....+     ...+..+...|..+.|..++......... .++.   .+..+-
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~-~~~~~~~~~~~~a  698 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFA-NNHFLQGQWRNIA  698 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCc-cchhHHHHHHHHH
Confidence            3456678888888877766432110 111111     11234456689999999998776542211 1211   134566


Q ss_pred             HHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          188 AIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .++...|++++|..+|.+...    .|..++.+.+...+-.++...|+.++|...+.+...+..
T Consensus       699 ~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~  762 (903)
T PRK04841        699 RAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLAN  762 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Confidence            678899999999999998764    355555445566666788899999999988886655543

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=80.58  E-value=26  Score=30.18  Aligned_cols=54  Identities=20%  Similarity=0.391  Sum_probs=24.8

Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      -++.+.+.|+-|...++..++...+ .|+. ...-.+-.||.+.|...++.+++.+
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~kn~-~~~p-~~L~kia~Ay~klg~~r~~~ell~~  145 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKKNE-EINP-EFLVKIANAYKKLGNTREANELLKE  145 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH------S-H-HHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHhhcc-CCCH-HHHHHHHHHHHHhcchhhHHHHHHH
Confidence            3445555566666666665554322 2221 2334555566666666666665543

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PLN02789 farnesyltranstransferase

Probab=80.29  E-value=56  Score=31.20  Aligned_cols=105  Identities=9%  Similarity=-0.058  Sum_probs=71.7

Q ss_pred             HHcc-chhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCC--HHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH
Q 047178          120 EKEQ-QWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHR--AEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML  196 (287)
Q Consensus       120 ~k~~-~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~--leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~  196 (287)
                      .+.+ ..++++.+++.+.+..- .+..+|+----.+-+.|.  .+++..++++|.+.+-  -+-..|+-.-..+.+.|.+
T Consensus        82 ~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dp--kNy~AW~~R~w~l~~l~~~  158 (320)
T PLN02789         82 EALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDA--KNYHAWSHRQWVLRTLGGW  158 (320)
T ss_pred             HHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCc--ccHHHHHHHHHHHHHhhhH
Confidence            3444 46888888888876432 344456544333455565  3678888889987663  3445788888888999999


Q ss_pred             hHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhc
Q 047178          197 ERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVL  229 (287)
Q Consensus       197 eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~  229 (287)
                      ++|++.+.+|.+.+..-.  ..|+-.--.+.+.
T Consensus       159 ~eeL~~~~~~I~~d~~N~--sAW~~R~~vl~~~  189 (320)
T PLN02789        159 EDELEYCHQLLEEDVRNN--SAWNQRYFVITRS  189 (320)
T ss_pred             HHHHHHHHHHHHHCCCch--hHHHHHHHHHHhc
Confidence            999999999999887655  3455444444454

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

Probab=80.27  E-value=39  Score=36.02  Aligned_cols=121  Identities=12%  Similarity=-0.013  Sum_probs=58.9

Q ss_pred             cCcccccC---cccccccccCcccCcCCCCcccHHHHHHHHHc-----c-----CCC--cchHHHHHHHH-HHccCC---
Q 047178           46 TNQSVDQY---PERNAASTRNFRIGENVPRKDKINFLVNTLLD-----L-----KNS--KEDVYGTLDAW-VAWEQN---  106 (287)
Q Consensus        46 ~~~~~~~~---~~~~~~~~~~~~~~~~~s~~~~~~~Li~~l~~-----l-----g~~--~~~v~~~Ld~~-~~~~~~---  106 (287)
                      +..++.|.   +|.-.+.-|.+++|++++..++...+++..-.     +     .+.  .-.+-..++.- ...+..   
T Consensus       338 ~~w~i~~salllr~~~E~~~~RtveR~~~q~q~lv~~iq~~e~~v~nRlsy~ya~~lpp~Wq~q~~laell~slGitksA  417 (777)
T KOG1128|consen  338 KYWSIQASALLLRFLLESTRSRTVERALSQMQFLVKAIQMKEYSVLNRLSYIYAPHLPPIWQLQRLLAELLLSLGITKSA  417 (777)
T ss_pred             CceeeehHHHHHHHHHHhcCccchhhHHHHHHHHHHHHhhccHhHHhcccccccCCCCCcchHHHHHHHHHHHcchHHHH
Confidence            44556665   56556666677788888888877766664211     0     000  00000111111 000000   


Q ss_pred             ---C-CHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Q 047178          107 ---F-PVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWE  168 (287)
Q Consensus       107 ---~-~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~  168 (287)
                         | .+.-+...+..|+..|+.++|.++...-.+  -.||..-|..|-+..-..-..|.|.++++
T Consensus       418 l~I~Erlemw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn  481 (777)
T KOG1128|consen  418 LVIFERLEMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSN  481 (777)
T ss_pred             HHHHHhHHHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhh
Confidence               0 011223445556666666666666655554  35777777776666544334444444444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=80.16  E-value=33  Score=35.06  Aligned_cols=66  Identities=11%  Similarity=0.051  Sum_probs=53.1

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC
Q 047178          142 STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      .+..+|-++--.+...|+.++|...|++....+   +.+..|..+-..|...|++++|.+.|.+-....
T Consensus       418 ~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~---ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        418 VLPRIYEILAVQALVKGKTDEAYQAINKAIDLE---MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            355678777555556799999999999998865   346679999999999999999999998865543

---

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	287
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04

>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 = 62.9 bits (152), Expect = 3e-11
 Identities = 50/274 (18%), Positives = 86/274 (31%), Gaps = 82/274 (29%)

Query: 11  VGRTLNSIYK-SAEKIQISNQIIGKAMSMSSLEGQR-----TNQSVDQYPERNAASTRNF 64
           V   L   YK     I+   +    +M       QR      NQ   +Y           
Sbjct: 83  VEEVLRINYKFLMSPIK--TEQRQPSMMTRMYIEQRDRLYNDNQVFAKY----------- 129

Query: 65  RIGENVPRKDKINFLVNTLLDLKNSKE-DVYGTLDAWVAWEQNFPVGSLKKALLALEKEQ 123
               NV R      L   LL+L+ +K   + G L            GS  K  +AL+   
Sbjct: 130 ----NVSRLQPYLKLRQALLELRPAKNVLIDGVL------------GS-GKTWVALDVCL 172

Query: 124 QWHRVVQV----IKWMLSKGQGSTMGTCG----------QLIRALDMDHRAEEAHKFWEK 169
             ++V       I W+        +  C           +L+  +D +  +   H     
Sbjct: 173 S-YKVQCKMDFKIFWL-------NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH---SS 221

Query: 170 RIGIDLHSVPWQLCKSMIAIYYRNNMLER-LIKL-----FKGLEAFDRKPPEKSIV---- 219
            I + +HS+     ++ +    ++   E  L+ L      K   AF+     K ++    
Sbjct: 222 NIKLRIHSI-----QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC--KILLTTRF 274

Query: 220 QRVADAYEVLGLLEEKERVLEKYKDLFTEKEKRS 253
           ++V D    L         L+ +    T  E +S
Sbjct: 275 KQVTD---FLSAATTTHISLDHHSMTLTPDEVKS 305

>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 = 57.2 bits (137), Expect = 2e-09
 Identities = 41/310 (13%), Positives = 84/310 (27%), Gaps = 92/310 (29%)

Query: 8   SYLVGRTLNSIYKSAEKIQ--ISNQI----IGKAMSMSSL--EGQRTNQSVDQYPERNAA 59
           +++      S      K+Q  +  +I    +    S  ++    Q+    +D      + 
Sbjct: 164 TWVALDVCLS-----YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218

Query: 60  STRNFRIGENVPRKDKINFL-----VNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKK 114
            + N ++  +  + +    L      N LL L     +V    +A   W   F +    K
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVL----LNVQ---NAKA-WNA-FNLSC--K 267

Query: 115 ALL---------ALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHK 165
            LL          L      H  +      L+                       +E   
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP----------------------DEVKS 305

Query: 166 FWEKRIGIDLHSVPWQLCK------SMIA----------IYYRNNMLERLIKLFK-GLEA 208
              K +      +P ++        S+IA            +++   ++L  + +  L  
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365

Query: 209 FDRKPPEKSIVQRVADAYEVLGLLEE----KERVLEKY-KDLFTEKEKRSNKKSKSSSM- 262
            +  P E     R    ++ L +          +L     D+          K    S+ 
Sbjct: 366 LE--PAE----YR--KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417

Query: 263 -KGKKSGRTR 271
            K  K     
Sbjct: 418 EKQPKESTIS 427

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.5 bits (99), Expect = 1e-04
 Identities = 31/240 (12%), Positives = 61/240 (25%), Gaps = 93/240 (38%)

Query: 64  FRIGENVPRK---------------DKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFP 108
           F    ++P                   +N L    L  K  KE        ++       
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL------- 433

Query: 109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD----------- 157
                +  + LE E   HR   ++                 + +  D D           
Sbjct: 434 -----ELKVKLENEYALHR--SIV-------------DHYNIPKTFDSDDLIPPYLDQYF 473

Query: 158 ------H--RAEEAHKFWE-KRIGIDLH---------SVPWQLCKSMIAI-----YYRN- 193
                 H    E   +    + + +D           S  W    S++       +Y+  
Sbjct: 474 YSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY 533

Query: 194 -----NMLERLIKLFKGLEAFDRKP-------PEKSIVQRVADAYEVLGLLEEKERVLEK 241
                   ERL+     +  F  K            +++ +A   E   + EE  + +++
Sbjct: 534 ICDNDPKYERLVNA---ILDFLPKIEENLICSKYTDLLR-IALMAEDEAIFEEAHKQVQR 589

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	287
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.92
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.39
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.33
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.88
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.74
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.7
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.69
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.69
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.68
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.67
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.64
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.62
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.6
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.54
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.52
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.5
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.48
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.47
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.45
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.41
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.38
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.37
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.36
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.36
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.35
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.35
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.34
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.33
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.32
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.31
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.29
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.29
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.28
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.28
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.25
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.25
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.25
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.23
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.18
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.18
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.14
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.13
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.12
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.11
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.07
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.07
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.05
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.05
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.04
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.04
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.01
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.01
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.99
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	97.98
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.91
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.91
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.9
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.85
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.83
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.82
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	97.8
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.79
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.78
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.78
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.77
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.76
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.74
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.74
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.73
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.72
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.7
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.69
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.69
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.68
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.67
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.67
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.67
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.66
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.65
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.62
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.62
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.53
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.52
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.5
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.5
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.49
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.48
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.47
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.46
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.46
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.45
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.45
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.44
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.44
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.43
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.42
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.41
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.4
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.39
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.38
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.36
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.34
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.33
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.33
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.33
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.33
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.32
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.27
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.26
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.26
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.24
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.23
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.23
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.22
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.19
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.18
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.18
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.17
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.17
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.16
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.16
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.13
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.12
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.11
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.09
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.09
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.07
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.06
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.06
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.05
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.03
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	96.94
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	96.94
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	96.92
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	96.9
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.85
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	96.84
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	96.82
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.82
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	96.82
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	96.82
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.79
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	96.78
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	96.78
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	96.78
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	96.75
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	96.73
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.69
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	96.65
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.63
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	96.6
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.59
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.53
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.51
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	96.5
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	96.47
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.47
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.44
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.43
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	96.41
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.34
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.29
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.28
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.15
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.05
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	96.02
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.02
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	95.91
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	95.68
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	95.67
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	95.59
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	95.58
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	95.57
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.34
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	95.32
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.21
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	95.21
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	95.21
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.19
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	95.17
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	94.89
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	94.65
4g1t_A	472	Interferon-induced protein with tetratricopeptide	94.49
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	94.46
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	94.46
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	94.05
2l6j_A	111	TPR repeat-containing protein associated with HSP;	93.94
4g1t_A	472	Interferon-induced protein with tetratricopeptide	93.94
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	93.92
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	93.68
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.57
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	93.32
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	93.14
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	93.05
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	92.66
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	92.08
1klx_A	138	Cysteine rich protein B; structural genomics, heli	92.08
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	89.52
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	88.91
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	88.29
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	88.06
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	87.07
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	84.87
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	84.12
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	83.54
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	82.6
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	82.32
1pc2_A	152	Mitochondria fission protein; unknown function; NM	81.33
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	80.31

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=8.2e-28  Score=237.11  Aligned_cols=169  Identities=9%  Similarity=0.010  Sum_probs=151.8

Q ss_pred             cccHHHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccc---------hhhHHHHHHHHHHCCCCCC
Q 047178           73 KDKINFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQ---------WHRVVQVIKWMLSKGQGST  143 (287)
Q Consensus        73 ~~~~~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~---------~~~A~qv~~~M~~~G~~pd  143 (287)
                      +.-.+.+++.+++.|+..++ ...++++...+..++..+++.+|..+++.+.         +++|.++|++|.+.|+.||
T Consensus        26 e~~l~~~id~c~k~G~~~~A-~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd  104 (501)
T 4g26_A           26 EALLKQKLDMCSKKGDVLEA-LRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPN  104 (501)
T ss_dssp             HHHHHHHHHHTTTSCCHHHH-HHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCC
T ss_pred             HHHHHHHHHHHHhCCCHHHH-HHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCC
Confidence            33456788999999998665 3455566667778889999999999887654         6789999999999999999


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      .+|||+||++||+.|++++|.++|++|...|+. |+.+|||+||.+||+.|++++|.++|++|.+.|+.||. +||++||
T Consensus       105 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~-Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~-~ty~~Li  182 (501)
T 4g26_A          105 EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQ-PRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEE-PELAALL  182 (501)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCH-HHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCH-HHHHHHH
Confidence            999999999999999999999999999999985 57789999999999999999999999999999999995 9999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHhH
Q 047178          224 DAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       224 ~a~~k~G~leeA~~ll~~m~~  244 (287)
                      ++|++.|++++|.+++++|.+
T Consensus       183 ~~~~~~g~~d~A~~ll~~Mr~  203 (501)
T 4g26_A          183 KVSMDTKNADKVYKTLQRLRD  203 (501)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhCCCHHHHHHHHHHHHH
Confidence            999999999999999998865

>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=99.92  E-value=8.2e-25  Score=215.70  Aligned_cols=146  Identities=11%  Similarity=0.029  Sum_probs=133.2

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCC---------HHHHHHHHHHhhhCCCCCCC
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHR---------AEEAHKFWEKRIGIDLHSVP  179 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~---------leeA~~lF~eM~~~g~~sv~  179 (287)
                      ...+..+|..+++.|++++|+++|++|.+.|+.||.+|||+||++|++.|.         +++|.++|++|...|+. |+
T Consensus        26 e~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~-Pd  104 (501)
T 4g26_A           26 EALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVV-PN  104 (501)
T ss_dssp             HHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCC-CC
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCC-CC
Confidence            344677899999999999999999999999999999999999999998765         79999999999999985 67


Q ss_pred             hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH------------hHHHh
Q 047178          180 WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY------------KDLFT  247 (287)
Q Consensus       180 ~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m------------~~l~~  247 (287)
                      .+|||+||++||+.|++++|.++|++|.+.|+.|| .+|||+||.+||+.|++++|.++|++|            ..++.
T Consensus       105 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd-~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~  183 (501)
T 4g26_A          105 EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPR-LRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLK  183 (501)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCc-cceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            78999999999999999999999999999999999 599999999999999999999999964            55777


Q ss_pred             hhhcccccc
Q 047178          248 EKEKRSNKK  256 (287)
Q Consensus       248 ~~~~~~~~~  256 (287)
                      .||+.++..
T Consensus       184 ~~~~~g~~d  192 (501)
T 4g26_A          184 VSMDTKNAD  192 (501)
T ss_dssp             HHHHTTCHH
T ss_pred             HHhhCCCHH
Confidence            888776643

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=6e-23  Score=215.87  Aligned_cols=128  Identities=8%  Similarity=-0.062  Sum_probs=115.9

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHH---HCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWML---SKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKS  185 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~---~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNs  185 (287)
                      ..+++.+|++||+.|++++|.++|..|.   ++|+.||++|||+||+|||+.|++++|.++|++|.+.|+. |+.+|||+
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~-PDvvTYnt  205 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLT-PDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCC-CCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CcHHHHHH
Confidence            4689999999999999999999998876   4589999999999999999999999999999999999985 67899999


Q ss_pred             HHHHHHHcCCH-hHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHH
Q 047178          186 MIAIYYRNNML-ERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERV  238 (287)
Q Consensus       186 mIsgY~k~G~~-eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~l  238 (287)
                      ||+|||+.|+. ++|.++|++|.+.|+.||. +||+++++++.+.+.++...++
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~-vtY~~ll~~~eR~~vL~~Vrkv  258 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQA-LFTAVLLSEEDRATVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHH-HHHHSCCCHHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCCh-hhcccccChhhHHHHHHHHHHh
Confidence            99999999985 7899999999999999995 9999999888777665555444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.82  E-value=5.1e-20  Score=193.77  Aligned_cols=101  Identities=10%  Similarity=0.062  Sum_probs=91.7

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhh---CCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHH
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIG---IDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIV  219 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~---~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty  219 (287)
                      -.+|||+||+||||+|++++|.++|++|.+   +|+. ++.+|||+||+|||+.|++++|.++|++|.+.|+.|| ++||
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~-PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PD-vvTY  203 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKL-LTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPD-LLSY  203 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTT-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCC-HHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCC-CCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCc-HHHH
Confidence            357999999999999999999999988764   4663 6778999999999999999999999999999999999 5999


Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHhHH
Q 047178          220 QRVADAYEVLGL-LEEKERVLEKYKDL  245 (287)
Q Consensus       220 ~sLI~a~~k~G~-leeA~~ll~~m~~l  245 (287)
                      |+||++||+.|+ .++|.++|++|..-
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~k  230 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQE  230 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHc
Confidence            999999999998 58899999988653

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.39  E-value=2.4e-11  Score=116.61  Aligned_cols=134  Identities=9%  Similarity=-0.036  Sum_probs=102.7

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+..+...+.+.|++++|+++|+.|.+.+ ..+..+|+.|+.+|++.|++++|.++|++|.+.+.  .+..+|+.|+.
T Consensus       407 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~l~~  483 (597)
T 2xpi_A          407 GPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ--YDPLLLNELGV  483 (597)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CChHHHHHHHH
Confidence            4566677777888888888888888887653 24677888888888888888888888888876532  23457888888


Q ss_pred             HHHHcCCHhHHHHHHHHHHHC----CCCCCh-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAF----DRKPPE-KSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~----Gi~PD~-~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +|++.|++++|.++|++|.+.    +..|+. ..+|..+..+|.+.|++++|..+++++..+
T Consensus       484 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  545 (597)
T 2xpi_A          484 VAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLL  545 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            888888888888888888765    777773 367888888888888888888888776554

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.33  E-value=4.2e-11  Score=114.87  Aligned_cols=128  Identities=2%  Similarity=-0.167  Sum_probs=60.6

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      .+...+.+.|++++|.++|+.|.+.. ..+..+|+.|+.+|++.|+.++|.++|++|...+.  .+..+|+.++.+|++.
T Consensus       378 ~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~~~~~  454 (597)
T 2xpi_A          378 AVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ--GTHLPYLFLGMQHMQL  454 (597)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT--TCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--cchHHHHHHHHHHHHc
Confidence            33444445555555555555544321 12344555555555555555555555555544321  1223455555555555


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |++++|.++|++|.+..  |+...+|+.++..|++.|++++|.++|+++..+.
T Consensus       455 g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  505 (597)
T 2xpi_A          455 GNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLV  505 (597)
T ss_dssp             TCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhh
Confidence            55555555555554432  2223445555555555555555555555554443

>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=98.88  E-value=1.6e-07  Score=70.43  Aligned_cols=127  Identities=16%  Similarity=0.178  Sum_probs=104.3

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      .+...+...|++++|..++..+.+.. ..+..+|..+...|...|+.++|..+|+++...+.  .....|..+...|.+.
T Consensus         6 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            6 NLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP--RSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC--CchHHHHHHHHHHHHh
Confidence            34455677899999999999988754 24667888899999999999999999999987542  2345688899999999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |++++|..+|.++....  |+...++..+...|...|++++|...++++..+
T Consensus        83 ~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999998754  332466788899999999999999999887654

>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=98.83  E-value=3.5e-07  Score=83.26  Aligned_cols=131  Identities=10%  Similarity=0.060  Sum_probs=97.0

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      ..+..+...+.+.|++++|++.++.+.+.. +.+..+|+.|...|.+.|++++|.++|+++....  +....+|+.+...
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~  314 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHH
Confidence            344455666778888888888888887643 1245678888888888888888888888887653  1233568888888


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |.+.|++++|.++|+++.+.  .|+...++..+...|.+.|++++|...++++..+
T Consensus       315 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          315 KREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            88888888888888887753  4654567788888888888888888888776543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.74  E-value=5.3e-07  Score=81.31  Aligned_cols=144  Identities=17%  Similarity=0.126  Sum_probs=94.7

Q ss_pred             chHHHHHHHHHHccCCCCHHH-HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Q 047178           91 EDVYGTLDAWVAWEQNFPVGS-LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEK  169 (287)
Q Consensus        91 ~~v~~~Ld~~~~~~~~~~~~s-~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~e  169 (287)
                      +.....++.+......+.... +..+-..+...|++++|++.+..      ..+..++..+...|.+.|+.++|.+.|++
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            334455666544321122222 23333556788888888887765      45677888888888888888888888888


Q ss_pred             hhhCCCCCCCh--hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          170 RIGIDLHSVPW--QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       170 M~~~g~~sv~~--~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      +...+-  .+.  ......+..+...|++++|+.+|+++.+.  .|+....++.+..+|.+.|++++|+..+++...
T Consensus       156 ~~~~~p--~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          156 MQDQDE--DATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHCT--TCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhhCc--CcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            876541  111  01122334444558888888888888876  354457778888888888888888888886544

>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=98.70  E-value=1.3e-06  Score=79.34  Aligned_cols=129  Identities=12%  Similarity=0.066  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      +..+-..+...+++++|+..+....+.. +.+..+|+.|...|.+.|++++|.+.|+++...+-  ....+|+.+...|.
T Consensus       206 ~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~~  282 (388)
T 1w3b_A          206 YINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP--HFPDAYCNLANALK  282 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS--SCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC--CCHHHHHHHHHHHH
Confidence            3444455667777888877777766532 22467889999999999999999999999987642  23357899999999


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +.|++++|.++|+++.+.  .|+...++..+...|...|++++|...++++..+
T Consensus       283 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  334 (388)
T 1w3b_A          283 EKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV  334 (388)
T ss_dssp             HHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS
T ss_pred             HcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            999999999999999875  3544678899999999999999999999876543

>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=98.69  E-value=4.4e-07  Score=83.51  Aligned_cols=124  Identities=8%  Similarity=-0.026  Sum_probs=103.3

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML  196 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~  196 (287)
                      ..+.+.|++++|++++..+.+.. ..+..++..+..+|.+.|+.++|.++|+++...+-  ....+|+.+...|.+.|++
T Consensus       151 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~  227 (450)
T 2y4t_A          151 LNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKN--DNTEAFYKISTLYYQLGDH  227 (450)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC--SCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCCH
Confidence            34788899999999999998753 34678899999999999999999999999986532  2346799999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCChHHHHHHH------------HHHHHhcCCHHHHHHHHHHHhHH
Q 047178          197 ERLIKLFKGLEAFDRKPPEKSIVQRV------------ADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       197 eeA~~Lf~eM~~~Gi~PD~~~Ty~sL------------I~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ++|+.+|+++...  .|+....+..+            ...|...|++++|..+++++..+
T Consensus       228 ~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~  286 (450)
T 2y4t_A          228 ELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT  286 (450)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9999999999854  56654545544            78899999999999999987654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.69  E-value=1.7e-06  Score=71.11  Aligned_cols=163  Identities=10%  Similarity=0.034  Sum_probs=121.4

Q ss_pred             HHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc-
Q 047178           79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD-  157 (287)
Q Consensus        79 Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~-  157 (287)
                      +...+...|+...++ ..+....... .-....+..+...+...|++++|.+++....+.. ..+..+|..+...|... 
T Consensus        14 ~~~~~~~~~~~~~A~-~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~   90 (225)
T 2vq2_A           14 LAMEYMRGQDYRQAT-ASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRL   90 (225)
T ss_dssp             HHHHHHHTTCHHHHH-HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhHHHHH-HHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhc
Confidence            444566667765443 2233332221 1124455556667888999999999999988753 23667899999999999 


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHH
Q 047178          158 HRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKER  237 (287)
Q Consensus       158 G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~  237 (287)
                      |+.++|..+|+++...+..+.....|..+...|.+.|++++|+..|.++....  |+....+..+...|...|++++|..
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~  168 (225)
T 2vq2_A           91 NRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAGQLGDADY  168 (225)
T ss_dssp             CCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999998722211123578889999999999999999999998753  4435678889999999999999999


Q ss_pred             HHHHHhHHH
Q 047178          238 VLEKYKDLF  246 (287)
Q Consensus       238 ll~~m~~l~  246 (287)
                      ++++...+.
T Consensus       169 ~~~~~~~~~  177 (225)
T 2vq2_A          169 YFKKYQSRV  177 (225)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhC
Confidence            999877654

>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=98.68  E-value=1.4e-06  Score=73.79  Aligned_cols=162  Identities=10%  Similarity=-0.017  Sum_probs=121.8

Q ss_pred             HHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC
Q 047178           79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH  158 (287)
Q Consensus        79 Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G  158 (287)
                      +...+...|+...++ ..+....... .-....+..+...+...|++++|++++....+.. ..+..+|..+...|...|
T Consensus        43 ~a~~~~~~~~~~~A~-~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g  119 (252)
T 2ho1_A           43 LGLGYLQRGNTEQAK-VPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQK  119 (252)
T ss_dssp             HHHHHHHTTCTGGGH-HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCChHHHH-HHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHh
Confidence            344566677776653 2333333221 1224455566667889999999999999988753 236678999999999999


Q ss_pred             CHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHH
Q 047178          159 RAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERV  238 (287)
Q Consensus       159 ~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~l  238 (287)
                      +.++|.++|+++...+..+.....|..+...|.+.|++++|.+.|.+.....  |+...++..+...|...|++++|..+
T Consensus       120 ~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~  197 (252)
T 2ho1_A          120 RYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPARQY  197 (252)
T ss_dssp             CHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999998722221223568889999999999999999999988754  44356788899999999999999999


Q ss_pred             HHHHhHH
Q 047178          239 LEKYKDL  245 (287)
Q Consensus       239 l~~m~~l  245 (287)
                      +++...+
T Consensus       198 ~~~~~~~  204 (252)
T 2ho1_A          198 YDLFAQG  204 (252)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHh
Confidence            9887653

>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=98.67  E-value=2.9e-06  Score=71.91  Aligned_cols=134  Identities=9%  Similarity=0.000  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      ...+..+...+...|++++|++++..+.+.+..| +...|..+...|.+.|+.++|...|++....+-  .....|..+.
T Consensus       105 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~la  182 (252)
T 2ho1_A          105 ARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR--NQPSVALEMA  182 (252)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS--CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc--ccHHHHHHHH
Confidence            3445556667888999999999999987744445 456788899999999999999999999887542  2345788899


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ..|.+.|++++|..+|.+.....  |+....+..+...|...|+.++|...++++..++
T Consensus       183 ~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          183 DLLYKEREYVPARQYYDLFAQGG--GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999999999999999988743  4435668888889999999999999999887654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.64  E-value=6e-06  Score=67.79  Aligned_cols=135  Identities=8%  Similarity=-0.125  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHHHc-cchhhHHHHHHHHHHCCCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHH
Q 047178          109 VGSLKKALLALEKE-QQWHRVVQVIKWMLSKGQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSM  186 (287)
Q Consensus       109 ~~s~~~ai~~L~k~-~~~~~A~qv~~~M~~~G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsm  186 (287)
                      ...+..+...+... |++++|+.+++.+.+.+..|+ ..+|..+...|.+.|+.++|...|+++...+-  .....|..+
T Consensus        76 ~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l  153 (225)
T 2vq2_A           76 AEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP--QFPPAFKEL  153 (225)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCchHHHHH
Confidence            34455566677888 999999999999887433343 56788899999999999999999999887542  234568889


Q ss_pred             HHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          187 IAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       187 IsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ...|.+.|++++|.++|++.....-. +....+..+...+...|+.+++..+++.+..+.
T Consensus       154 a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          154 ARTKMLAGQLGDADYYFKKYQSRVEV-LQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999999999999999998875321 324667778888899999999999888766543

>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=98.62  E-value=3.5e-06  Score=66.73  Aligned_cols=135  Identities=16%  Similarity=0.092  Sum_probs=110.4

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+..+...+...|++++|.+.++.+.+.. ..+..+|..+...|...|+.++|.++|++.....-  .....|..+..
T Consensus        42 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a~  118 (186)
T 3as5_A           42 VDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANP--INFNVRFRLGV  118 (186)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCc--HhHHHHHHHHH
Confidence            3445556667788999999999999988753 34667889999999999999999999999877542  23356888899


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      .|.+.|++++|.+.|.+.....  |+...++..+...|...|+.++|...+++...+...
T Consensus       119 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  176 (186)
T 3as5_A          119 ALDNLGRFDEAIDSFKIALGLR--PNEGKVHRAIAFSYEQMGRHEEALPHFKKANELDEG  176 (186)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHcCcHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            9999999999999999988764  444577888999999999999999999988776543

>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=98.60  E-value=2.3e-06  Score=78.72  Aligned_cols=130  Identities=10%  Similarity=-0.043  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+......+.+.|++++|+.+|..+.+. ...+..+|..+..+|.+.|+.++|...|+++...+-  .....|..+...|
T Consensus        28 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~  104 (450)
T 2y4t_A           28 KHLELGKKLLAAGQLADALSQFHAAVDG-DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM--DFTAARLQRGHLL  104 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC--CcHHHHHHHHHHH
Confidence            3455666788999999999999999875 334688899999999999999999999999987652  2345799999999


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChH---HHHHHHHH------------HHHhcCCHHHHHHHHHHHhHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEK---SIVQRVAD------------AYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~---~Ty~sLI~------------a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+.|++++|.++|+++...  .|+..   ..+..++.            .|...|++++|..+++++..+
T Consensus       105 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  172 (450)
T 2y4t_A          105 LKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV  172 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999875  46644   45555544            489999999999999987654

>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=98.54  E-value=3.1e-06  Score=75.42  Aligned_cols=125  Identities=10%  Similarity=0.049  Sum_probs=101.6

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHh
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLE  197 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~e  197 (287)
                      +...|++++|++++..+.+..-.. +..+|..+...|.+.|++++|...|++....+-  ....+|+.+...|.+.|+++
T Consensus       191 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~--~~~~~~~~l~~~~~~~g~~~  268 (368)
T 1fch_A          191 LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP--NDYLLWNKLGATLANGNQSE  268 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHH
T ss_pred             HhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--CCHHHHHHHHHHHHHcCCHH
Confidence            336677888888888777643221 477899999999999999999999999887542  23357899999999999999


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          198 RLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       198 eA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +|+..|.++...  .|+...++..+...|.+.|++++|...+++...+..
T Consensus       269 ~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  316 (368)
T 1fch_A          269 EAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQR  316 (368)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            999999998875  455557789999999999999999999998877654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.52  E-value=9.1e-06  Score=67.87  Aligned_cols=133  Identities=12%  Similarity=0.054  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+..+...+...|++++|+++++.+.+.. ..+..+|..+...|.+.|+.++|..+|++.....-  .....|..+..
T Consensus        91 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~  167 (243)
T 2q7f_A           91 ATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE--NDTEARFQFGM  167 (243)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT--TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC--ccHHHHHHHHH
Confidence            3444555666778889999999998887753 24567788888899999999999999998876542  23356888888


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .|.+.|++++|...|.+.....  |+...++..+...|...|++++|...+++...+.
T Consensus       168 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          168 CLANEGMLDEALSQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999999999999999887653  4434678888889999999999999988876654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.50  E-value=1.5e-06  Score=78.11  Aligned_cols=128  Identities=9%  Similarity=-0.031  Sum_probs=105.7

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQG-STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~-pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      ...+.+.|++++|++++..+.+..-. .+..+|..|...|.+.|+.++|...|++.....-  ....+|+.+...|.+.|
T Consensus       184 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~~~~g  261 (365)
T 4eqf_A          184 SKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRP--EDYSLWNRLGATLANGD  261 (365)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcC
Confidence            45677889999999999999886432 2678999999999999999999999999987542  23457999999999999


Q ss_pred             CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          195 MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ++++|++.|++..+.  .|+...++..+...|...|++++|...+++...+.-
T Consensus       262 ~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  312 (365)
T 4eqf_A          262 RSEEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQR  312 (365)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            999999999999875  466567789999999999999999999998877654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.48  E-value=9.5e-06  Score=68.02  Aligned_cols=134  Identities=11%  Similarity=-0.067  Sum_probs=104.6

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCC------------------------CCC-ChhHHHHHHHHHHHcCCHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKG------------------------QGS-TMGTCGQLIRALDMDHRAEEAHKF  166 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G------------------------~~p-d~~TYnaLI~~y~K~G~leeA~~l  166 (287)
                      +..+...+.+.+++++|++.+....+..                        ..| +...|..+-..|...|+.++|...
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~  161 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKA  161 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHH
Confidence            3444555667777777777777766532                        222 345688889999999999999999


Q ss_pred             HHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          167 WEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       167 F~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |++....+-  ....+|..+-..|.+.|++++|+..|.+..+..  |+...+|..+...|...|+.++|...+++...+.
T Consensus       162 ~~~a~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          162 YTEMIKRAP--EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCc--ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            999987542  234578889999999999999999999998754  5545778888999999999999999999888877


Q ss_pred             hhh
Q 047178          247 TEK  249 (287)
Q Consensus       247 ~~~  249 (287)
                      ..+
T Consensus       238 ~~~  240 (258)
T 3uq3_A          238 AEV  240 (258)
T ss_dssp             HHH
T ss_pred             hhh
Confidence            544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=98.47  E-value=3.2e-06  Score=76.17  Aligned_cols=153  Identities=11%  Similarity=0.063  Sum_probs=110.5

Q ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChh-HHHHHHHHHH
Q 047178           77 NFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMG-TCGQLIRALD  155 (287)
Q Consensus        77 ~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~-TYnaLI~~y~  155 (287)
                      ..|.+.+..+|+.+.++ ..+..    ........+..+...+...++.++|++.++.+...+..|+.. .+..+=..|.
T Consensus        38 ~~l~r~yi~~g~~~~al-~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~  112 (291)
T 3mkr_A           38 VFLYRAYLAQRKYGVVL-DEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYF  112 (291)
T ss_dssp             HHHHHHHHHTTCHHHHH-HHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHH-HHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHH
Confidence            44667777778764332 22211    122223455556667788889999999999999888767544 4555558899


Q ss_pred             HcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHH----HHHHhcCC
Q 047178          156 MDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVA----DAYEVLGL  231 (287)
Q Consensus       156 K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI----~a~~k~G~  231 (287)
                      ..|+.++|.++|++   .    .....|..+...|.+.|++++|.+.|+++....  ||. . ...+.    ..+...|+
T Consensus       113 ~~g~~~~Al~~l~~---~----~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~-~-~~~l~~a~~~l~~~~~~  181 (291)
T 3mkr_A          113 YDQNPDAALRTLHQ---G----DSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDA-T-LTQLATAWVSLAAGGEK  181 (291)
T ss_dssp             HTTCHHHHHHHHTT---C----CSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC-H-HHHHHHHHHHHHHCTTH
T ss_pred             HCCCHHHHHHHHhC---C----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCc-H-HHHHHHHHHHHHhCchH
Confidence            99999999999987   1    233468889999999999999999999999874  774 3 23333    33444599


Q ss_pred             HHHHHHHHHHHhHH
Q 047178          232 LEEKERVLEKYKDL  245 (287)
Q Consensus       232 leeA~~ll~~m~~l  245 (287)
                      +++|..+|+++...
T Consensus       182 ~~eA~~~~~~~l~~  195 (291)
T 3mkr_A          182 LQDAYYIFQEMADK  195 (291)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999987664

>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=98.45  E-value=5.3e-06  Score=65.69  Aligned_cols=127  Identities=11%  Similarity=0.109  Sum_probs=103.1

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      .....+...|++++|++.++.+.+. ...+..+|..+...|...|+.++|..+|++....+-  .....|..+...|.+.
T Consensus        13 ~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           13 DKGISHAKAGRYSQAVMLLEQVYDA-DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP--DNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTTTCCT-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh-CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHh
Confidence            3445567789999999999877553 224677899999999999999999999999887542  2345688899999999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |++++|.+.|+++....  |+....+..+...|...|++++|...+++...+
T Consensus        90 ~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  139 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGL  139 (186)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhc
Confidence            99999999999988753  433567888889999999999999999886654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.41  E-value=6.3e-06  Score=69.14  Aligned_cols=164  Identities=9%  Similarity=0.047  Sum_probs=121.1

Q ss_pred             HHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCC--CCC----hhHHHHHH
Q 047178           78 FLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQ--GST----MGTCGQLI  151 (287)
Q Consensus        78 ~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~--~pd----~~TYnaLI  151 (287)
                      .+-..+...|+...++ ..+.......  .....+..+-..+...|++++|++.+....+..-  .++    ..+|..+-
T Consensus        10 ~~g~~~~~~~~~~~A~-~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~   86 (258)
T 3uq3_A           10 AEGNKFYKARQFDEAI-EHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIG   86 (258)
T ss_dssp             HHHHHHHHTTCHHHHH-HHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHH-HHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHH
Confidence            3445566667765553 2333333333  2344555666778899999999999998876421  122    57889999


Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCC------------------------CCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHH
Q 047178          152 RALDMDHRAEEAHKFWEKRIGID------------------------LHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLE  207 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g------------------------~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~  207 (287)
                      ..|.+.|+.++|...|++.....                        ..+.....|..+-..|.+.|++++|+..|.+..
T Consensus        87 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  166 (258)
T 3uq3_A           87 NAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMI  166 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            99999999999999999998732                        111122468889999999999999999999998


Q ss_pred             HCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          208 AFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       208 ~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ...  |+...+|..+...|...|++++|...+++...+.
T Consensus       167 ~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          167 KRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            864  5445778889999999999999999999877653

>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=98.38  E-value=4.1e-05  Score=66.49  Aligned_cols=132  Identities=8%  Similarity=-0.039  Sum_probs=88.6

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+..+...+...|++++|++.+....+..- .+..++..+-..|...|+.++|.++|++.....-  .....|+.+...|
T Consensus       127 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~--~~~~~~~~l~~~~  203 (330)
T 3hym_B          127 AWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAP--EDPFVMHEVGVVA  203 (330)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT--TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCC--CChHHHHHHHHHH
Confidence            344455566777788888888777766432 2345566677778888888888888887766542  2335677777888


Q ss_pred             HHcCCHhHHHHHHHHHHHCC-------CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          191 YRNNMLERLIKLFKGLEAFD-------RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~G-------i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+.|++++|...|.+.....       ..|+...++..+...|...|++++|...+++...+
T Consensus       204 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  265 (330)
T 3hym_B          204 FQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVL  265 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Confidence            88888888888887776531       01222345677777788888888888877765544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.37  E-value=1.8e-05  Score=65.99  Aligned_cols=132  Identities=9%  Similarity=0.026  Sum_probs=107.7

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+..+...+...|++++|++.++...+.. ..+..+|..+...|...|+.++|.++|+++...+-  .....|..+..
T Consensus        57 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a~  133 (243)
T 2q7f_A           57 AIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAGM--ENGDLFYMLGT  133 (243)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTC--CSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC--CCHHHHHHHHH
Confidence            3344455666788999999999999988753 24677899999999999999999999999887542  23456888999


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .|.+.|++++|..+|.++....  |+....+..+...|...|++++|...+++...+
T Consensus       134 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  188 (243)
T 2q7f_A          134 VLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQ  188 (243)
T ss_dssp             HHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999988753  433467888899999999999999999876654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.36  E-value=5.5e-06  Score=74.41  Aligned_cols=164  Identities=9%  Similarity=0.023  Sum_probs=105.9

Q ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH
Q 047178           77 NFLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM  156 (287)
Q Consensus        77 ~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K  156 (287)
                      ..+...+...|+...++ ..+....... .-....+..+-..+.+.|++++|++.|+...+.. ..+..+|..|...|.+
T Consensus        69 ~~~~~~~~~~g~~~~A~-~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  145 (365)
T 4eqf_A           69 FEEGLKRLKEGDLPVTI-LFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTN  145 (365)
T ss_dssp             HHHHHHHHHHTCHHHHH-HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHH-HHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHc
Confidence            34455566666654442 2222222211 1123445555566677777777777777766642 2345667777777777


Q ss_pred             cCCHHHHHHHHHHhhhC--------------------------------------------CCCCCChhhHHHHHHHHHH
Q 047178          157 DHRAEEAHKFWEKRIGI--------------------------------------------DLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       157 ~G~leeA~~lF~eM~~~--------------------------------------------g~~sv~~~tyNsmIsgY~k  192 (287)
                      .|+.++|..+|+++...                                            +-...+..+|+.+...|.+
T Consensus       146 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~  225 (365)
T 4eqf_A          146 TSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHL  225 (365)
T ss_dssp             TTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHH
Confidence            77777777777766431                                            1000023468888889999


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .|++++|++.|.+....  .|+...+|..+..+|...|++++|...+++...+
T Consensus       226 ~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  276 (365)
T 4eqf_A          226 SGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEI  276 (365)
T ss_dssp             HTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            99999999999988775  3554577888899999999999999988876554

>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=6.4e-06  Score=71.09  Aligned_cols=138  Identities=12%  Similarity=0.130  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHC------CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC------CCCC
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSK------GQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGI------DLHS  177 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~------G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~------g~~s  177 (287)
                      .+..+-..+...|++++|.+.+....+.      +..| ...+|..+-..|...|+.++|..+|++....      +-.+
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  150 (311)
T 3nf1_A           71 MLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHP  150 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCCh
Confidence            3445566678899999999999887764      2223 3567889999999999999999999998753      1111


Q ss_pred             CChhhHHHHHHHHHHcCCHhHHHHHHHHHHHC------CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          178 VPWQLCKSMIAIYYRNNMLERLIKLFKGLEAF------DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       178 v~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~------Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      .....|+.+-..|.+.|++++|+++|.+....      +-.|+...++..+...|...|++++|...+++...+...
T Consensus       151 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  227 (311)
T 3nf1_A          151 DVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHE  227 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            11246888999999999999999999999765      445665567888899999999999999999988876543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.35  E-value=7.1e-06  Score=70.81  Aligned_cols=136  Identities=13%  Similarity=0.158  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC-------CCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC------CCCCC
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK-------GQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGI------DLHSV  178 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~-------G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~------g~~sv  178 (287)
                      +..+...+...|++++|+.++..+.+.       .......+|..+-..|...|+.++|..+|++....      +-.+.
T Consensus        30 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  109 (311)
T 3nf1_A           30 LHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPA  109 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChH
Confidence            334455567788888888888887763       22234567888999999999999999999988653      11111


Q ss_pred             ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHC------CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          179 PWQLCKSMIAIYYRNNMLERLIKLFKGLEAF------DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       179 ~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~------Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ...+|+.+-..|...|++++|.+.|.+....      +-.|+...++..+...|...|++++|..++++...++.
T Consensus       110 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          110 VAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            1246889999999999999999999998764      44565556788888899999999999999998877754

>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=98.35  E-value=5.9e-05  Score=65.51  Aligned_cols=161  Identities=9%  Similarity=-0.084  Sum_probs=115.8

Q ss_pred             HHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHcc-chhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc
Q 047178           79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQ-QWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD  157 (287)
Q Consensus        79 Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~-~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~  157 (287)
                      +...+...|+...++ ..+....... .-....+..+-..+...| ++++|.+.+....+.. ..+..+|..+-..|...
T Consensus        62 ~~~~~~~~~~~~~A~-~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  138 (330)
T 3hym_B           62 HIGTLVELNKANELF-YLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVE  138 (330)
T ss_dssp             HHHHHHHHTCHHHHH-HHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHH-HHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHc
Confidence            445555556554432 2222222221 112233444555667778 8999999999887643 23567789999999999


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHH
Q 047178          158 HRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKER  237 (287)
Q Consensus       158 G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~  237 (287)
                      |+.++|...|++.....-  .....|..+-..|...|++++|.+.|.+.....  |+...++..+...|...|++++|..
T Consensus       139 ~~~~~A~~~~~~a~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~  214 (330)
T 3hym_B          139 SEHDQAMAAYFTAAQLMK--GCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA--PEDPFVMHEVGVVAFQNGEWKTAEK  214 (330)
T ss_dssp             TCHHHHHHHHHHHHHHTT--TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhcc--ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcccHHHHHH
Confidence            999999999999876542  122457778899999999999999999988753  5545778889999999999999999


Q ss_pred             HHHHHhHHH
Q 047178          238 VLEKYKDLF  246 (287)
Q Consensus       238 ll~~m~~l~  246 (287)
                      .+++...+.
T Consensus       215 ~~~~a~~~~  223 (330)
T 3hym_B          215 WFLDALEKI  223 (330)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            998877765

>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=98.34  E-value=1.7e-05  Score=70.58  Aligned_cols=163  Identities=8%  Similarity=0.002  Sum_probs=104.7

Q ss_pred             HHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc
Q 047178           78 FLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD  157 (287)
Q Consensus        78 ~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~  157 (287)
                      .+-..+...|+...++ ..+....... .-....+..+...+.+.|++++|+..+..+.+.. ..+..+|..+...|...
T Consensus        69 ~~~~~~~~~g~~~~A~-~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  145 (368)
T 1fch_A           69 EEGLRRLQEGDLPNAV-LLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  145 (368)
T ss_dssp             HHHHHHHHTTCHHHHH-HHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHH-HHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHc
Confidence            3455556666654442 2222322221 1123344445555667777777777777766543 23556677777777777


Q ss_pred             CCHHHHHHHHHHhhhCCCC-----------------------------------------------CC--ChhhHHHHHH
Q 047178          158 HRAEEAHKFWEKRIGIDLH-----------------------------------------------SV--PWQLCKSMIA  188 (287)
Q Consensus       158 G~leeA~~lF~eM~~~g~~-----------------------------------------------sv--~~~tyNsmIs  188 (287)
                      |+.++|.+.|+++...+-.                                               +.  ...+|+.+..
T Consensus       146 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~  225 (368)
T 1fch_A          146 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  225 (368)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHH
Confidence            7777777777665542210                                               01  2346788888


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .|.+.|++++|+..|.++...  .|+...+|..+...|...|++++|...+++...+
T Consensus       226 ~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  280 (368)
T 1fch_A          226 LFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL  280 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999988765  3554567888888999999999999998876554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.33  E-value=1.1e-05  Score=68.64  Aligned_cols=129  Identities=9%  Similarity=-0.127  Sum_probs=102.7

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+..+-..+...|++++|++.|....+.. ..+..+|..|-..|...|++++|...|++....+-  .....|..+-..|
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~--~~~~~~~~la~~~  121 (275)
T 1xnf_A           45 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP--TYNYAHLNRGIAL  121 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCc--cccHHHHHHHHHH
Confidence            34455666788999999999999988753 23678899999999999999999999999887542  2235688899999


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+.|++++|.+.|+++...  .|+. ..+...+..+...|++++|...+.+....
T Consensus       122 ~~~g~~~~A~~~~~~a~~~--~~~~-~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A          122 YYGGRDKLAQDDLLAFYQD--DPND-PFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTC-HHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh--CCCC-hHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999999999999999874  4664 44555666677789999999999776554

>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=98.32  E-value=1.1e-05  Score=60.20  Aligned_cols=96  Identities=18%  Similarity=0.226  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADA  225 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a  225 (287)
                      .|..+...|...|++++|..+|+++...+.  .+...|..+...|...|++++|..+|.++...+  |+....+..+...
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~   78 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP--RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNA   78 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC--cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHH
Confidence            577888999999999999999999987542  234568889999999999999999999998764  4334668888899


Q ss_pred             HHhcCCHHHHHHHHHHHhHH
Q 047178          226 YEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       226 ~~k~G~leeA~~ll~~m~~l  245 (287)
                      |...|++++|..+++++..+
T Consensus        79 ~~~~~~~~~A~~~~~~~~~~   98 (136)
T 2fo7_A           79 YYKQGDYDEAIEYYQKALEL   98 (136)
T ss_dssp             HHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            99999999999999887654

>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=98.31  E-value=1.1e-05  Score=70.21  Aligned_cols=124  Identities=9%  Similarity=0.084  Sum_probs=104.1

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      +...|++++|++++..+.+.. ..+..++..+...|.+.|+.++|..+|++....+-  ....+|..+...|.+.|++++
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~  224 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRP--DDAQLWNKLGATLANGNRPQE  224 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHcCCHHH
Confidence            667788999999999988753 23678899999999999999999999999987542  234578999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      |...|.+.....  |+...++..+...|...|++++|...+++...+..
T Consensus       225 A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~  271 (327)
T 3cv0_A          225 ALDAYNRALDIN--PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQV  271 (327)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            999999988753  54457788999999999999999999988766543

>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=98.29  E-value=1.5e-05  Score=69.32  Aligned_cols=134  Identities=10%  Similarity=0.036  Sum_probs=108.8

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+..+...+.+.|++++|++.+..+.+.. ..+..+|..+...|.+.|+.++|...|++....+-  .....|..+..
T Consensus       172 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~l~~  248 (327)
T 3cv0_A          172 AQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINP--GYVRVMYNMAV  248 (327)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CCHHHHHHHHH
Confidence            3445556667888999999999999988753 24567899999999999999999999999877542  23457888999


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCC------------hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPP------------EKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD------------~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .|.+.|++++|.+.|++.....  |+            ...++..+..+|...|+.++|..++++....+.
T Consensus       249 ~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~  317 (327)
T 3cv0_A          249 SYSNMSQYDLAAKQLVRAIYMQ--VGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPFA  317 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--TTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcc
Confidence            9999999999999999987643  33            346788999999999999999999876555543

>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=98.29  E-value=8.8e-06  Score=68.85  Aligned_cols=137  Identities=12%  Similarity=0.140  Sum_probs=106.9

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC------CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC-----CC-CCC
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK------GQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGI-----DL-HSV  178 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~------G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~-----g~-~sv  178 (287)
                      +..+-..+...|++++|++.+....+.      +-.| ...+|+.|-..|...|++++|.+.|++....     +. .+.
T Consensus        46 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  125 (283)
T 3edt_B           46 LNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPD  125 (283)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            344555677889999999999887754      2223 3567899999999999999999999988653     11 011


Q ss_pred             ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHC------CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          179 PWQLCKSMIAIYYRNNMLERLIKLFKGLEAF------DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       179 ~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~------Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      ...+|..+-..|...|++++|.+.|.+....      +-.|+...++..+...|...|++++|..++++...+...
T Consensus       126 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  201 (283)
T 3edt_B          126 VAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHE  201 (283)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1246888999999999999999999998765      335655567888899999999999999999998887544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.28  E-value=2e-05  Score=58.26  Aligned_cols=90  Identities=13%  Similarity=0.137  Sum_probs=43.2

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      ...+...+++++|.+++..+.+.. ..+..++..+...|.+.|+.++|..+|+++...+-  ....+|..+...|.+.|+
T Consensus        16 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~la~~~~~~~~   92 (125)
T 1na0_A           16 GNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP--NNAEAWYNLGNAYYKQGD   92 (125)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC--ccHHHHHHHHHHHHHhcC
Confidence            334445555555555555544432 12334455555555555555555555555544321  112234445555555555


Q ss_pred             HhHHHHHHHHHHH
Q 047178          196 LERLIKLFKGLEA  208 (287)
Q Consensus       196 ~eeA~~Lf~eM~~  208 (287)
                      +++|...|.++..
T Consensus        93 ~~~A~~~~~~~~~  105 (125)
T 1na0_A           93 YDEAIEYYQKALE  105 (125)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.28  E-value=3.7e-05  Score=65.36  Aligned_cols=132  Identities=8%  Similarity=-0.164  Sum_probs=97.6

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+..+-..+...|++++|+..+....+.. ..+..+|..+-..|.+.|+.++|...|+++...+   +....+..++.
T Consensus        77 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~---~~~~~~~~~~~  152 (275)
T 1xnf_A           77 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD---PNDPFRSLWLY  152 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCChHHHHHHH
Confidence            4455566667889999999999999988753 2356789999999999999999999999998754   22223444555


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .+...|++++|...|.+..... .++ ...+. ++..+...+..++|...+.+......
T Consensus       153 ~~~~~~~~~~A~~~~~~~~~~~-~~~-~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~  208 (275)
T 1xnf_A          153 LAEQKLDEKQAKEVLKQHFEKS-DKE-QWGWN-IVEFYLGNISEQTLMERLKADATDNT  208 (275)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHS-CCC-STHHH-HHHHHTTSSCHHHHHHHHHHHCCSHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-Ccc-hHHHH-HHHHHHHhcCHHHHHHHHHHHhcccc
Confidence            6677899999999998777643 233 24343 66677888888888888877655433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.25  E-value=0.00022  Score=57.72  Aligned_cols=161  Identities=14%  Similarity=0.034  Sum_probs=117.7

Q ss_pred             HHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC
Q 047178           79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH  158 (287)
Q Consensus        79 Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G  158 (287)
                      |-..+...|+.+.++ ..+...... ++-....+..+-..+.+.|++++|++.+....... ..+...+..+-..+...+
T Consensus        11 lG~~~~~~g~~~~A~-~~~~~al~~-~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   87 (184)
T 3vtx_A           11 IGDKKRTKGDFDGAI-RAYKKVLKA-DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANFMID   87 (184)
T ss_dssp             HHHHHHHHTCHHHHH-HHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHH-HHHHHHHHh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHcC
Confidence            344455556655442 222222221 11123445556667888999999999998877643 235567777888899999


Q ss_pred             CHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHH
Q 047178          159 RAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERV  238 (287)
Q Consensus       159 ~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~l  238 (287)
                      +.++|...|.+.....-  .....|..+-..|.+.|++++|++.|++..+.  .|+...+|..+-..|.+.|++++|...
T Consensus        88 ~~~~a~~~~~~a~~~~~--~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~  163 (184)
T 3vtx_A           88 EKQAAIDALQRAIALNT--VYADAYYKLGLVYDSMGEHDKAIEAYEKTISI--KPGFIRAYQSIGLAYEGKGLRDEAVKY  163 (184)
T ss_dssp             CHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCc--cchHHHHHHHHHHHHhCCchhHHHHHHHHHHh--cchhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999876542  23456888899999999999999999998875  465567788899999999999999999


Q ss_pred             HHHHhHHH
Q 047178          239 LEKYKDLF  246 (287)
Q Consensus       239 l~~m~~l~  246 (287)
                      +++..++-
T Consensus       164 ~~~al~~~  171 (184)
T 3vtx_A          164 FKKALEKE  171 (184)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHhCC
Confidence            99876653

>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=98.25  E-value=4.1e-05  Score=63.30  Aligned_cols=126  Identities=14%  Similarity=0.078  Sum_probs=101.9

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      -..+...|++++|++.+...    +.|+..+|..+-..|.+.|+.++|...|++....+-  .....|..+-..|.+.|+
T Consensus        13 g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~--~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A           13 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK--HLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--cchHHHHHHHHHHHHccc
Confidence            33466789999999888765    467888999999999999999999999999876542  233568889999999999


Q ss_pred             HhHHHHHHHHHHHCC--------------CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          196 LERLIKLFKGLEAFD--------------RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~G--------------i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +++|++.|.+.....              ..|+....+..+-.+|...|++++|...+++...+.-
T Consensus        87 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           87 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            999999999988743              3344445677888899999999999999988766543

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.25  E-value=1.3e-05  Score=67.88  Aligned_cols=135  Identities=13%  Similarity=0.145  Sum_probs=104.2

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHC------CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC------CCCC
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSK------GQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGI------DLHS  177 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~------G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~------g~~s  177 (287)
                      .+..+-..+...|++++|++.+....+.      ...| ...+|..|-..|...|++++|..+|++....      ...+
T Consensus        87 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  166 (283)
T 3edt_B           87 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDP  166 (283)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            4455666778899999999999887754      1122 3567888999999999999999999998753      1111


Q ss_pred             CChhhHHHHHHHHHHcCCHhHHHHHHHHHHHC-----------------------------------------------C
Q 047178          178 VPWQLCKSMIAIYYRNNMLERLIKLFKGLEAF-----------------------------------------------D  210 (287)
Q Consensus       178 v~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~-----------------------------------------------G  210 (287)
                      ....+|..+-..|.+.|++++|.++|.+....                                               .
T Consensus       167 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (283)
T 3edt_B          167 NVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV  246 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC
Confidence            11246888999999999999999999988753                                               1


Q ss_pred             CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          211 RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       211 i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..|+...++..+...|...|++++|..++++...+
T Consensus       247 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          247 DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            23555567888889999999999999999886654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.23  E-value=6.4e-05  Score=55.51  Aligned_cols=98  Identities=17%  Similarity=0.214  Sum_probs=82.9

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      ..+|..+...|...|+.++|.++|+++...+-  ....+|..+...|.+.|++++|..+|+++....  |+...++..+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la   84 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP--NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLG   84 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc--CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHH
Confidence            46788889999999999999999999987542  234578889999999999999999999998753  44356788899


Q ss_pred             HHHHhcCCHHHHHHHHHHHhHH
Q 047178          224 DAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       224 ~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..|...|++++|...+++...+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           85 NAYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHh
Confidence            9999999999999999887665

>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=98.18  E-value=0.0001  Score=57.85  Aligned_cols=132  Identities=9%  Similarity=-0.041  Sum_probs=101.8

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+...|++++|...+....+.. ..+..+|..+-..|...|+.++|...|++....+-  .....|..+-..|.+.
T Consensus        18 ~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~~a~~~~~~   94 (166)
T 1a17_A           18 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK--KYIKGYYRRAASNMAL   94 (166)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc--ccHHHHHHHHHHHHHh
Confidence            34445678899999999999877642 23577888899999999999999999999877542  2334688888899999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHH--HHHHHHHhcCCHHHHHHHHHHHhHHHhhhh
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQ--RVADAYEVLGLLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~--sLI~a~~k~G~leeA~~ll~~m~~l~~~~~  250 (287)
                      |++++|...|.+.....  |+....+.  .+...+...|++++|...+.....++..+-
T Consensus        95 ~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~  151 (166)
T 1a17_A           95 GKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLD  151 (166)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             ccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHHhcccc
Confidence            99999999999988753  43223343  333347788999999999998888876544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.18  E-value=0.00018  Score=61.19  Aligned_cols=129  Identities=15%  Similarity=0.006  Sum_probs=95.3

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc-----------CCHHHHHHHHHHhhhCCCCCCC
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD-----------HRAEEAHKFWEKRIGIDLHSVP  179 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~-----------G~leeA~~lF~eM~~~g~~sv~  179 (287)
                      .+..+-..+.+.|++++|+..++..++.. +.+..+|..|-..|.+.           |+.++|...|++....+-  ..
T Consensus        41 a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P--~~  117 (217)
T 2pl2_A           41 ALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP--RY  117 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT--TC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc--cc
Confidence            34444555677888888888888877642 22456777788888888           888888888888876541  22


Q ss_pred             hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          180 WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       180 ~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ...|..+=..|.+.|++++|+..|++..+..  .+ ...+..+-..|...|++++|...+++...+
T Consensus       118 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~-~~~~~~la~~~~~~g~~~~A~~~~~~al~~  180 (217)
T 2pl2_A          118 APLHLQRGLVYALLGERDKAEASLKQALALE--DT-PEIRSALAELYLSMGRLDEALAQYAKALEQ  180 (217)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CC-HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457777778888888899988888887776  44 366777888888888888888888876554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.14  E-value=0.00026  Score=61.81  Aligned_cols=125  Identities=8%  Similarity=-0.023  Sum_probs=100.3

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      ...+...|++++|+++++.+.+.. +.+..++..+-..|.+.|+.++|...|++.....-  ....+|..+...|.+.|+
T Consensus       127 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~la~~~~~~~~  203 (359)
T 3ieg_A          127 ALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKS--DNTEAFYKISTLYYQLGD  203 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCS--CCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCC
Confidence            356788999999999999988753 34677899999999999999999999999987642  234578899999999999


Q ss_pred             HhHHHHHHHHHHHCCCCCChHHHHH------------HHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          196 LERLIKLFKGLEAFDRKPPEKSIVQ------------RVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~Gi~PD~~~Ty~------------sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +++|...|.+....  .|+....+.            .+...+...|++++|...+++...+
T Consensus       204 ~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  263 (359)
T 3ieg_A          204 HELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT  263 (359)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            99999999998864  344323332            2255688999999999999876654

>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=98.13  E-value=9.5e-05  Score=69.25  Aligned_cols=132  Identities=10%  Similarity=0.016  Sum_probs=107.7

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      ..+..+-..+...|++++|++.+....+.. ..+..+|..+-..|...|+.++|...|++....+-  .....|..+-..
T Consensus       277 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~la~~  353 (537)
T 3fp2_A          277 NSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP--ENVYPYIQLACL  353 (537)
T ss_dssp             HHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHH
Confidence            344445556678899999999999987753 24577899999999999999999999999987542  223568889999


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |.+.|++++|.++|.++....  |+...++..+...|...|++++|...+++...+.
T Consensus       354 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          354 LYKQGKFTESEAFFNETKLKF--PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            999999999999999998763  5444678888999999999999999999877665

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.12  E-value=7.4e-05  Score=69.27  Aligned_cols=133  Identities=12%  Similarity=0.037  Sum_probs=105.1

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+..+...+...|++++|++.+..+.+.. ..+..+|..+...|.+.|+.++|...|++....+-  .....|..+..
T Consensus       270 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~  346 (514)
T 2gw1_A          270 VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDP--ENIFPYIQLAC  346 (514)
T ss_dssp             HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCS--SCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCh--hhHHHHHHHHH
Confidence            4445556667788899999999998887643 23567888999999999999999999999887542  23346888899


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .|.+.|++++|..+|.++...  .|+...++..+...|...|++++|...+++...+.
T Consensus       347 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  402 (514)
T 2gw1_A          347 LAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELE  402 (514)
T ss_dssp             HTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhh
Confidence            999999999999999998865  34334567888889999999999999998876654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.11  E-value=0.00029  Score=61.50  Aligned_cols=131  Identities=14%  Similarity=0.062  Sum_probs=102.8

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCC----ChhHHHHH------------HHHHHHcCCHHHHHHHHHHhhh
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGS----TMGTCGQL------------IRALDMDHRAEEAHKFWEKRIG  172 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p----d~~TYnaL------------I~~y~K~G~leeA~~lF~eM~~  172 (287)
                      ...+..+...+...|++++|++.+....+.  .|    +...+..+            ...|...|+.++|.++|+++..
T Consensus        71 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~  148 (359)
T 3ieg_A           71 TAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILE  148 (359)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            344555666778889999999999988764  34    33344444            4788899999999999999877


Q ss_pred             CCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          173 IDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       173 ~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+-  .....|..+-..|.+.|++++|...|.+....  .|+...++..+...|...|++++|...+++...+
T Consensus       149 ~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  217 (359)
T 3ieg_A          149 VCV--WDAELRELRAECFIKEGEPRKAISDLKAASKL--KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  217 (359)
T ss_dssp             HCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hCC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            542  23356888999999999999999999998875  3544577888999999999999999999876654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.07  E-value=0.00031  Score=62.63  Aligned_cols=134  Identities=11%  Similarity=-0.042  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHH-HcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALD-MDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~-K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      .+......+.+.|++++|..+|+..++..- .+...|........ ..|+.++|..+|++.....-  .....|..++..
T Consensus       136 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~~~~~  212 (308)
T 2ond_A          136 VYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG--DIPEYVLAYIDY  212 (308)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT--TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CcHHHHHHHHHH
Confidence            344455555666667777777766655321 22333332222211 24777777777776654321  122457777777


Q ss_pred             HHHcCCHhHHHHHHHHHHHCC-CCCC-hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          190 YYRNNMLERLIKLFKGLEAFD-RKPP-EKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~G-i~PD-~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +.+.|++++|..+|++..... +.|+ ....|..++..+...|+.++|..++.+...++-
T Consensus       213 ~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p  272 (308)
T 2ond_A          213 LSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             HHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             HHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc
Confidence            888888888888888877763 4553 335677777777778888888888777776654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.07  E-value=4.5e-05  Score=70.75  Aligned_cols=129  Identities=11%  Similarity=0.005  Sum_probs=107.8

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+..+...+...|++++|++++..+.+..  |+..+|..+...|...|+.++|...|++....+-  .....|..+...|
T Consensus       239 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~~  314 (514)
T 2gw1_A          239 SLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDS--NNSSVYYHRGQMN  314 (514)
T ss_dssp             HHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT--TCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc--CCHHHHHHHHHHH
Confidence            34455566788999999999999998765  3478899999999999999999999999987642  2335788999999


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+.|++++|+..|.+.....  |+...++..+...|...|++++|..++++...+
T Consensus       315 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  367 (514)
T 2gw1_A          315 FILQNYDQAGKDFDKAKELD--PENIFPYIQLACLAYRENKFDDCETLFSEAKRK  367 (514)
T ss_dssp             HHTTCTTHHHHHHHHHHHTC--SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhC--hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999998764  433467888899999999999999999887654

>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=98.05  E-value=0.0003  Score=59.03  Aligned_cols=129  Identities=12%  Similarity=0.017  Sum_probs=100.2

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      ...-..+...|++++|++.|...++..-.++..+|.-+-..|.+.|+.++|.+.|++....+-  .....|..+-..|.+
T Consensus        11 ~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~~~   88 (228)
T 4i17_A           11 KNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY--NLANAYIGKSAAYRD   88 (228)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC--SHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc--chHHHHHHHHHHHHH
Confidence            333445677899999999999888765436666776688889999999999999999887542  223468888999999


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChH-------HHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEK-------SIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~-------~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .|++++|++.|++....  .|+..       ..|..+-..+...|++++|...+++...+
T Consensus        89 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A           89 MKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             TTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             cccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc
Confidence            99999999999998764  35533       23666667788899999999999876543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.05  E-value=0.00041  Score=56.07  Aligned_cols=128  Identities=10%  Similarity=0.026  Sum_probs=102.9

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      ..+=..+...|++++|++.|+..++.. +-+..+|..|-..|.+.|+.++|...|.+......  .....|..+-..+..
T Consensus         9 ~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~~~~~~   85 (184)
T 3vtx_A            9 MDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT--TSAEAYYILGSANFM   85 (184)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc--hhHHHHHHHHHHHHH
Confidence            334445678899999999999987752 23567899999999999999999999999876542  233467777888999


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+++++|.+.+.+....  .|+....+..+-..|...|++++|...+++...+
T Consensus        86 ~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~  136 (184)
T 3vtx_A           86 IDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISI  136 (184)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHh
Confidence            99999999999988764  3554566888888999999999999999876654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.04  E-value=0.00011  Score=62.54  Aligned_cols=163  Identities=10%  Similarity=0.076  Sum_probs=115.3

Q ss_pred             HHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCCh--hHHHHHHHHHHHc
Q 047178           80 VNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTM--GTCGQLIRALDMD  157 (287)
Q Consensus        80 i~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~--~TYnaLI~~y~K~  157 (287)
                      -..+...|+...++ ..+......... ....+..+-..+...|++++|++.+....+.+-.++.  .+|..+-..|.+.
T Consensus        10 a~~~~~~~~~~~A~-~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~   87 (272)
T 3u4t_A           10 ADFLFKNNNYAEAI-EVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKK   87 (272)
T ss_dssp             HHHHHTTTCHHHHH-HHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCHHHHH-HHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHc
Confidence            34555666655442 223333222111 1224445555788999999999999998885433332  2488899999999


Q ss_pred             CCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHH
Q 047178          158 HRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKER  237 (287)
Q Consensus       158 G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~  237 (287)
                      |+.++|...|++....+-  .....|..+-..|.+.|++++|++.|.+....  .|+....+..+...+...+++++|..
T Consensus        88 ~~~~~A~~~~~~a~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           88 GQDSLAIQQYQAAVDRDT--TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             TCHHHHHHHHHHHHHHST--TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCc--ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999887542  22357899999999999999999999987765  56555556666524555669999999


Q ss_pred             HHHHHhHHHhh
Q 047178          238 VLEKYKDLFTE  248 (287)
Q Consensus       238 ll~~m~~l~~~  248 (287)
                      .+++...+...
T Consensus       164 ~~~~a~~~~p~  174 (272)
T 3u4t_A          164 SFVKVLELKPN  174 (272)
T ss_dssp             HHHHHHHHSTT
T ss_pred             HHHHHHHhCcc
Confidence            99988877543

>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=98.04  E-value=9.9e-05  Score=69.11  Aligned_cols=126  Identities=12%  Similarity=0.036  Sum_probs=105.4

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      .+-..+...|++++|++.+....+.  .|+..+|..+-..|...|+.++|.+.|++....+-  ....+|..+...|.+.
T Consensus       248 ~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~~~~~  323 (537)
T 3fp2_A          248 YTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP--EYPPTYYHRGQMYFIL  323 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC--CCHHHHHHHHHHHHhc
Confidence            3344567789999999999998875  46678899999999999999999999999987542  2335789999999999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |++++|.+.|.+.....  |+...++..+...|...|++++|..++++...+
T Consensus       324 ~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  373 (537)
T 3fp2_A          324 QDYKNAKEDFQKAQSLN--PENVYPYIQLACLLYKQGKFTESEAFFNETKLK  373 (537)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999998754  443466888999999999999999999877655

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.01  E-value=0.00019  Score=60.93  Aligned_cols=127  Identities=13%  Similarity=0.059  Sum_probs=104.1

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+.+.|++++|+..+...++.. +.+...|..+-..|.+.|+.++|...|++....+-  .....|..+-..|.+.
T Consensus        10 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P--~~~~a~~~lg~~~~~~   86 (217)
T 2pl2_A           10 RLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTP--RYLGGYMVLSEAYVAL   86 (217)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHh
Confidence            34445778899999999999887642 23567888899999999999999999999887542  2334688888899999


Q ss_pred             -----------CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          194 -----------NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       194 -----------G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                                 |++++|+..|++..+.  .|+....+..+-..|...|++++|...+++...+
T Consensus        87 ~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  147 (217)
T 2pl2_A           87 YRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALAL  147 (217)
T ss_dssp             HHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc
Confidence                       9999999999998874  5765677888888999999999999999887665

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.01  E-value=0.00062  Score=60.66  Aligned_cols=124  Identities=10%  Similarity=-0.015  Sum_probs=96.0

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCC-hh-HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH-H
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGST-MG-TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY-Y  191 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd-~~-TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY-~  191 (287)
                      ....+.+.|++++|.++|+..++  +.|+ .. +|..+...+.+.|++++|..+|++....+-  .....|....... .
T Consensus       105 ~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p--~~~~~~~~~a~~~~~  180 (308)
T 2ond_A          105 YADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR--TRHHVYVTAALMEYY  180 (308)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT--CCTHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHH
Confidence            34455678899999999999887  4454 33 799999999999999999999999987542  2233454333322 2


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      ..|++++|..+|+...+.  .|+....+..++..+.+.|++++|..+|++...
T Consensus       181 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~  231 (308)
T 2ond_A          181 CSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  231 (308)
T ss_dssp             TSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            369999999999998764  465567788999999999999999999988766

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.99  E-value=0.0002  Score=60.94  Aligned_cols=165  Identities=13%  Similarity=0.026  Sum_probs=117.2

Q ss_pred             HHHHHHHHccCCCcchHHHHHHHHHHccC--CCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHH
Q 047178           77 NFLVNTLLDLKNSKEDVYGTLDAWVAWEQ--NFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRAL  154 (287)
Q Consensus        77 ~~Li~~l~~lg~~~~~v~~~Ld~~~~~~~--~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y  154 (287)
                      ..|-..+...|+...++ ..+......+.  .+....+..+-..+...|++++|++.+....+.. ..+..+|..+-..|
T Consensus        41 ~~l~~~~~~~~~~~~A~-~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~  118 (272)
T 3u4t_A           41 NRRAVCYYELAKYDLAQ-KDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYF  118 (272)
T ss_dssp             HHHHHHHHHTTCHHHHH-HHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHH-HHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHH
Confidence            33555666667765553 23333333221  1222335566677888999999999999988753 23557899999999


Q ss_pred             HHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC---
Q 047178          155 DMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL---  231 (287)
Q Consensus       155 ~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~---  231 (287)
                      .+.|++++|...|++....+-  .....|..+-..+...+++++|.+.|.+..+.  .|+....+..+...+...|.   
T Consensus       119 ~~~~~~~~A~~~~~~al~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~  194 (272)
T 3u4t_A          119 YNKGNFPLAIQYMEKQIRPTT--TDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTK  194 (272)
T ss_dssp             HHTTCHHHHHHHHGGGCCSSC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCS
T ss_pred             HHccCHHHHHHHHHHHhhcCC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchh
Confidence            999999999999999877532  23345665552444556999999999999875  46544667777888888888   


Q ss_pred             HHHHHHHHHHHhHHHh
Q 047178          232 LEEKERVLEKYKDLFT  247 (287)
Q Consensus       232 leeA~~ll~~m~~l~~  247 (287)
                      .++|...+++...+..
T Consensus       195 ~~~A~~~~~~a~~~~~  210 (272)
T 3u4t_A          195 QGLAKPYYEKLIEVCA  210 (272)
T ss_dssp             SCTTHHHHHHHHHHHG
T ss_pred             hHHHHHHHHHHHHHHh
Confidence            8889999999888874

>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=97.98  E-value=1.8e-05  Score=77.28  Aligned_cols=112  Identities=13%  Similarity=0.014  Sum_probs=74.5

Q ss_pred             CHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          108 PVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       108 ~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      ...++..+-..+...|.|++|..+|..+         ..|..|.++|++.|++++|.+.|.++.       +..+|..++
T Consensus       121 n~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA~-------~~~~Wk~v~  184 (449)
T 1b89_A          121 NNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVC  184 (449)
T ss_dssp             ----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHcC-------CchhHHHHH
Confidence            3456777777888888899888888865         368889999999999999999988872       224688899


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      .+|+..|+++.|......+   .+.||.   ...++..|.+.|.+++|..+++.
T Consensus       185 ~aCv~~~ef~lA~~~~l~L---~~~ad~---l~~lv~~Yek~G~~eEai~lLe~  232 (449)
T 1b89_A          185 FACVDGKEFRLAQMCGLHI---VVHADE---LEELINYYQDRGYFEELITMLEA  232 (449)
T ss_dssp             HHHHHTTCHHHHHHTTTTT---TTCHHH---HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHHHH---HhCHhh---HHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999999986655442   256764   34688889999999999777663

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.91  E-value=0.00019  Score=53.94  Aligned_cols=92  Identities=5%  Similarity=-0.084  Sum_probs=43.0

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+...+++++|+..++...+.. ..+..+|..+-..|...|+.++|...|++....+-  .....|..+-..|.+.
T Consensus        21 ~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~la~~~~~~   97 (133)
T 2lni_A           21 NKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP--TFIKGYTRKAAALEAM   97 (133)
T ss_dssp             HHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC--CchHHHHHHHHHHHHH
Confidence            33334445555555555555544321 12334445555555555555555555555444321  1122344444555555


Q ss_pred             CCHhHHHHHHHHHHH
Q 047178          194 NMLERLIKLFKGLEA  208 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~  208 (287)
                      |++++|.+.|.+...
T Consensus        98 ~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           98 KDYTKAMDVYQKALD  112 (133)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHH
Confidence            555555555555443

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=97.91  E-value=0.00045  Score=70.81  Aligned_cols=163  Identities=11%  Similarity=0.096  Sum_probs=124.3

Q ss_pred             HHHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHH
Q 047178           78 FLVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDM  156 (287)
Q Consensus        78 ~Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K  156 (287)
                      .|-..+...|+.++++ ..+.+..+..-.+ ...+..+-..|.+.|++++|++.|+..++.  .| +..+|+-|=..|.+
T Consensus        14 nLG~~~~~~G~~~eAi-~~~~kAl~l~P~~-~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~l~~   89 (723)
T 4gyw_A           14 NLANIKREQGNIEEAV-RLYRKALEVFPEF-AAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKE   89 (723)
T ss_dssp             HHHHHHHHTTCHHHHH-HHHHHHHHHCSCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHH-HHHHHHHHhCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            3555667778766553 2233332221111 344555666788999999999999998774  34 46789999999999


Q ss_pred             cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHH
Q 047178          157 DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKE  236 (287)
Q Consensus       157 ~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~  236 (287)
                      .|+.++|.+.|++..+.+-  -....|+.+=..|.+.|++++|++.|++..+.  .||....|..+...|...|++++|.
T Consensus        90 ~g~~~~A~~~~~kAl~l~P--~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           90 MQDVQGALQCYTRAIQINP--AFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             TTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             cCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHH
Confidence            9999999999999877541  22357899999999999999999999998764  5776678899999999999999999


Q ss_pred             HHHHHHhHHHhh
Q 047178          237 RVLEKYKDLFTE  248 (287)
Q Consensus       237 ~ll~~m~~l~~~  248 (287)
                      +.+++...+...
T Consensus       166 ~~~~kal~l~~~  177 (723)
T 4gyw_A          166 ERMKKLVSIVAD  177 (723)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHhChh
Confidence            988877766543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.90  E-value=0.00038  Score=51.60  Aligned_cols=113  Identities=13%  Similarity=-0.040  Sum_probs=82.1

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+...+++++|++.+....+.. ..+..+|..+-..|...|+.++|...|++....+.  .....|..+-..|.+.
T Consensus        17 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~~~~~~~   93 (131)
T 2vyi_A           17 TEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDP--AYSKAYGRMGLALSSL   93 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCc--cCHHHHHHHHHHHHHh
Confidence            34445667888889988888877642 23567788888888999999999999988876532  2234677788889999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      |++++|...|.+.....  |+....+..+...+...|+
T Consensus        94 ~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           94 NKHVEAVAYYKKALELD--PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHhc
Confidence            99999999998887653  4333556666666666664

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.85  E-value=0.0004  Score=66.56  Aligned_cols=128  Identities=7%  Similarity=-0.037  Sum_probs=100.9

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHc---------CCHHHHHHHHHHhhhCCCCCCCh
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMD---------HRAEEAHKFWEKRIGIDLHSVPW  180 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~---------G~leeA~~lF~eM~~~g~~sv~~  180 (287)
                      ..+..+-..+.+.|++++|++.|...++.  .|+..+|..|-..|...         |++++|.+.|++....+-  ...
T Consensus       138 ~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p--~~~  213 (474)
T 4abn_A          138 EAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV--LDG  213 (474)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT--TCH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC--CCH
Confidence            34555556677889999999999888764  47777888888888888         999999999999877542  233


Q ss_pred             hhHHHHHHHHHHc--------CCHhHHHHHHHHHHHCCCCC---ChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          181 QLCKSMIAIYYRN--------NMLERLIKLFKGLEAFDRKP---PEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       181 ~tyNsmIsgY~k~--------G~~eeA~~Lf~eM~~~Gi~P---D~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      ..|..+-.+|...        |++++|++.|++..+.  .|   +....|..+-..|...|++++|...+++..
T Consensus       214 ~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  285 (474)
T 4abn_A          214 RSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAA  285 (474)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5688888888888        8899999999988874  35   445778888889999999999998887543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.83  E-value=0.0004  Score=51.51  Aligned_cols=99  Identities=14%  Similarity=0.014  Sum_probs=82.0

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHH
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRV  222 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sL  222 (287)
                      +...|..+-..+...|++++|...|++.....-  .....|..+-..|...|++++|.+.|......  .|+....+..+
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~   86 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNP--ANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRM   86 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHH
Confidence            445678888899999999999999999876542  23456888899999999999999999998875  35545667888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhHH
Q 047178          223 ADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       223 I~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ...|...|++++|...+++...+
T Consensus        87 ~~~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           87 GLALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            88999999999999999887665

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=97.82  E-value=0.00049  Score=70.54  Aligned_cols=128  Identities=12%  Similarity=0.054  Sum_probs=106.2

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      +..+=..+.+.|++++|++.|+..++.  .| +..+|+.|=..|.+.|+.++|.+.|++..+.+-  -....|+.|=..|
T Consensus        12 l~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P--~~~~a~~nLg~~l   87 (723)
T 4gyw_A           12 LNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP--TFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHH
Confidence            344445678899999999999998774  34 467899999999999999999999999887541  2235788899999


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+.|++++|++.|++-.+.  .|+....|+.+-..|...|++++|...+++...+
T Consensus        88 ~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l  140 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKL  140 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999998764  5776678999999999999999999999875544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.81  E-value=0.00067  Score=63.11  Aligned_cols=132  Identities=7%  Similarity=-0.033  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC-----Chhh
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQ-GSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV-----PWQL  182 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~-~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv-----~~~t  182 (287)
                      ...+..+-..+...|+.++|++++..-+..|- .-+...+-.++..|.+.|+.+.|.++|++|...+   +     ...+
T Consensus       100 ~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~---~d~~~~~d~~  176 (310)
T 3mv2_B          100 PYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAI---EDTVSGDNEM  176 (310)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---ccccccchHH
Confidence            33444455667888999999999988655543 2356678889999999999999999999997653   2     1223


Q ss_pred             HHHHHHH--HHH--cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          183 CKSMIAI--YYR--NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       183 yNsmIsg--Y~k--~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ..-|..+  ...  .+.+.+|+.+|+++.+.  .|+. .+...++.++...|++++|+.+++.+..++
T Consensus       177 l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~-~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          177 ILNLAESYIKFATNKETATSNFYYYEELSQT--FPTW-KTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             HHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSH-HHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3344444  222  34999999999998765  3652 334566668999999999999998766654

>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=97.80  E-value=2.4e-05  Score=76.42  Aligned_cols=101  Identities=9%  Similarity=-0.000  Sum_probs=54.9

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      .++..+.+.|++.++.++++       .|+..+|+.+-+.|...|++++|..+|.++.          .|+.|.++|++.
T Consensus        99 ~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a~----------n~~~LA~~L~~L  161 (449)
T 1b89_A           99 ELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHL  161 (449)
T ss_dssp             ----------CHHHHTTTTT-------CC----------------CTTTHHHHHHHTT----------CHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHhh----------hHHHHHHHHHHh
Confidence            45556666777776665553       2566677777777777777777777777651          278888888888


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERV  238 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~l  238 (287)
                      |++++|++.+..+      -+ +.||..++.+|...|+++.|...
T Consensus       162 g~yq~AVea~~KA------~~-~~~Wk~v~~aCv~~~ef~lA~~~  199 (449)
T 1b89_A          162 GEYQAAVDGARKA------NS-TRTWKEVCFACVDGKEFRLAQMC  199 (449)
T ss_dssp             TCHHHHHHHHHHH------TC-HHHHHHHHHHHHHTTCHHHHHHT
T ss_pred             ccHHHHHHHHHHc------CC-chhHHHHHHHHHHcCcHHHHHHH
Confidence            8888888888877      13 46788888888888888888643

>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=97.79  E-value=0.00039  Score=50.72  Aligned_cols=90  Identities=8%  Similarity=-0.184  Sum_probs=46.2

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      ...+...|++++|++.+....+.. ..+...|..+-..|.+.|+.++|...|++....+-  .....|..+-..|.+.|+
T Consensus        11 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a~~~~~~~~   87 (118)
T 1elw_A           11 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP--DWGKGYSRKAAALEFLNR   87 (118)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc--ccHHHHHHHHHHHHHHhh
Confidence            334445555666665555554431 12344455555555556666666666655544321  112234555555556666


Q ss_pred             HhHHHHHHHHHHH
Q 047178          196 LERLIKLFKGLEA  208 (287)
Q Consensus       196 ~eeA~~Lf~eM~~  208 (287)
                      +++|.+.|.+..+
T Consensus        88 ~~~A~~~~~~~~~  100 (118)
T 1elw_A           88 FEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666655543

>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=97.78  E-value=0.00066  Score=51.84  Aligned_cols=100  Identities=10%  Similarity=-0.003  Sum_probs=65.3

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHH
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRV  222 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sL  222 (287)
                      +...|..+-..|.+.|++++|...|.+....+-  .....|..+-..|.+.|++++|+..|.......  |+....+..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l   83 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP--LVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFFL   83 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc--CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--chhHHHHHHH
Confidence            455666666777777777777777777665431  122456667777777777777777777766543  4434556666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          223 ADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       223 I~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      -..|...|++++|...+.+...+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHC
Confidence            667777777777777776655554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.78  E-value=0.00027  Score=51.26  Aligned_cols=97  Identities=15%  Similarity=-0.009  Sum_probs=69.3

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCC--hHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPP--EKSIVQR  221 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD--~~~Ty~s  221 (287)
                      ...|..+-..|.+.|+.++|...|++....+-  .....|..+-..|.+.|++++|.+.|++..+..  |+  ....+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~   81 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDP--EESKYWLMKGKALYNLERYEEAVDCYNYVINVI--EDEYNKDVWAA   81 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--CCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCc--CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccchHHHHHH
Confidence            44566677777788888888888888766432  223456777778888888888888888877653  43  3455677


Q ss_pred             HHHHHHhc-CCHHHHHHHHHHHhH
Q 047178          222 VADAYEVL-GLLEEKERVLEKYKD  244 (287)
Q Consensus       222 LI~a~~k~-G~leeA~~ll~~m~~  244 (287)
                      +...|... |++++|.+.+.+...
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhh
Confidence            77778888 888888888776543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.77  E-value=0.00031  Score=57.70  Aligned_cols=98  Identities=14%  Similarity=0.040  Sum_probs=67.6

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVAD  224 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~  224 (287)
                      ..+..+=..|.+.|++++|...|++....+-  .....|..+=.+|.+.|++++|++.|++....  .|+....|..+-.
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P--~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg~  112 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF--YNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHHH
Confidence            3455566667778888888888887776541  22345777777777888888888888777664  3544455666777


Q ss_pred             HHHhcCCHHHHHHHHHHHhHHH
Q 047178          225 AYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       225 a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +|...|++++|...|++...+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            7788888888888777766554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.76  E-value=0.00088  Score=50.15  Aligned_cols=101  Identities=16%  Similarity=-0.002  Sum_probs=83.5

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHH
Q 047178          142 STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQR  221 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~s  221 (287)
                      .+...|..+-..|.+.|++++|...|++....+-  .....|..+-..|.+.|++++|++.|++....  .|+....+..
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~--~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~   89 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP--KDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTR   89 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT--TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHH
Confidence            3556788899999999999999999999887542  23456888889999999999999999998875  3544567788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          222 VADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       222 LI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +...|...|++++|...+++...+.
T Consensus        90 la~~~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           90 KAAALEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            8889999999999999998876654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.74  E-value=0.00045  Score=54.42  Aligned_cols=92  Identities=15%  Similarity=0.053  Sum_probs=44.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhc
Q 047178          150 LIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVL  229 (287)
Q Consensus       150 LI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~  229 (287)
                      +-..|.+.|++++|...|++....+-  .+...|..+=.+|.+.|++++|+..|+......  |+....+..+-.+|...
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLDH--YDARYFLGLGACRQSLGLYEQALQSYSYGALMD--INEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhCC--ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHc
Confidence            33444555555555555555544321  122334444455555555555555555554432  33223344444555555


Q ss_pred             CCHHHHHHHHHHHhHH
Q 047178          230 GLLEEKERVLEKYKDL  245 (287)
Q Consensus       230 G~leeA~~ll~~m~~l  245 (287)
                      |++++|...+++...+
T Consensus       100 g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A          100 GDLDGAESGFYSARAL  115 (142)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            5555555555544443

>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=97.74  E-value=0.00037  Score=56.27  Aligned_cols=95  Identities=7%  Similarity=0.036  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHH-HHHcCCH--HHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRA-LDMDHRA--EEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~-y~K~G~l--eeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      +..+-..+...|++++|+..+....+.. ..+...|..+-.. |...|+.  ++|...|++....+-  .....|..+-.
T Consensus        47 ~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~la~  123 (177)
T 2e2e_A           47 WALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTRAMIDKALALDS--NEITALMLLAS  123 (177)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCT--TCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCC--CcHHHHHHHHH
Confidence            3344444556666666666666655432 1234445555555 5566665  666666666655431  12234555566


Q ss_pred             HHHHcCCHhHHHHHHHHHHHC
Q 047178          189 IYYRNNMLERLIKLFKGLEAF  209 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~  209 (287)
                      .|.+.|++++|...|.+....
T Consensus       124 ~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          124 DAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHcccHHHHHHHHHHHHhh
Confidence            666666666666666666554

>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=97.73  E-value=0.0013  Score=58.04  Aligned_cols=135  Identities=16%  Similarity=0.110  Sum_probs=101.2

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCC-CCCCh----hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh----hh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKG-QGSTM----GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW----QL  182 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G-~~pd~----~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~----~t  182 (287)
                      +...+..+...+++++|.++++...+.- ..|+.    ..|..+...|...|+.++|...|++.........++    .+
T Consensus        78 l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            4445677888999999999999887632 12331    234556677778889999999999987643221222    25


Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHH----C-CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEA----F-DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~----~-Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |+.|-..|...|++++|+..|.+...    . +..|....+|..+...|.+.|++++|...+++...+.
T Consensus       158 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~  226 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS  226 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            89999999999999999999999873    2 3444444477888889999999999999998776654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.72  E-value=0.00054  Score=54.95  Aligned_cols=91  Identities=9%  Similarity=-0.073  Sum_probs=51.6

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      .-..+.+.|++++|++.|...++.. ..+...|..+-..|.+.|++++|...|++....+-  .....|..+-..|.+.|
T Consensus        17 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~g   93 (164)
T 3sz7_A           17 EGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP--KYSKAWSRLGLARFDMA   93 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcc
Confidence            3344555666666666666655432 12445566666666666666666666666655431  12234555666666666


Q ss_pred             CHhHHHHHHHHHHH
Q 047178          195 MLERLIKLFKGLEA  208 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~  208 (287)
                      ++++|.+.|.+..+
T Consensus        94 ~~~~A~~~~~~al~  107 (164)
T 3sz7_A           94 DYKGAKEAYEKGIE  107 (164)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666666666554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.70  E-value=0.0016  Score=62.45  Aligned_cols=127  Identities=10%  Similarity=-0.004  Sum_probs=92.2

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCCh--hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhH--HHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTM--GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLC--KSM  186 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~--~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~ty--Nsm  186 (287)
                      -+......+.+.|++++|.++++..++.  .|+.  .+|..+...+.+.|++++|.++|++-....-  .....|  ..+
T Consensus       323 l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~--~~~~~~~~~a~  398 (530)
T 2ooe_A          323 LYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR--TRHHVYVTAAL  398 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT--CCTHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC--CchHHHHHHHH
Confidence            3445566677889999999999998874  4542  4788888889999999999999998876431  111112  222


Q ss_pred             HHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          187 IAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       187 IsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      + .|...|++++|..+|+...+.  .|+....+..+++.+.+.|+.++|..+|++...
T Consensus       399 ~-~~~~~~~~~~A~~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~  453 (530)
T 2ooe_A          399 M-EYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  453 (530)
T ss_dssp             H-HHHHTCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHH
T ss_pred             H-HHHHcCChhHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHh
Confidence            2 244688999999999877654  365456678888888888999999988887654

>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=97.69  E-value=0.00055  Score=55.08  Aligned_cols=98  Identities=15%  Similarity=0.029  Sum_probs=59.3

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVAD  224 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~  224 (287)
                      ..+..+-..|.+.|+.++|...|++....+-  .....|..+=.+|.+.|++++|+..|++....  .|+....+..+-.
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~   97 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLDH--YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM--DIXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCc--ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCchHHHHHHH
Confidence            3455555666677777777777776655431  12234555666666777777777777766553  2433344555666


Q ss_pred             HHHhcCCHHHHHHHHHHHhHHH
Q 047178          225 AYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       225 a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +|...|++++|...+++...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            6777777777777766655543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.69  E-value=0.00055  Score=53.68  Aligned_cols=87  Identities=7%  Similarity=-0.075  Sum_probs=44.5

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      +.+.|++++|++.|...++.. +.+..+|.-+-.+|.+.|+.++|...|++..+.+-  .....|..+-.+|...|++++
T Consensus        23 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p--~~~~a~~~lg~~~~~~~~~~~   99 (126)
T 4gco_A           23 YFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS--KFIKGYIRKAACLVAMREWSK   99 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh--hhhHHHHHHHHHHHHCCCHHH
Confidence            445555555555555554431 12344555555555555555555555555544321  112345555555555555555


Q ss_pred             HHHHHHHHHH
Q 047178          199 LIKLFKGLEA  208 (287)
Q Consensus       199 A~~Lf~eM~~  208 (287)
                      |++.|++..+
T Consensus       100 A~~~~~~al~  109 (126)
T 4gco_A          100 AQRAYEDALQ  109 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555444

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.68  E-value=0.00063  Score=51.98  Aligned_cols=134  Identities=17%  Similarity=0.088  Sum_probs=95.6

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCC-CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hhhHHH
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQG-ST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQLCKS  185 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~-pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~tyNs  185 (287)
                      +-..+...|++++|+..+....+..-. ++    ..+|..+-..|...|+.++|...|++.....  ...++  ...|..
T Consensus        15 l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   94 (164)
T 3ro3_A           15 LGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYS   94 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence            333456677888888877766542110 11    2478888899999999999999999875421  10011  135778


Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      +-..|...|++++|.+.|.+...    .+-.+....++..+-..|...|++++|...+++...+...
T Consensus        95 l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  161 (164)
T 3ro3_A           95 LGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  161 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHH
Confidence            88899999999999999988754    3333333355777888899999999999999988777643

>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=97.67  E-value=0.00046  Score=51.30  Aligned_cols=99  Identities=12%  Similarity=0.087  Sum_probs=64.2

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCC--CCCh---HHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDR--KPPE---KSIV  219 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi--~PD~---~~Ty  219 (287)
                      .+|..+-..|...|++++|...|++....+-  .....|..+-..|.+.|++++|...|.+.....-  .++.   ..++
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDP--TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC--ccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3456666677777788888887777765431  2234566677777777888888877777765421  1110   2445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          220 QRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       220 ~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..+...|...|++++|...+++...+
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            66667777788888888777765553

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.67  E-value=0.00017  Score=65.33  Aligned_cols=139  Identities=12%  Similarity=0.038  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCC-CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hhh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQG-ST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQL  182 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~-pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~t  182 (287)
                      +..+-..+...|++++|++.+....+..-. .+    ..+|..+-..|...|+.++|...|++.....  .....  ..+
T Consensus       226 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  305 (411)
T 4a1s_A          226 CGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQS  305 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            334455678889999999998887642110 11    2378889999999999999999999876421  10011  246


Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHC----CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhh
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAF----DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~  250 (287)
                      |..+-..|.+.|++++|.+.|++....    +-.++...+|..+...|...|+.++|...+++...++....
T Consensus       306 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  377 (411)
T 4a1s_A          306 CYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXXXX  377 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcc
Confidence            888999999999999999999987643    22333334677888899999999999999999888887665

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=97.67  E-value=0.0049  Score=51.47  Aligned_cols=117  Identities=6%  Similarity=-0.067  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh-------hhH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW-------QLC  183 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~-------~ty  183 (287)
                      .+..+-..+...|++++|++.+....+.. +.+..+|..+-..|.+.|+.++|...|++.....-  .+.       ..|
T Consensus        44 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~~~~~~  120 (228)
T 4i17_A           44 TAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVP--GNATIEKLYAIYY  120 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC--CcHHHHHHHHHHH
Confidence            33335556778999999999999887643 22556788999999999999999999999887542  122       236


Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHHCCCCCC--hHHHHHHHHHHHHhcCCH
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEAFDRKPP--EKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD--~~~Ty~sLI~a~~k~G~l  232 (287)
                      ..+=..|.+.|++++|++.|.+..+.  .|+  ....|..+-..|...|..
T Consensus       121 ~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~  169 (228)
T 4i17_A          121 LKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHH
Confidence            66777888999999999999998764  677  446677777777777766

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.66  E-value=0.0011  Score=50.63  Aligned_cols=93  Identities=15%  Similarity=0.056  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC---hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP---WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRV  222 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~---~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sL  222 (287)
                      .+..+-..|.+.|++++|..+|++....+-  .+   ...|..+-..|.+.|++++|+..|.+....  .|+....+..+
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~  105 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALGLDA--TPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHTSCC--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHcc--cchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHHHHHH
Confidence            344444444444455555554444443221  11   123444444444455555555554444432  22222333444


Q ss_pred             HHHHHhcCCHHHHHHHHHHH
Q 047178          223 ADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       223 I~a~~k~G~leeA~~ll~~m  242 (287)
                      ..+|...|++++|...+++.
T Consensus       106 a~~~~~~~~~~~A~~~~~~a  125 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRC  125 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            44444455555555444443

>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=97.65  E-value=0.001  Score=50.69  Aligned_cols=96  Identities=10%  Similarity=-0.133  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAY  226 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~  226 (287)
                      |..+=..|.+.|+.++|...|++....+-  .....|..+-.+|.+.|++++|+..|.+....  .|+....|..+-.+|
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAP--EDARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCC--CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHH
Confidence            44444555666666666666666554331  12234566666666666666666666666553  244334555566666


Q ss_pred             HhcCCHHHHHHHHHHHhHHH
Q 047178          227 EVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       227 ~k~G~leeA~~ll~~m~~l~  246 (287)
                      ...|++++|...+++...+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhC
Confidence            66666666666666655544

>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=97.62  E-value=0.0018  Score=59.12  Aligned_cols=133  Identities=12%  Similarity=0.001  Sum_probs=104.2

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCC--------------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGST--------------MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP  179 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd--------------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~  179 (287)
                      ..-..+.+.|++++|+..|...++..-...              ..+|..|-.+|.+.|+.++|...|++....+-  ..
T Consensus       152 ~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p--~~  229 (336)
T 1p5q_A          152 ERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS--NN  229 (336)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--Cc
Confidence            344456788999999999998876532211              47899999999999999999999999987542  23


Q ss_pred             hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHH-HHHHHHHhHHHhhhh
Q 047178          180 WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEK-ERVLEKYKDLFTEKE  250 (287)
Q Consensus       180 ~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA-~~ll~~m~~l~~~~~  250 (287)
                      ...|..+-.+|.+.|++++|+..|++..+.  .|+....+..+...+...|+.++| ..++..|...+...-
T Consensus       230 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  299 (336)
T 1p5q_A          230 EKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFERLAEEE  299 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            356888899999999999999999998875  465556788888899999999999 456666665555444

>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=97.62  E-value=0.0022  Score=62.01  Aligned_cols=129  Identities=10%  Similarity=-0.082  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      +..+-..+...|++++|.+.++...+.. ..+..+|..|-..|...|+.++|.+.|++..+.+-  .....|..+-..|.
T Consensus        26 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~la~~~~  102 (568)
T 2vsy_A           26 WLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAAP--EHPGIALWLGHALE  102 (568)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHH
Confidence            3344455677889999999998887642 23567888899999999999999999999877542  23356888889999


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhc---CCHHHHHHHHHHHhHH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVL---GLLEEKERVLEKYKDL  245 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~---G~leeA~~ll~~m~~l  245 (287)
                      +.|++++|.+.|++..+.  .|+....+..+...|...   |+.++|.+.+++...+
T Consensus       103 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A          103 DAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            999999999999998775  354456678888899999   9999999988876544

>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=97.53  E-value=0.0011  Score=62.65  Aligned_cols=130  Identities=8%  Similarity=0.021  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHccc-hhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          112 LKKALLALEKEQQ-WHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       112 ~~~ai~~L~k~~~-~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      +...-..|...|+ +++|+..++..++.. ..+...|+-+=..|.+.|++++|...|++....+-  -....|+-+-.+|
T Consensus       134 ~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP--~~~~a~~~lg~~~  210 (382)
T 2h6f_A          134 WHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDA--KNYHAWQHRQWVI  210 (382)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT--TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc--cCHHHHHHHHHHH
Confidence            3333444556665 777777777666532 12445666666667777777777777777765441  2234566666677


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh-cCCHHHH-----HHHHHHHhHHH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV-LGLLEEK-----ERVLEKYKDLF  246 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k-~G~leeA-----~~ll~~m~~l~  246 (287)
                      .+.|++++|+..|+++.+..  |+....|+.+-.+|.. .|..++|     ...+++...+-
T Consensus       211 ~~~g~~~eAl~~~~~al~l~--P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~  270 (382)
T 2h6f_A          211 QEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV  270 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS
T ss_pred             HHcCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC
Confidence            77777777777777776643  4334556666666666 4444555     24455544443

>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=97.52  E-value=0.002  Score=50.20  Aligned_cols=97  Identities=14%  Similarity=0.026  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVAD  224 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~  224 (287)
                      ..|..+-..|...|++++|...|++....+-  .....|..+-..|.+.|++++|.+.|.+.....  |+....+..+..
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~--~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~   89 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNP--SNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCC--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            4567777888999999999999999876542  234568888999999999999999999988753  544567888888


Q ss_pred             HHHhcCCHHHHHHHHHHHhHH
Q 047178          225 AYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       225 a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .|...|++++|...+++...+
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh
Confidence            999999999999999876654

>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=97.50  E-value=0.002  Score=47.66  Aligned_cols=97  Identities=9%  Similarity=0.032  Sum_probs=76.2

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCC-CCC----hhhHHHHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH-SVP----WQLCKSMI  187 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~-sv~----~~tyNsmI  187 (287)
                      ..+-..+...|++++|+..+....+.. ..+..+|..+-..|...|+.++|...|++....+-. ...    ..+|..+-
T Consensus         8 ~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la   86 (131)
T 1elr_A            8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHH
Confidence            334455678899999999999887753 346678889999999999999999999998654210 011    34677888


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCC
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      ..|.+.|++++|.+.|.+.....
T Consensus        87 ~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           87 NSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC
Confidence            99999999999999999998754

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.50  E-value=0.037  Score=47.30  Aligned_cols=112  Identities=11%  Similarity=0.095  Sum_probs=54.9

Q ss_pred             ccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH----c
Q 047178          122 EQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM----DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR----N  193 (287)
Q Consensus       122 ~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K----~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k----~  193 (287)
                      .+++++|++.++...+.|   +..++..|=..|..    .|+.++|...|++..+.+    +...+..+=..|.+    .
T Consensus        91 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~~~~~~~~~  163 (273)
T 1ouv_A           91 SQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN----DGDGCTILGSLYDAGRGTP  163 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSC
T ss_pred             ccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC----cHHHHHHHHHHHHcCCCCC
Confidence            455555555555554443   34445555555555    555555555555554433    11234444444444    5


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh----cCCHHHHHHHHHHHhH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV----LGLLEEKERVLEKYKD  244 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k----~G~leeA~~ll~~m~~  244 (287)
                      +++++|+.+|+...+.+   + ...+..+-..|..    .+++++|...+++...
T Consensus       164 ~~~~~A~~~~~~a~~~~---~-~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~  214 (273)
T 1ouv_A          164 KDLKKALASYDKACDLK---D-SPGCFNAGNMYHHGEGATKNFKEALARYSKACE  214 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---C-HHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCC---C-HHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHh
Confidence            55555555555555443   1 1234444445555    5555555555554433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.49  E-value=0.0015  Score=52.84  Aligned_cols=136  Identities=10%  Similarity=0.034  Sum_probs=97.6

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHH----CCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC--CCCCCC---hhhH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLS----KGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGI--DLHSVP---WQLC  183 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~----~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~--g~~sv~---~~ty  183 (287)
                      .+-..+...|++++|...+....+    .|..+ ...+|+.+-..|...|+.++|...|++....  .....+   ...|
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            344456678889999888877664    22222 3456888888999999999999999986542  110011   1357


Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhh
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEK  249 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~  249 (287)
                      +.+-..|...|++++|...|.+...    .+-.+....++..+-..|...|++++|...+++...+....
T Consensus       111 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  180 (203)
T 3gw4_A          111 YEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDIFAEL  180 (203)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHc
Confidence            8888899999999999999998763    23222222345677788999999999999999888877654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.48  E-value=0.0029  Score=56.22  Aligned_cols=126  Identities=13%  Similarity=-0.003  Sum_probs=83.0

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      .-..+...|++++|.++++..++.. .-+...+..|-..|...|+.++|..+|++....+-  .+...+...-..+.+.|
T Consensus       123 ~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p--~~~~~~~~~~~~l~~~~  199 (287)
T 3qou_A          123 QAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQ--DTRYQGLVAQIELLXQA  199 (287)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGC--SHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhc--chHHHHHHHHHHHHhhc
Confidence            3444567788888888888877642 22456778888888899999999988888765431  11111222222355667


Q ss_pred             CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          195 MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..++|+..|++....  .||....+..+-..|...|++++|...+.+...+
T Consensus       200 ~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~  248 (287)
T 3qou_A          200 ADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRX  248 (287)
T ss_dssp             TSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            777777777776654  3554555666777777777777777777766554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.47  E-value=0.016  Score=50.92  Aligned_cols=136  Identities=15%  Similarity=0.110  Sum_probs=97.8

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCC-----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC-C---hh
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGST-----MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV-P---WQ  181 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd-----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv-~---~~  181 (287)
                      .+...+..+...+++++|++.+....+.....+     ...+..+-..|...|+.++|...|.+......... +   ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            445566778889999999999988776532211     12244455667788999999999998765321111 1   13


Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHH----CCCCCC-hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEA----FDRKPP-EKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD-~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +|+.+-..|...|++++|+..|.+...    .+-.+. .+.+|..+...|...|++++|...+++...+.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~  226 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS  226 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            688899999999999999999998762    221121 11467788889999999999999999877664

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.46  E-value=0.00074  Score=57.86  Aligned_cols=137  Identities=18%  Similarity=0.110  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC----CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hhh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK----GQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQL  182 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~----G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~t  182 (287)
                      +..+-..+...|++++|.+.+....+.    +..+ ...+|..+-..|...|+.++|...|++.....  ....+  ..+
T Consensus       186 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (338)
T 3ro2_A          186 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS  265 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHH
Confidence            334455567788999999888876642    1111 12378888999999999999999999875421  10011  246


Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHC----CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAF----DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      |..+-..|...|++++|...|.+....    +-.+....++..+...|...|++++|...+++...+...
T Consensus       266 ~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          266 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            888889999999999999999987542    323332346778888999999999999999998877654

>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=97.46  E-value=0.0083  Score=43.39  Aligned_cols=98  Identities=16%  Similarity=0.062  Sum_probs=80.8

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      ...|..+...+...|++++|...|++....+-  .+...|..+-..|.+.|++++|...|.+.....  |+....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a   79 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDP--HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKA   79 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC--CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC--cccHHHHHHHH
Confidence            45677888899999999999999999876542  233568888889999999999999999988753  54446678888


Q ss_pred             HHHHhcCCHHHHHHHHHHHhHH
Q 047178          224 DAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       224 ~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..|...|++++|...+++...+
T Consensus        80 ~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           80 AALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHc
Confidence            8999999999999999876654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.45  E-value=0.0052  Score=52.67  Aligned_cols=128  Identities=19%  Similarity=0.146  Sum_probs=95.3

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC-hhhHHHHHHH
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP-WQLCKSMIAI  189 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~-~~tyNsmIsg  189 (287)
                      .-..+.+.|++++|+..|...++..  |+    ...+.-|-..|.+.|+.++|...|++.....-..+. ...|..+-.+
T Consensus        21 ~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~   98 (261)
T 3qky_A           21 RAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMC   98 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHH
Confidence            3445678899999999999988753  33    456777888899999999999999999875311111 1345566777


Q ss_pred             HHH--------cCCHhHHHHHHHHHHHCCCCCChHHHH-----------------HHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          190 YYR--------NNMLERLIKLFKGLEAFDRKPPEKSIV-----------------QRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       190 Y~k--------~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty-----------------~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      |.+        .|++++|+..|++.....  |+.....                 -.+-..|.+.|++++|...+++...
T Consensus        99 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  176 (261)
T 3qky_A           99 YYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFD  176 (261)
T ss_dssp             HHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            888        999999999999988753  4432223                 3446678899999999999988765


Q ss_pred             HH
Q 047178          245 LF  246 (287)
Q Consensus       245 l~  246 (287)
                      .+
T Consensus       177 ~~  178 (261)
T 3qky_A          177 AY  178 (261)
T ss_dssp             HC
T ss_pred             HC
Confidence            44

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.45  E-value=0.0024  Score=48.13  Aligned_cols=90  Identities=7%  Similarity=-0.119  Sum_probs=49.5

Q ss_pred             HHHHccchhhHHHHHHHHHHCCCCCCh----hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC-hhhHHHHHHHHHH
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQGSTM----GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP-WQLCKSMIAIYYR  192 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~~pd~----~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~-~~tyNsmIsgY~k  192 (287)
                      .+...|++++|+..|....+..  |+.    ..+..+-..|.+.|+.++|...|++....+-.... ...+..+-.+|.+
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHH
Confidence            3445666666666666665532  222    24555555666666666666666666553311000 1234445556666


Q ss_pred             cCCHhHHHHHHHHHHHC
Q 047178          193 NNMLERLIKLFKGLEAF  209 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~  209 (287)
                      .|++++|...|++....
T Consensus        89 ~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            66666666666666554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.44  E-value=0.009  Score=57.09  Aligned_cols=134  Identities=13%  Similarity=0.003  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHH--HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCG--QLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYn--aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      .+......+.+.|++++|.++|+...+..- .+...|-  +++. |...|+.++|..+|++..+..-  .....|..++.
T Consensus       358 ~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~-~~~~~~~~~A~~~~e~al~~~p--~~~~~~~~~~~  433 (530)
T 2ooe_A          358 VYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALME-YYCSKDKSVAFKIFELGLKKYG--DIPEYVLAYID  433 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHH-HHHTCCHHHHHHHHHHHHHHHT--TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHH-HHHcCChhHHHHHHHHHHHHCC--CCHHHHHHHHH
Confidence            455666667788999999999998876421 1222232  2232 3468999999999998876431  22357999999


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCC-CCCC-hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          189 IYYRNNMLERLIKLFKGLEAFD-RKPP-EKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~G-i~PD-~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      .+.+.|+.++|..+|+.....+ ..|+ ....|...+.-....|+.+.+..++..+.+.+-.
T Consensus       434 ~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          434 YLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             HHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            9999999999999999998864 3343 1236777788888899999999999988887753

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.44  E-value=0.0013  Score=63.08  Aligned_cols=129  Identities=9%  Similarity=-0.015  Sum_probs=105.3

Q ss_pred             HHHHHHHHHHHccch-hhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          111 SLKKALLALEKEQQW-HRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       111 s~~~ai~~L~k~~~~-~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      .+...-..+...+++ ++|++.+...++.. ..+..+|..|-..|.+.|++++|.+.|++....+   +....|..+-..
T Consensus       104 ~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~lg~~  179 (474)
T 4abn_A          104 ALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC---KNKVSLQNLSMV  179 (474)
T ss_dssp             HHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC---CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---CCHHHHHHHHHH
Confidence            334444556778899 99999999987753 2346789999999999999999999999998765   234578888889


Q ss_pred             HHHc---------CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhc--------CCHHHHHHHHHHHhHH
Q 047178          190 YYRN---------NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVL--------GLLEEKERVLEKYKDL  245 (287)
Q Consensus       190 Y~k~---------G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~--------G~leeA~~ll~~m~~l  245 (287)
                      |.+.         |++++|++.|++..+.  .|+....|..+-.+|...        |++++|...+++...+
T Consensus       180 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~  250 (474)
T 4abn_A          180 LRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV  250 (474)
T ss_dssp             HTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh
Confidence            9999         9999999999998875  466567788888899998        9999999999877665

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.43  E-value=0.016  Score=49.59  Aligned_cols=125  Identities=12%  Similarity=0.127  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHHH----ccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHHhhhCCCCCCChh
Q 047178          110 GSLKKALLALEK----EQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM----DHRAEEAHKFWEKRIGIDLHSVPWQ  181 (287)
Q Consensus       110 ~s~~~ai~~L~k----~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K----~G~leeA~~lF~eM~~~g~~sv~~~  181 (287)
                      ..+..+-..+..    .+++++|++.|....+.|   +..++..|-..|..    .|+.++|...|++....+.    ..
T Consensus        39 ~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~----~~  111 (273)
T 1ouv_A           39 SGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKY----AE  111 (273)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC----HH
T ss_pred             HHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCC----cc
Confidence            344444455667    889999999999988876   67788888888999    9999999999999887652    24


Q ss_pred             hHHHHHHHHHH----cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh----cCCHHHHHHHHHHHhHH
Q 047178          182 LCKSMIAIYYR----NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV----LGLLEEKERVLEKYKDL  245 (287)
Q Consensus       182 tyNsmIsgY~k----~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k----~G~leeA~~ll~~m~~l  245 (287)
                      .|..|=..|.+    .|++++|+++|.+-.+.+   + ...+..+-..|..    .++.++|...+++...+
T Consensus       112 a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~-~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~  179 (273)
T 1ouv_A          112 GCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---D-GDGCTILGSLYDAGRGTPKDLKKALASYDKACDL  179 (273)
T ss_dssp             HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---C-HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---c-HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            57778888888    999999999999999877   2 2446677777887    99999999999887655

>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=97.42  E-value=0.0059  Score=53.68  Aligned_cols=130  Identities=10%  Similarity=0.072  Sum_probs=99.8

Q ss_pred             HHHccchhhHHHHHHHHHHCCCC-CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhh----C-CCCCCCh--hhHHHH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQG-ST----MGTCGQLIRALDMDHRAEEAHKFWEKRIG----I-DLHSVPW--QLCKSM  186 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~-pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~----~-g~~sv~~--~tyNsm  186 (287)
                      +...+++++|++.+....+.... +|    ..+|+.|-..|...|+.++|...|++...    . +.  .+.  .+|+.+
T Consensus       125 ~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~--~~~~~~~~~nl  202 (293)
T 3u3w_A          125 VLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDN--EEFDVKVRYNH  202 (293)
T ss_dssp             HTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCC--HHHHHHHHHHH
T ss_pred             HHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc--hhHHHHHHHHH
Confidence            34556889999999998874322 23    23689999999999999999999999873    1 11  111  368889


Q ss_pred             HHHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcC-CHHHHHHHHHHHhHHHhhhh
Q 047178          187 IAIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLG-LLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       187 IsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G-~leeA~~ll~~m~~l~~~~~  250 (287)
                      -..|.+.|++++|++.|.+-.+    .+-.+....+|..+-.+|.+.| ..++|...+++...++...-
T Consensus       203 g~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i~~~~~  271 (293)
T 3u3w_A          203 AKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILE  271 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999987653    4444443466888888999999 57999999999888887553

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.41  E-value=0.0014  Score=58.38  Aligned_cols=136  Identities=16%  Similarity=0.084  Sum_probs=100.0

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCC-CCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hhh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQ-GST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQL  182 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~-~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~t  182 (287)
                      +..+-..+...|++++|++.+....+..- .++    ..+|..+-..|...|+.++|...|++.....  ....+  ..+
T Consensus       190 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  269 (406)
T 3sf4_A          190 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS  269 (406)
T ss_dssp             HHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHH
Confidence            33445567788999999999888764211 111    2378889999999999999999999875321  10011  246


Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      |..+-..|.+.|++++|.+.|.+...    .+-.+....++..+-..|...|++++|...+++...+..
T Consensus       270 ~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  338 (406)
T 3sf4_A          270 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  338 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            88899999999999999999998764    233333345677888899999999999999988776644

>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=97.40  E-value=0.0019  Score=62.46  Aligned_cols=118  Identities=9%  Similarity=0.000  Sum_probs=83.9

Q ss_pred             cchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHH
Q 047178          123 QQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKL  202 (287)
Q Consensus       123 ~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~L  202 (287)
                      |++++|++.++...+.. ..+...|..+-..|.+.|+.++|.+.|++..+.+-  .....|..+-..|.+.|++++|.+.
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP--GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST--TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            56677777777765431 23467889999999999999999999999887642  2335688899999999999999999


Q ss_pred             HHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          203 FKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       203 f~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |++..+.  .|+....+..+-..|...|++++|.+.+++...+
T Consensus        80 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  120 (568)
T 2vsy_A           80 LQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL  120 (568)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9998875  4655577888899999999999999999876554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.39  E-value=0.0032  Score=52.90  Aligned_cols=123  Identities=16%  Similarity=0.137  Sum_probs=62.8

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC-
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM-  195 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~-  195 (287)
                      ..+.+.|++++|+..++..++.. +-+...|..|-..|...|+.++|...|++....+-  .....|..|-..|...|. 
T Consensus        62 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P--~~~~a~~~lg~~~~~~~~~  138 (208)
T 3urz_A           62 LAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEA--DNLAANIFLGNYYYLTAEQ  138 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHHHhHH
Confidence            34556666666766666665532 12445566666666667777777777766655431  122345555555554443 


Q ss_pred             -HhHHHHHHHHHHHCCCCCChH-HHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          196 -LERLIKLFKGLEAFDRKPPEK-SIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       196 -~eeA~~Lf~eM~~~Gi~PD~~-~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                       .+++...|....    .|+.. ..+...-.++...|++++|...|++...+.
T Consensus       139 ~~~~~~~~~~~~~----~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          139 EKKKLETDYKKLS----SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHC-------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHHh----CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence             233344443332    22210 111112224445667777777777655543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.38  E-value=0.0015  Score=59.16  Aligned_cols=133  Identities=9%  Similarity=0.042  Sum_probs=100.4

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCCh----hHHHHHHHHHHHcCCHHHHHHHHHHhhhC--CCCCCC--hhhHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTM----GTCGQLIRALDMDHRAEEAHKFWEKRIGI--DLHSVP--WQLCKS  185 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~----~TYnaLI~~y~K~G~leeA~~lF~eM~~~--g~~sv~--~~tyNs  185 (287)
                      ..-..+...|++++|+.+++...+.+-. +.    .+|..+-..|...|+.++|...|++....  .....+  ...|..
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            3444567889999999999998886322 22    47888999999999999999999987542  000011  246888


Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHC----CCCCChHHHHHHHHHHHHhcCC-----------------HHHHHHHHHHHhH
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAF----DRKPPEKSIVQRVADAYEVLGL-----------------LEEKERVLEKYKD  244 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~~Ty~sLI~a~~k~G~-----------------leeA~~ll~~m~~  244 (287)
                      +-..|...|++++|...|.+....    +-.|+...++..+-..|...|+                 +++|...+.+...
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            999999999999999999987643    2234444567888889999999                 9999988887666


Q ss_pred             HHh
Q 047178          245 LFT  247 (287)
Q Consensus       245 l~~  247 (287)
                      +..
T Consensus       212 ~~~  214 (411)
T 4a1s_A          212 LMR  214 (411)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.36  E-value=0.00046  Score=52.54  Aligned_cols=86  Identities=10%  Similarity=-0.068  Sum_probs=61.5

Q ss_pred             ccchhhHHHHHHHHHHCCC--CCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHH
Q 047178          122 EQQWHRVVQVIKWMLSKGQ--GSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERL  199 (287)
Q Consensus       122 ~~~~~~A~qv~~~M~~~G~--~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA  199 (287)
                      .|++++|+..|...++.+.  ..+..+|..|-..|.+.|+.++|...|++....+-  .....|..+-.+|.+.|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP--NHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CchHHHHHHHHHHHHcCCHHHH
Confidence            4677788888888776541  22455678888888889999999999988876542  2234577788888899999999


Q ss_pred             HHHHHHHHHC
Q 047178          200 IKLFKGLEAF  209 (287)
Q Consensus       200 ~~Lf~eM~~~  209 (287)
                      ++.|.+....
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9988887654

>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=97.34  E-value=0.00087  Score=53.81  Aligned_cols=82  Identities=10%  Similarity=0.133  Sum_probs=36.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh
Q 047178          149 QLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV  228 (287)
Q Consensus       149 aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k  228 (287)
                      .|=..|.+.|+.++|.+.|++..+.+-  -....|..+=..|.+.|++++|+..|+...+.  .|+....|..+-..|.+
T Consensus        36 ~la~~y~~~~~~~~A~~~~~~al~~~p--~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~  111 (150)
T 4ga2_A           36 YFAKLYYEAKEYDLAKKYICTYINVQE--RDPKAHRFLGLLYELEENTDKAVECYRRSVEL--NPTQKDLVLKIAELLCK  111 (150)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            344444555555555555555443321  11223444444555555555555555544432  23333334444444555


Q ss_pred             cCCHHH
Q 047178          229 LGLLEE  234 (287)
Q Consensus       229 ~G~lee  234 (287)
                      .|+.++
T Consensus       112 ~~~~~~  117 (150)
T 4ga2_A          112 NDVTDG  117 (150)
T ss_dssp             HCSSSS
T ss_pred             cCChHH
Confidence            554443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.33  E-value=0.0025  Score=56.42  Aligned_cols=140  Identities=11%  Similarity=-0.059  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHC----CCCCC-hhHHHHHHHHHHHc-CCHHHHHHHHHHhhhCC--CCCCC--h
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSK----GQGST-MGTCGQLIRALDMD-HRAEEAHKFWEKRIGID--LHSVP--W  180 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~----G~~pd-~~TYnaLI~~y~K~-G~leeA~~lF~eM~~~g--~~sv~--~  180 (287)
                      .+..+-..+.+.|++++|+..++.-++.    |-... ..+|+.|-..|... |+.++|...|++-....  .....  .
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~  158 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHH
Confidence            4555666678889999998888776542    21111 34788888889996 99999999999875421  00011  1


Q ss_pred             hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChH-----HHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhh
Q 047178          181 QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEK-----SIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       181 ~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~-----~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~  250 (287)
                      .+|+.+-..|.+.|++++|++.|++...........     .+|..+..++...|++++|...+++...+...+.
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~  233 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFA  233 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCC
Confidence            358889999999999999999999998764332211     1456667788899999999999998776655544

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.33  E-value=0.0039  Score=48.70  Aligned_cols=97  Identities=9%  Similarity=-0.076  Sum_probs=80.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADA  225 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a  225 (287)
                      .|.-+=+.|.+.|++++|.+.|++..+.+-  .....|..+-.+|.+.|++++|++.|....+.  .|+....|..+-.+
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~   90 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDP--ENAILYSNRAACLTKLMEFQRALDDCDTCIRL--DSKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHh--hhhhhHHHHHHHHH
Confidence            455556678999999999999999887542  23457888999999999999999999998874  45555678888999


Q ss_pred             HHhcCCHHHHHHHHHHHhHHH
Q 047178          226 YEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       226 ~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |...|++++|...+++...+-
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHCCCHHHHHHHHHHHHHHC
Confidence            999999999999999876653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.33  E-value=0.0024  Score=54.66  Aligned_cols=131  Identities=14%  Similarity=0.070  Sum_probs=97.4

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hhhHHHHH
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQLCKSMI  187 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~tyNsmI  187 (287)
                      -..+...|++++|+.+++...+..-. +    ..+|..+-..|...|+.++|.+.|++.....  ....+  ..+|..+-
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   90 (338)
T 3ro2_A           12 GERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   90 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence            34567889999999999998876321 2    3578889999999999999999999865320  00011  24688899


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHC----CCCCChHHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHh
Q 047178          188 AIYYRNNMLERLIKLFKGLEAF----DRKPPEKSIVQRVADAYEVLGL--------------------LEEKERVLEKYK  243 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~~Ty~sLI~a~~k~G~--------------------leeA~~ll~~m~  243 (287)
                      ..|...|++++|.+.|.+....    +-.+....++..+...|...|+                    +++|...+++..
T Consensus        91 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~  170 (338)
T 3ro2_A           91 NTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENL  170 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            9999999999999999987542    2222222367788888999999                    999998888766


Q ss_pred             HHHh
Q 047178          244 DLFT  247 (287)
Q Consensus       244 ~l~~  247 (287)
                      .+..
T Consensus       171 ~~~~  174 (338)
T 3ro2_A          171 SLVT  174 (338)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.33  E-value=0.0039  Score=53.43  Aligned_cols=133  Identities=9%  Similarity=0.012  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCC-CCC-hhHHHHHHHHHHH--------cCCHHHHHHHHHHhhhCCCCCCCh
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQ-GST-MGTCGQLIRALDM--------DHRAEEAHKFWEKRIGIDLHSVPW  180 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~-~pd-~~TYnaLI~~y~K--------~G~leeA~~lF~eM~~~g~~sv~~  180 (287)
                      .+..+-..+.+.|++++|+..|+..++..- .|+ ..++..+-.+|.+        .|+.++|...|++.....-.  ..
T Consensus        54 a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~--~~  131 (261)
T 3qky_A           54 AQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN--HE  131 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT--CT
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC--ch
Confidence            344455567889999999999999887521 122 3456667777888        99999999999999875421  11


Q ss_pred             hhH-----------------HHHHHHHHHcCCHhHHHHHHHHHHHCCCCCC---hHHHHHHHHHHHHhc----------C
Q 047178          181 QLC-----------------KSMIAIYYRNNMLERLIKLFKGLEAFDRKPP---EKSIVQRVADAYEVL----------G  230 (287)
Q Consensus       181 ~ty-----------------NsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD---~~~Ty~sLI~a~~k~----------G  230 (287)
                      ..+                 -.+-..|.+.|++++|+..|++.....  |+   ..-.+..+..+|...          |
T Consensus       132 ~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~  209 (261)
T 3qky_A          132 LVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAY--PDTPWADDALVGAMRAYIAYAEQSVRARQPE  209 (261)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhcccchhhcccc
Confidence            223                 345678899999999999999998643  43   223456667778766          8


Q ss_pred             CHHHHHHHHHHHhHHHh
Q 047178          231 LLEEKERVLEKYKDLFT  247 (287)
Q Consensus       231 ~leeA~~ll~~m~~l~~  247 (287)
                      ++++|...+++....+-
T Consensus       210 ~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          210 RYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHHHHHHHHHHHHHCT
T ss_pred             hHHHHHHHHHHHHHHCC
Confidence            89999999988776553

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.32  E-value=0.0036  Score=45.06  Aligned_cols=92  Identities=8%  Similarity=-0.156  Sum_probs=75.3

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC--ChhhHHHHHHHHHHc
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV--PWQLCKSMIAIYYRN  193 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv--~~~tyNsmIsgY~k~  193 (287)
                      -..+...|++++|+..++...+.. ..+..+|..+-..|.+.|+.++|...|++....+-  .  ....|..+-..|.+.
T Consensus        13 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~~~l~~~~~~~   89 (112)
T 2kck_A           13 GVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIE--DEYNKDVWAAKADALRYI   89 (112)
T ss_dssp             HHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSC--CTTCHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc--ccchHHHHHHHHHHHHHH
Confidence            344667889999999999887753 23567888899999999999999999999987642  2  335688889999999


Q ss_pred             -CCHhHHHHHHHHHHHCC
Q 047178          194 -NMLERLIKLFKGLEAFD  210 (287)
Q Consensus       194 -G~~eeA~~Lf~eM~~~G  210 (287)
                       |++++|.+.|.+.....
T Consensus        90 ~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           90 EGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             SSCSHHHHHHHHHHGGGC
T ss_pred             hCCHHHHHHHHHHHhhcc
Confidence             99999999999987654

>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=97.27  E-value=0.0055  Score=50.46  Aligned_cols=119  Identities=12%  Similarity=-0.011  Sum_probs=87.6

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCC-CCC--------------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQ-GST--------------MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV  178 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~-~pd--------------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv  178 (287)
                      ..-..+.+.+++++|++.+...++..- .|+              ..+|..+-.+|.+.|+.++|...|++....+-  .
T Consensus        43 ~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p--~  120 (198)
T 2fbn_A           43 EEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDK--N  120 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--T
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc--c
Confidence            344456788999999999998876421 111              26788888889999999999999999877542  2


Q ss_pred             ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHH
Q 047178          179 PWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKE  236 (287)
Q Consensus       179 ~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~  236 (287)
                      ....|..+-.+|...|++++|++.|.+....  .|+....+..+...+...++.+++.
T Consensus       121 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          121 NVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            2346777888999999999999999988764  4554455666766777777666665

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.26  E-value=0.011  Score=48.35  Aligned_cols=97  Identities=5%  Similarity=-0.028  Sum_probs=78.8

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+.+.|++++|+..|+..++.. +.+...|..|=.+|.+.|+.++|...|++....+-  .....|..+=.+|.+.
T Consensus        41 ~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P--~~~~~~~~lg~~~~~l  117 (151)
T 3gyz_A           41 SYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGK--NDYTPVFHTGQCQLRL  117 (151)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSS--SCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCC--CCcHHHHHHHHHHHHc
Confidence            33445788999999999999988752 23567888999999999999999999999987542  2234677788999999


Q ss_pred             CCHhHHHHHHHHHHHCCCCCCh
Q 047178          194 NMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      |++++|...|+...+.  .||.
T Consensus       118 g~~~eA~~~~~~al~l--~~~~  137 (151)
T 3gyz_A          118 KAPLKAKECFELVIQH--SNDE  137 (151)
T ss_dssp             TCHHHHHHHHHHHHHH--CCCH
T ss_pred             CCHHHHHHHHHHHHHh--CCCH
Confidence            9999999999998875  4774

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.26  E-value=0.0062  Score=49.10  Aligned_cols=126  Identities=11%  Similarity=0.009  Sum_probs=88.3

Q ss_pred             HHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC--CCCCCC--hhhHHHHHHHHHHcCC
Q 047178          120 EKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGI--DLHSVP--WQLCKSMIAIYYRNNM  195 (287)
Q Consensus       120 ~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~--g~~sv~--~~tyNsmIsgY~k~G~  195 (287)
                      ...|++++|.++++.... .......+++.+-..|...|+.++|...|++....  .....+  ...|+.+-..|...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            356788888885554432 11134567888999999999999999999987641  110012  2468888889999999


Q ss_pred             HhHHHHHHHHHHHC----CCCC-ChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          196 LERLIKLFKGLEAF----DRKP-PEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~----Gi~P-D~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +++|.+.|.+....    |-.| .....+..+-..+...|++++|...+++...+.
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  137 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYA  137 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            99999999886542    3222 223457777888999999999999998876654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.24  E-value=0.02  Score=50.25  Aligned_cols=133  Identities=9%  Similarity=0.039  Sum_probs=97.6

Q ss_pred             HHHHccchhhHHHHHHHHHHCCC---CCC--hhHHHHHHHHHHHcCCHHHHHHHHHHhhh---CCCCCC--ChhhHHHHH
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQ---GST--MGTCGQLIRALDMDHRAEEAHKFWEKRIG---IDLHSV--PWQLCKSMI  187 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~---~pd--~~TYnaLI~~y~K~G~leeA~~lF~eM~~---~g~~sv--~~~tyNsmI  187 (287)
                      .+...|++++|++.+....+.-.   .+.  ..+|+.+-..|...|+.++|...|++...   ......  ...+|+.+-
T Consensus       124 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg  203 (293)
T 2qfc_A          124 YVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHA  203 (293)
T ss_dssp             HHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             HHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHH
Confidence            34566789999999988765321   111  34789999999999999999999998762   211000  114688889


Q ss_pred             HHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHH-HHHHHHHhHHHhhhh
Q 047178          188 AIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEK-ERVLEKYKDLFTEKE  250 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA-~~ll~~m~~l~~~~~  250 (287)
                      ..|.+.|++++|++.|++-..    .+..+....+|..+-..|.+.|+.++| ...+++...++..+-
T Consensus       204 ~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~~~~~  271 (293)
T 2qfc_A          204 KALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFFFDILE  271 (293)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999997653    233333246678888899999999999 887888777765543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.23  E-value=0.0098  Score=45.22  Aligned_cols=98  Identities=12%  Similarity=-0.049  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      +...-..+...+++++|++.+....+.  .|+    ..+|..+-..|.+.|++++|...|++....+-  .....|..+-
T Consensus        31 ~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~a  106 (148)
T 2dba_A           31 LRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG--GDVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS--CCHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc--cCHHHHHHHH
Confidence            333445566788999999999988764  455    57788888999999999999999999876542  2334677788


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCCh
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      .+|.+.|++++|...|.+....  .|+.
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~--~p~~  132 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSL--EPKN  132 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CSSC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc--CCCc
Confidence            8999999999999999998764  4653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.23  E-value=0.0057  Score=54.40  Aligned_cols=124  Identities=15%  Similarity=0.083  Sum_probs=90.1

Q ss_pred             hhhHHHHHHHHHH----CCCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hhhHHHHHHHHHHcCC
Q 047178          125 WHRVVQVIKWMLS----KGQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQLCKSMIAIYYRNNM  195 (287)
Q Consensus       125 ~~~A~qv~~~M~~----~G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~tyNsmIsgY~k~G~  195 (287)
                      +++|++.+....+    .+..+ ...+|+.+-..|...|+.++|...|++.....  ....+  ..+|..+-..|...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            8888888776543    22112 23468888899999999999999999876421  10011  1368889999999999


Q ss_pred             HhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          196 LERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       196 ~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      +++|...|.+...    .+-.+....++..+...|...|++++|...+++...+...
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  299 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  299 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHh
Confidence            9999999998763    2322322356778888999999999999999887666443

>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=97.22  E-value=0.01  Score=45.01  Aligned_cols=98  Identities=7%  Similarity=-0.065  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      ...+...-..+.+.|++++|+..|...++.. ..+...|..+-..|.+.|+.++|...|++....+-  .....|..+-.
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~l~~   85 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG--QSVKAHFFLGQ   85 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc--hhHHHHHHHHH
Confidence            3444555566788999999999999887753 23567899999999999999999999999887542  23356888999


Q ss_pred             HHHHcCCHhHHHHHHHHHHHC
Q 047178          189 IYYRNNMLERLIKLFKGLEAF  209 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~  209 (287)
                      .|.+.|++++|+..|.+....
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            999999999999999987653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.19  E-value=0.008  Score=58.86  Aligned_cols=128  Identities=13%  Similarity=0.081  Sum_probs=96.3

Q ss_pred             HHHHHccchhhHHHHHHHHHH---CCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhh-----CCCCCCCh-hhH
Q 047178          117 LALEKEQQWHRVVQVIKWMLS---KGQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIG-----IDLHSVPW-QLC  183 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~---~G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~-----~g~~sv~~-~ty  183 (287)
                      ..+...|++++|+.++...++   +-++++    ..++|.|-..|...|++++|+.++++...     -|-.-+.. .+|
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            446678999999998877654   233443    35799999999999999999999998653     12111121 479


Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHH-----CCC-CCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEA-----FDR-KPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~-----~Gi-~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      |.|=..|...|++++|..+|.+-.+     .|- .|+...+.+.+-.++...|++++|+.++..+.+
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987642     342 355555566777788889999999999988754

>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=97.18  E-value=0.0046  Score=50.17  Aligned_cols=127  Identities=11%  Similarity=0.068  Sum_probs=87.4

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHH--HHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRA--LDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~--y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      +..+-..+...|++++|+..++...+.  .|+...+ .+...  +...+...+|...|++....+-  .+...|..+-..
T Consensus        43 ~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~-~~~~~~~~~~~~~~~~a~~~~~~al~~~P--~~~~~~~~la~~  117 (176)
T 2r5s_A           43 KLAKADCLLETKQFELAQELLATIPLE--YQDNSYK-SLIAKLELHQQAAESPELKRLEQELAANP--DNFELACELAVQ  117 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHH-HHHHHHHHHHHHTSCHHHHHHHHHHHHST--TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHH-HHHHHHHHHhhcccchHHHHHHHHHHhCC--CCHHHHHHHHHH
Confidence            444555677899999999998876543  2343332 22221  2222333457888888876541  223467778889


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      |.+.|++++|...|.+.....-.++....+..+...|...|+.++|...+.+..
T Consensus       118 ~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          118 YNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            999999999999999998775433212457888899999999999998887643

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.18  E-value=0.0086  Score=46.86  Aligned_cols=92  Identities=9%  Similarity=-0.073  Sum_probs=74.3

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      .-..+.+.|++++|+..|....... +.+...|..|-.+|.+.|+.++|...|++....+-  .+...|..+-.+|...|
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~g  100 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI--NEPRFPFHAAECHLQLG  100 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCcHHHHHHHHHHHHcC
Confidence            3345678899999999999987643 23667788888899999999999999999887542  22345777888999999


Q ss_pred             CHhHHHHHHHHHHHC
Q 047178          195 MLERLIKLFKGLEAF  209 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~  209 (287)
                      ++++|.+.|+.....
T Consensus       101 ~~~~A~~~~~~al~~  115 (142)
T 2xcb_A          101 DLDGAESGFYSARAL  115 (142)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999987754

>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=97.17  E-value=0.0093  Score=45.13  Aligned_cols=92  Identities=11%  Similarity=-0.030  Sum_probs=75.5

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      .-..+.+.|++++|++.|...++.. ..+...|..+-.+|.+.|+.++|...|++....+-  .....|..+-.+|...|
T Consensus        10 ~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~~   86 (126)
T 3upv_A           10 EGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP--NFVRAYIRKATAQIAVK   86 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHHh
Confidence            3345678899999999999887753 23677899999999999999999999999887542  23346888889999999


Q ss_pred             CHhHHHHHHHHHHHC
Q 047178          195 MLERLIKLFKGLEAF  209 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~  209 (287)
                      ++++|.+.|.+..+.
T Consensus        87 ~~~~A~~~~~~al~~  101 (126)
T 3upv_A           87 EYASALETLDAARTK  101 (126)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999988764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.17  E-value=0.0082  Score=47.84  Aligned_cols=100  Identities=12%  Similarity=-0.029  Sum_probs=83.8

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHH
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRV  222 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sL  222 (287)
                      +...|..+-..|.+.|++++|...|++....+-  .....|..+-.+|.+.|++++|+..|++.....  |+....|..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP--ANPIYLSNRAAAYSASGQHEKAAEDAELATVVD--PKYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            445678888899999999999999999887542  234568889999999999999999999988754  6555778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          223 ADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       223 I~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      -.+|...|++++|...+++...+.
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC
Confidence            999999999999999998776654

>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=97.16  E-value=0.0067  Score=53.72  Aligned_cols=92  Identities=5%  Similarity=-0.100  Sum_probs=55.7

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+.+.|++++|+..+...++.. ..+...|..+-..|.+.|+.++|...|++....+-  .....|+.+-.+|.+.
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~   85 (281)
T 2c2l_A            9 EQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG--QSVKAHFFLGQCQLEM   85 (281)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT--TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHc
Confidence            33344566677777777776665531 12455666666667777777777777776655431  2234466666667777


Q ss_pred             CCHhHHHHHHHHHHH
Q 047178          194 NMLERLIKLFKGLEA  208 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~  208 (287)
                      |++++|...|.+...
T Consensus        86 g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           86 ESYDEAIANLQRAYS  100 (281)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            777777777766554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.16  E-value=0.0067  Score=53.63  Aligned_cols=135  Identities=10%  Similarity=-0.001  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHC----CCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hh
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSK----GQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQ  181 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~----G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~  181 (287)
                      .+..+...+...|++++|++.|....+.    |-.++ ..+|+-+-..|.+.|+.++|...|++-....  .....  ..
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  118 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3455566778889999998888776542    32222 4688999999999999999999999865421  00011  13


Q ss_pred             hHHHHHHHHHHc-CCHhHHHHHHHHHHHC----CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          182 LCKSMIAIYYRN-NMLERLIKLFKGLEAF----DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       182 tyNsmIsgY~k~-G~~eeA~~Lf~eM~~~----Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +|+.|=..|... |++++|++.|++-.+.    |-.+....+|..+...|...|++++|...+++...+
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  187 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            688888899996 9999999999987642    211111245788888999999999999999876654

>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=97.13  E-value=0.013  Score=55.03  Aligned_cols=123  Identities=7%  Similarity=0.004  Sum_probs=91.7

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCC-ChhHHHHHHHHHHHcCC-HHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGS-TMGTCGQLIRALDMDHR-AEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~p-d~~TYnaLI~~y~K~G~-leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      ..+.+.|++++|++.+...++.  .| +..+|+-+-..|.+.|+ +++|...|++....+-  -....|+.+=..|.+.|
T Consensus       105 ~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P--~~~~a~~~~g~~~~~~g  180 (382)
T 2h6f_A          105 AVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP--KNYQVWHHRRVLVEWLR  180 (382)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHcc
Confidence            3456678888888888887764  34 45667888888888886 8888888888877542  23346777888888888


Q ss_pred             CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          195 MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ++++|+..|+...+.  .|+....|.-+-.++...|++++|...+++...+
T Consensus       181 ~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l  229 (382)
T 2h6f_A          181 DPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE  229 (382)
T ss_dssp             CCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence            888888888888764  4555566777777888888888888888765543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.12  E-value=0.0093  Score=54.07  Aligned_cols=136  Identities=10%  Similarity=-0.039  Sum_probs=100.5

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC--CC---CC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK--GQ---GS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQ  181 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~--G~---~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~  181 (287)
                      +..+-..+...|++++|++.+....+.  ..   .+ ...+++.|=..|...|+.++|...|++.....  ....+  ..
T Consensus       146 ~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  225 (383)
T 3ulq_A          146 FFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGR  225 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            334445567788999998888776542  11   11 23468888889999999999999999875421  10011  13


Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHHC----CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEAF----DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +|+.|=..|...|++++|++.|.+-...    +-.|+...++..+-..|.+.|++++|...+++...+..
T Consensus       226 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  295 (383)
T 3ulq_A          226 TLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQ  295 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            6888999999999999999999988762    44465567788899999999999999999988776643

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.11  E-value=0.0042  Score=48.04  Aligned_cols=92  Identities=10%  Similarity=-0.099  Sum_probs=54.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh
Q 047178          149 QLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV  228 (287)
Q Consensus       149 aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k  228 (287)
                      .+-..|.+.|++++|...|++....+-  .....|..+=..|.+.|++++|+..|++..+.  .|+....+..+-.+|..
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~~P--~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQKEP--EREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            344455666777777777776665431  12234555556666677777777777665553  34434455566666666


Q ss_pred             cCCHHHHHHHHHHHhH
Q 047178          229 LGLLEEKERVLEKYKD  244 (287)
Q Consensus       229 ~G~leeA~~ll~~m~~  244 (287)
                      .|++++|...+++...
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777766665543

>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=97.09  E-value=0.0059  Score=50.03  Aligned_cols=93  Identities=9%  Similarity=-0.116  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADA  225 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a  225 (287)
                      .|..+-..|...|+.++|...|++...     +....|..+-..|.+.|++++|++.|.+.....  |+....|..+-..
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~~-----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~   80 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQD-----PHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSSS-----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcC-----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHH
Confidence            455566778899999999999998742     233568889999999999999999999988753  5545778888899


Q ss_pred             HHhcCCHHHHHHHHHHHhHH
Q 047178          226 YEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       226 ~~k~G~leeA~~ll~~m~~l  245 (287)
                      |...|++++|...+++...+
T Consensus        81 ~~~~~~~~~A~~~~~~al~~  100 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQ  100 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHcccHHHHHHHHHHHHHh
Confidence            99999999999999887764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.09  E-value=0.025  Score=47.74  Aligned_cols=129  Identities=11%  Similarity=-0.006  Sum_probs=86.0

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCC-CC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh-hhHHHHHHHHHH
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQG-ST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW-QLCKSMIAIYYR  192 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~-pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~-~tyNsmIsgY~k  192 (287)
                      -..+.+.|++++|+..|+.+++..-. |. ...+.-+-.+|.+.|+.++|...|++.....-..+.. ..|-.+-.+|.+
T Consensus        11 a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~   90 (225)
T 2yhc_A           11 AQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMA   90 (225)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHh
Confidence            34466778999999999998874221 11 2467778888999999999999999987643211110 122223333333


Q ss_pred             ------------------cCCHhHHHHHHHHHHHCCCCCChHHHHH-----------------HHHHHHHhcCCHHHHHH
Q 047178          193 ------------------NNMLERLIKLFKGLEAFDRKPPEKSIVQ-----------------RVADAYEVLGLLEEKER  237 (287)
Q Consensus       193 ------------------~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~-----------------sLI~a~~k~G~leeA~~  237 (287)
                                        .|++++|+..|++....  .||......                 .+-..|.+.|++++|..
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~  168 (225)
T 2yhc_A           91 LDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVN  168 (225)
T ss_dssp             HHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             hhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHH
Confidence                              57899999999998865  355422221                 23446788899999999


Q ss_pred             HHHHHhHHH
Q 047178          238 VLEKYKDLF  246 (287)
Q Consensus       238 ll~~m~~l~  246 (287)
                      .++++...+
T Consensus       169 ~~~~~l~~~  177 (225)
T 2yhc_A          169 RVEGMLRDY  177 (225)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHHC
Confidence            888776665

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.07  E-value=0.0017  Score=49.30  Aligned_cols=89  Identities=13%  Similarity=0.019  Sum_probs=68.0

Q ss_pred             HcCCHHHHHHHHHHhhhCCCCCC-ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHH
Q 047178          156 MDHRAEEAHKFWEKRIGIDLHSV-PWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEE  234 (287)
Q Consensus       156 K~G~leeA~~lF~eM~~~g~~sv-~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~lee  234 (287)
                      ..|+.++|...|++....+...+ ....|..|-..|.+.|++++|+..|++..+..  |+...++..+..+|...|++++
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCHHH
Confidence            45889999999999887642111 12468889999999999999999999988753  5555678888889999999999


Q ss_pred             HHHHHHHHhHHH
Q 047178          235 KERVLEKYKDLF  246 (287)
Q Consensus       235 A~~ll~~m~~l~  246 (287)
                      |...+++...+.
T Consensus        80 A~~~~~~al~~~   91 (117)
T 3k9i_A           80 GVELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            999998876653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.06  E-value=0.0066  Score=55.06  Aligned_cols=136  Identities=10%  Similarity=0.071  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC----CC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC-hhhH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK----GQ-GSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP-WQLC  183 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~----G~-~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~-~~ty  183 (287)
                      +..+-..+...|++++|++.+....+.    +. .....++..|-..|.+.|+.++|...|++.....  ...+. ...+
T Consensus       227 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  306 (383)
T 3ulq_A          227 LYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEF  306 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            334445567889999998888877652    33 3345678888899999999999999999865421  00011 1236


Q ss_pred             HHHHHHHHHcCC---HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhh
Q 047178          184 KSMIAIYYRNNM---LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       184 NsmIsgY~k~G~---~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~  250 (287)
                      +.|-..|...|+   +++|+.+|++.   +..|+...++..+-..|...|+.++|...+++...+.....
T Consensus       307 ~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~~~i~  373 (383)
T 3ulq_A          307 EFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQVRQLIQ  373 (383)
T ss_dssp             HHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTSCS
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhh
Confidence            677778888888   88888888765   55565445677888899999999999999998887765543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.06  E-value=0.026  Score=42.23  Aligned_cols=96  Identities=9%  Similarity=0.070  Sum_probs=74.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh--hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCCh---HHHHHHHH
Q 047178          149 QLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW--QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPE---KSIVQRVA  223 (287)
Q Consensus       149 aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~--~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~---~~Ty~sLI  223 (287)
                      .+-..+.+.|+.++|...|++....+-. .+.  ..|..+-..|.+.|++++|...|.......  |+.   ...+..+.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHH
Confidence            3455678899999999999998875421 121  356678888999999999999999988753  442   24466777


Q ss_pred             HHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          224 DAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       224 ~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .+|...|+.++|...+++....+-
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p  107 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYP  107 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC
Confidence            889999999999999998877654

>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=97.05  E-value=0.0087  Score=47.80  Aligned_cols=111  Identities=7%  Similarity=0.096  Sum_probs=83.9

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      +-..+.+.|++++|++.|+..++.. +-+..+|..|=..|.+.|+.++|...|++..+.+-  .....|..+-..|.+.|
T Consensus        37 la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~la~~~~~~~  113 (150)
T 4ga2_A           37 FAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVELNP--TQKDLVLKIAELLCKND  113 (150)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcC
Confidence            4455788999999999999988752 23677899999999999999999999999887542  23346888889999999


Q ss_pred             CHhHHHHHH-HHHHHCCCCCChHHHHHHHHHHHHhcC
Q 047178          195 MLERLIKLF-KGLEAFDRKPPEKSIVQRVADAYEVLG  230 (287)
Q Consensus       195 ~~eeA~~Lf-~eM~~~Gi~PD~~~Ty~sLI~a~~k~G  230 (287)
                      ++++|.+.| +...+  +.|+...+|...-..+...|
T Consensus       114 ~~~~aa~~~~~~al~--l~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A          114 VTDGRAKYWVERAAK--LFPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             SSSSHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTCC
T ss_pred             ChHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhC
Confidence            998877654 65554  45765566665555555554

>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=97.03  E-value=0.013  Score=46.77  Aligned_cols=93  Identities=5%  Similarity=-0.128  Sum_probs=74.6

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+...|++++|+..|....... ..+...|..+=.+|.+.|+.++|...|++....+-  .....|..+-.+|...
T Consensus        26 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p--~~~~~~~~lg~~~~~~  102 (148)
T 2vgx_A           26 SLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI--XEPRFPFHAAECLLQX  102 (148)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--TCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC--CCchHHHHHHHHHHHc
Confidence            34445778899999999999887642 23667788888899999999999999999876542  2234577788899999


Q ss_pred             CCHhHHHHHHHHHHHC
Q 047178          194 NMLERLIKLFKGLEAF  209 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~  209 (287)
                      |++++|.+.|....+.
T Consensus       103 g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          103 GELAEAESGLFLAQEL  118 (148)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999987654

>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=96.94  E-value=0.018  Score=47.21  Aligned_cols=99  Identities=14%  Similarity=0.098  Sum_probs=77.9

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC--------------hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP--------------WQLCKSMIAIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~--------------~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      ..+..+=..|.+.|++++|...|.+.....-..++              ...|..+-.+|.+.|++++|+..|...... 
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-  117 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI-  117 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-
Confidence            34566667788999999999999998764321110              146777888999999999999999998875 


Q ss_pred             CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          211 RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       211 i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                       .|+....|..+-.+|...|++++|...+.+...+
T Consensus       118 -~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A          118 -DKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             -STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence             4654567888888999999999999999876554

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=96.94  E-value=0.0094  Score=53.07  Aligned_cols=128  Identities=9%  Similarity=0.020  Sum_probs=57.4

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHC----CCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCC--hhhHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSK----GQGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVP--WQLCK  184 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~----G~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~--~~tyN  184 (287)
                      .+-..+.+.|++++|++.+..-++.    |-.. -..+|+.|=..|.. |+.++|...|++-....  .....  ..+|+
T Consensus        81 ~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~  159 (307)
T 2ifu_A           81 QAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIG  159 (307)
T ss_dssp             HHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            3334445555666665555543321    1100 02234444445555 66666666665543210  00000  12355


Q ss_pred             HHHHHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          185 SMIAIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       185 smIsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      .+-..|.+.|++++|++.|.+...    .+..+....++..+...+...|++++|...+++.
T Consensus       160 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          160 KASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555556666666666666655543    2222221113333334444456666666555554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=96.92  E-value=0.008  Score=55.08  Aligned_cols=126  Identities=7%  Similarity=-0.108  Sum_probs=91.2

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC---hhhHHHHHHHHH
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP---WQLCKSMIAIYY  191 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~---~~tyNsmIsgY~  191 (287)
                      ....|...|++++|.++|..+...+  |+....-.+-..|.+.|++++|+..|++.....   .+   ...+..+=.+|.
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~---d~~~~~~a~~~LG~al~  182 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP---DKFLAGAAGVAHGVAAA  182 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS---CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC---CcccHHHHHHHHHHHHH
Confidence            4456788999999999998876533  544465666668999999999999998664421   11   123455666899


Q ss_pred             HcCCHhHHHHHHHHHHHCCCCCC-hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          192 RNNMLERLIKLFKGLEAFDRKPP-EKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~Gi~PD-~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +.|++++|+..|++-......|. ..-.....-.++.+.|+.++|..+|+++...
T Consensus       183 ~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          183 NLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            99999999999999875444254 1112233445788999999999999987664

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=96.90  E-value=0.029  Score=52.06  Aligned_cols=131  Identities=8%  Similarity=0.003  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCC-----ChhHHHHHHHH--HHHcC--CHHHHHHHHHHhhhCCCCCCC
Q 047178          109 VGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGS-----TMGTCGQLIRA--LDMDH--RAEEAHKFWEKRIGIDLHSVP  179 (287)
Q Consensus       109 ~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~p-----d~~TYnaLI~~--y~K~G--~leeA~~lF~eM~~~g~~sv~  179 (287)
                      .-.+..++..+.+.|+.+.|.+.++.|.+.  .|     +-.+..-|..+  ....|  +..+|..+|+++....   ++
T Consensus       136 lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~---p~  210 (310)
T 3mv2_B          136 TELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF---PT  210 (310)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS---CS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC---CC
Confidence            344556778899999999999999999774  45     23444555555  33334  9999999999997653   33


Q ss_pred             hhhHHHHHHHHHHcCCHhHHHHHHHHHHHC-----C---CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          180 WQLCKSMIAIYYRNNMLERLIKLFKGLEAF-----D---RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       180 ~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~-----G---i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |.+-..+++++.+.|++++|.+.++.+.+.     .   ..|+...++.-+|..+...|+  +|.+++.+...+.
T Consensus       211 ~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          211 WKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            333455566899999999999999977653     1   136665666445555556786  7787777655443

>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=96.85  E-value=0.0027  Score=61.25  Aligned_cols=117  Identities=11%  Similarity=-0.028  Sum_probs=85.9

Q ss_pred             HHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHH
Q 047178          120 EKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERL  199 (287)
Q Consensus       120 ~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA  199 (287)
                      .+.|++++|++.+...++. ...+..+|..+-.+|.+.|+.++|.+.|++..+.+-  .....|..+-.+|.+.|++++|
T Consensus        17 ~~~g~~~~A~~~~~~Al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p--~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           17 FKAKDYENAIKFYSQAIEL-NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK--KYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT--TCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCCHHHH
Confidence            4667888888888887764 223577899999999999999999999999987642  2335688888999999999999


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHH--HHhcCCHHHHHHHHHH
Q 047178          200 IKLFKGLEAFDRKPPEKSIVQRVADA--YEVLGLLEEKERVLEK  241 (287)
Q Consensus       200 ~~Lf~eM~~~Gi~PD~~~Ty~sLI~a--~~k~G~leeA~~ll~~  241 (287)
                      .+.|++..+.  .|+....+..+-.+  +.+.|++++|.+++++
T Consensus        94 ~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           94 LRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            9999998775  34332334444444  7778888888888775

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=96.84  E-value=0.0053  Score=61.68  Aligned_cols=127  Identities=11%  Similarity=-0.069  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+...-..+...|++++|++.++..++.. ..+...|..+=..|.+.|+.++|.+.|++....+-  .....|..+=..|
T Consensus       435 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P--~~~~~~~~lg~~~  511 (681)
T 2pzi_A          435 LPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFP--GELAPKLALAATA  511 (681)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST--TCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CChHHHHHHHHHH
Confidence            34445556778899999999999987642 23566788888899999999999999999877542  1234688888899


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      .+.|++++ ++.|++..+.  .|+....|..+-.+|...|++++|...+++..
T Consensus       512 ~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  561 (681)
T 2pzi_A          512 ELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRTLDEVP  561 (681)
T ss_dssp             HHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHHHHhhc
Confidence            99999999 9999998764  46555778888889999999999999998644

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=96.82  E-value=0.056  Score=45.49  Aligned_cols=129  Identities=11%  Similarity=0.037  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCC-CCh-hHHHHHHHHHHH------------------cCCHHHHHHHHHHh
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQG-STM-GTCGQLIRALDM------------------DHRAEEAHKFWEKR  170 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~-pd~-~TYnaLI~~y~K------------------~G~leeA~~lF~eM  170 (287)
                      .+..+-..+.+.|++++|+..|+..++..-. +.. .++--+-.+|.+                  .|+.++|...|++.
T Consensus        43 a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  122 (225)
T 2yhc_A           43 VQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKL  122 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHH
Confidence            3445566788899999999999998875321 111 123323333333                  57899999999999


Q ss_pred             hhCCCCCCChhhHH-----------------HHHHHHHHcCCHhHHHHHHHHHHHCCCCCChH---HHHHHHHHHHHhcC
Q 047178          171 IGIDLHSVPWQLCK-----------------SMIAIYYRNNMLERLIKLFKGLEAFDRKPPEK---SIVQRVADAYEVLG  230 (287)
Q Consensus       171 ~~~g~~sv~~~tyN-----------------smIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~---~Ty~sLI~a~~k~G  230 (287)
                      ....-.  ....+.                 .+-..|.+.|++++|+..|+++.+.-  |+..   -.+..+..+|.+.|
T Consensus       123 l~~~P~--~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g  198 (225)
T 2yhc_A          123 VRGYPN--SQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQ  198 (225)
T ss_dssp             HTTCTT--CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTT
T ss_pred             HHHCcC--ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcC
Confidence            876421  112222                 23456889999999999999998752  4421   23667788999999


Q ss_pred             CHHHHHHHHHHHh
Q 047178          231 LLEEKERVLEKYK  243 (287)
Q Consensus       231 ~leeA~~ll~~m~  243 (287)
                      +.++|...++...
T Consensus       199 ~~~~A~~~~~~l~  211 (225)
T 2yhc_A          199 MNAQAEKVAKIIA  211 (225)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHH
Confidence            9999999887644

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.82  E-value=0.011  Score=46.97  Aligned_cols=94  Identities=7%  Similarity=-0.071  Sum_probs=56.3

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHC-------CC---------CC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCC
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSK-------GQ---------GS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH  176 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~-------G~---------~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~  176 (287)
                      ..=..+.+.|++.+|+..|...++.       .-         .| +...|.-+-.+|.+.|+.++|...|++....+- 
T Consensus        16 ~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p-   94 (162)
T 3rkv_A           16 QKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREE-   94 (162)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCC-
Confidence            3334566677777777777765543       00         11 224566666667777777777777777665431 


Q ss_pred             CCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHC
Q 047178          177 SVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAF  209 (287)
Q Consensus       177 sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~  209 (287)
                       .....|..+=.+|...|++++|...|......
T Consensus        95 -~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           95 -TNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence             22234566666777777777777777665543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=96.82  E-value=0.024  Score=51.37  Aligned_cols=135  Identities=12%  Similarity=0.022  Sum_probs=94.5

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHC----CCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCC--CCCC-hhhHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSK----GQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDL--HSVP-WQLCKSM  186 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~----G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~--~sv~-~~tyNsm  186 (287)
                      .+-..+...|++++|++.+....+.    +......++..|-..|.+.|+.++|...|++.....-  ..+. ...++.+
T Consensus       227 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  306 (378)
T 3q15_A          227 NIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFL  306 (378)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444566788899998888876651    2223356788888889999999999999998764211  0011 1346666


Q ss_pred             HHHHHHcCC---HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhhc
Q 047178          187 IAIYYRNNM---LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEK  251 (287)
Q Consensus       187 IsgY~k~G~---~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~~  251 (287)
                      -..|...|.   +++|+..|.+   .+..|+....+..+-..|...|+.++|...+++...+......
T Consensus       307 ~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~~~~~~  371 (378)
T 3q15_A          307 QAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKAQEDILK  371 (378)
T ss_dssp             HHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhc
Confidence            667777787   7888888776   4445554455677888899999999999999988777665443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=96.82  E-value=0.012  Score=49.30  Aligned_cols=109  Identities=7%  Similarity=0.015  Sum_probs=85.8

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCC-hhHHHH----------------HHHHHHHcCCHHHHHHHHHHhhhCCCCCCC
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGST-MGTCGQ----------------LIRALDMDHRAEEAHKFWEKRIGIDLHSVP  179 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd-~~TYna----------------LI~~y~K~G~leeA~~lF~eM~~~g~~sv~  179 (287)
                      ..+...|++++|+..|...++.  .|+ ...|..                |-..|.+.|+.++|...|++....+-  ..
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~   87 (208)
T 3urz_A           12 SAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAP--NN   87 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC--CC
Confidence            3466789999999999998764  343 345555                78889999999999999999987652  23


Q ss_pred             hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          180 WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       180 ~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      ...|..+-..|...|++++|+..|++..+.  .|+....+..+-..|...|.
T Consensus        88 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           88 VDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhH
Confidence            457888999999999999999999998874  57665667777777765554

>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=96.79  E-value=0.014  Score=55.94  Aligned_cols=99  Identities=13%  Similarity=0.097  Sum_probs=71.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHhhhCC--CCCCC----hhhHHHHHHHHHHcCCHhHHHHHHHHHHH-----C-CCCCChHHH
Q 047178          151 IRALDMDHRAEEAHKFWEKRIGID--LHSVP----WQLCKSMIAIYYRNNMLERLIKLFKGLEA-----F-DRKPPEKSI  218 (287)
Q Consensus       151 I~~y~K~G~leeA~~lF~eM~~~g--~~sv~----~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~-----~-Gi~PD~~~T  218 (287)
                      |..+.+.|+.++|+.++++..+..  +-.+.    ..++|.|...|...|++++|..++.+...     . .-.|+...+
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            555667788888888888776421  11111    13688888888888888888888887653     2 345776777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhHHHhhh
Q 047178          219 VQRVADAYEVLGLLEEKERVLEKYKDLFTEK  249 (287)
Q Consensus       219 y~sLI~a~~k~G~leeA~~ll~~m~~l~~~~  249 (287)
                      |+.|-..|...|++++|+.++++...++...
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~  404 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVT  404 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Confidence            8888888888888888888888877776654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=96.78  E-value=0.083  Score=47.18  Aligned_cols=136  Identities=8%  Similarity=-0.020  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCCh-hHHH-----HHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh---h
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTM-GTCG-----QLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW---Q  181 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~-~TYn-----aLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~---~  181 (287)
                      .+..+-..+...|++++|...++......-.++. ..+.     .++..+...|+.++|..++++....... .+.   .
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~  254 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFA-NNHFLQG  254 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCT-TCGGGHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCC-cchhhHH
Confidence            3444555677889999999999887653222211 1222     3344577999999999999998754321 111   2


Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .+..+...|...|++++|..++++...    .|..++...++..+-.+|...|+.++|...+.+...+..
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~  324 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLAN  324 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence            467788899999999999999998753    343334222556667788899999999999988776654

>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=96.78  E-value=0.0071  Score=49.03  Aligned_cols=124  Identities=16%  Similarity=0.025  Sum_probs=88.1

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH--HHH
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI--YYR  192 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg--Y~k  192 (287)
                      .-..+...|++++|+..++..++.. +.+...+..+-..|.+.|+.++|...|++....+   ++. .+..+...  +.+
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~---p~~-~~~~~~~~~~~~~   86 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY---QDN-SYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG---CCH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc---CCh-HHHHHHHHHHHHh
Confidence            3445677899999999887755421 2356678889999999999999999999886543   111 22222221  223


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+...+|+..|++..+.  .|+....+..+-..|...|++++|...+++...+
T Consensus        87 ~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  137 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKV  137 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh
Confidence            33445678888887764  4665567788888999999999999999876544

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=96.78  E-value=0.027  Score=43.65  Aligned_cols=51  Identities=12%  Similarity=0.079  Sum_probs=22.6

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHh
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKR  170 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM  170 (287)
                      +.+.|++++|++.|...++.. +.+..+|+-+=.+|.+.|+.++|.+.|++.
T Consensus        18 ~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~a   68 (127)
T 4gcn_A           18 AYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKA   68 (127)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHH
Confidence            344444555555544444321 112334444444444555555555544443

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=96.75  E-value=0.013  Score=53.36  Aligned_cols=99  Identities=8%  Similarity=-0.050  Sum_probs=81.0

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC--------------hhhHHHHHHHHHHcCCHhHHHHHHHHHHHC
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP--------------WQLCKSMIAIYYRNNMLERLIKLFKGLEAF  209 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~--------------~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~  209 (287)
                      ...|..+=..|.+.|++++|...|++.....-. .+              ...|+.+-.+|.+.|++++|+..|.+..+.
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~-~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEY-ESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc-cccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456788888999999999999999998764421 11              256888999999999999999999998875


Q ss_pred             CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          210 DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       210 Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                        .|+....|..+-.+|...|++++|...|++...+
T Consensus       226 --~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  259 (336)
T 1p5q_A          226 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  259 (336)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence              4655677888889999999999999998865443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=96.73  E-value=0.011  Score=52.61  Aligned_cols=134  Identities=14%  Similarity=0.069  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC----CCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhC--CCCCCC--hhh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK----GQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGI--DLHSVP--WQL  182 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~----G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~--g~~sv~--~~t  182 (287)
                      +..+...+...+++++|++.+.+..+.    |-.+. ..+|+-+-..|.+.|+.++|...|++-...  ....+.  ..+
T Consensus        39 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  118 (307)
T 2ifu_A           39 YAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMA  118 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            445556677788899998888776542    21111 347888889999999999999999976431  111011  135


Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |+.|=..|.+ |++++|++.|++-..    .|-.+....++..+-..|...|++++|...+++...+.
T Consensus       119 ~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  185 (307)
T 2ifu_A          119 LDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMY  185 (307)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            7778788888 999999999987654    22222123457788889999999999999998877654

>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=0.026  Score=53.72  Aligned_cols=119  Identities=13%  Similarity=-0.000  Sum_probs=92.8

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCC----------------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCC
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGST----------------MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHS  177 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd----------------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~s  177 (287)
                      ..-..+.+.+++.+|+..|...++..  |+                ...|+-+-.+|.+.|+.++|...|++....+-  
T Consensus       273 ~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p--  348 (457)
T 1kt0_A          273 EKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS--  348 (457)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC--
Confidence            33445778899999999998877632  32                47888899999999999999999999887542  


Q ss_pred             CChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHH
Q 047178          178 VPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERV  238 (287)
Q Consensus       178 v~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~l  238 (287)
                      .....|..+=.+|.+.|++++|+..|.+..+.  .|+....+..+-..+.+.|+.+++.+-
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~  407 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNERDRR  407 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            23346777889999999999999999998764  566556788888889899988887753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=96.65  E-value=0.028  Score=49.66  Aligned_cols=129  Identities=9%  Similarity=-0.032  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHH-HHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQL-IRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaL-I~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      .+..+-..+...|++++|..+++.....  .|+....... ...+.+.|+.++|...|++....+-  .+...+..+-..
T Consensus       153 a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P--~~~~~~~~la~~  228 (287)
T 3qou_A          153 IGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENP--EDAALATQLALQ  228 (287)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCT--TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCC--ccHHHHHHHHHH
Confidence            3444556678899999999999876543  3554433222 2336778888899999999877542  233467788899


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~  243 (287)
                      |.+.|++++|+..|.+.....-..+....+..+...|...|+.++|...+.+-.
T Consensus       229 l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          229 LHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            999999999999999998864322113568899999999999999988876543

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.63  E-value=0.018  Score=44.36  Aligned_cols=91  Identities=7%  Similarity=-0.090  Sum_probs=73.0

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNM  195 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~  195 (287)
                      -..+.+.|++++|+..++..++.. ..+...|..|=..|.+.|+.++|...|++....+-  .....|..+-..|.+.|+
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P--~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP--KDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHcCC
Confidence            345668899999999999987742 23567788888889999999999999999887542  223467888899999999


Q ss_pred             HhHHHHHHHHHHHC
Q 047178          196 LERLIKLFKGLEAF  209 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~  209 (287)
                      +++|+..|++..+.
T Consensus       101 ~~~A~~~~~~al~~  114 (121)
T 1hxi_A          101 ANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988753

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=96.60  E-value=0.024  Score=50.75  Aligned_cols=130  Identities=12%  Similarity=0.065  Sum_probs=93.0

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCC-CCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhhC----CCCCCCh--hhHHH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQ-GST----MGTCGQLIRALDMDHRAEEAHKFWEKRIGI----DLHSVPW--QLCKS  185 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~-~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~~----g~~sv~~--~tyNs  185 (287)
                      ..+...|++++|.+.+.......- ..+    ..+++.+-..|...|++++|...|++....    +....+.  ..++.
T Consensus        61 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  140 (373)
T 1hz4_A           61 EVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRI  140 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHH
Confidence            446678899999988887664211 112    223566777788999999999999987642    2110122  35666


Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHCCCCCC-----hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAFDRKPP-----EKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD-----~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      +-..|...|++++|...|.+-..  +.|+     ...+|..+...+...|++++|...+++...+...
T Consensus       141 la~~~~~~g~~~~A~~~~~~al~--~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~  206 (373)
T 1hz4_A          141 RAQLLWAWARLDEAEASARSGIE--VLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGN  206 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHH--HhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc
Confidence            77788999999999999988764  4663     1245777788889999999999999998887644

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.59  E-value=0.02  Score=43.33  Aligned_cols=103  Identities=14%  Similarity=0.049  Sum_probs=76.8

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCC--CCCCCh--hhHHHHHHHHHHcCCHhHHHHHHHHHHHC----CCCCChH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGID--LHSVPW--QLCKSMIAIYYRNNMLERLIKLFKGLEAF----DRKPPEK  216 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g--~~sv~~--~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~  216 (287)
                      .+|..+-..|...|++++|...|++.....  ......  .+|+.+-..|...|++++|.+.|.+....    +-.+...
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            467788888999999999999999876421  000111  36888999999999999999999987542    2222223


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          217 SIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       217 ~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ..+..+-..|...|++++|...+++...+..
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  120 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  120 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            4567777889999999999999988776654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.53  E-value=0.015  Score=43.45  Aligned_cols=79  Identities=11%  Similarity=-0.016  Sum_probs=54.1

Q ss_pred             hHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHH
Q 047178          127 RVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGL  206 (287)
Q Consensus       127 ~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM  206 (287)
                      .+++.+....+.. ..+...|..|-..|...|+.++|...|++....+-  .....|..+-..|.+.|++++|...|.+.
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP--TYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC--CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4566666665532 23556677777788888888888888887766432  12235677777788888888888888766


Q ss_pred             HH
Q 047178          207 EA  208 (287)
Q Consensus       207 ~~  208 (287)
                      ..
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.51  E-value=0.0013  Score=48.03  Aligned_cols=68  Identities=7%  Similarity=-0.068  Sum_probs=52.5

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCC
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPP  214 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD  214 (287)
                      +...|..+-..|.+.|+.++|.+.|++....+-  .....|..+-.+|.+.|++++|++.|.+....  .|+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~   70 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQP--QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TST   70 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCC
Confidence            345677777888899999999999998876542  23346777888899999999999999988764  454

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=96.50  E-value=0.056  Score=43.10  Aligned_cols=122  Identities=11%  Similarity=0.065  Sum_probs=91.6

Q ss_pred             HccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH-HHHcCCH--h
Q 047178          121 KEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI-YYRNNML--E  197 (287)
Q Consensus       121 k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg-Y~k~G~~--e  197 (287)
                      ..+++++|+..+....+.. ..+..+|..+-..|...|+.++|...|++....+-  .+...|..+-.. |.+.|++  +
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG--ENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHHhcCCcchH
Confidence            4566777777777666542 24567889999999999999999999999876542  223456667777 7799998  9


Q ss_pred             HHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          198 RLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       198 eA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +|...|.+.....  |+....+..+...|...|++++|...+++...+..
T Consensus        99 ~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           99 QTRAMIDKALALD--SNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            9999999988753  55456677888899999999999999987766543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=96.47  E-value=0.055  Score=48.99  Aligned_cols=134  Identities=13%  Similarity=0.010  Sum_probs=98.0

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHC----C-CCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC--CCCCCC--hhhH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSK----G-QGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIGI--DLHSVP--WQLC  183 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~----G-~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~--g~~sv~--~~ty  183 (287)
                      .+-..+...|+++.|++.+....+.    + ..+ ...+|+.|=..|...|+.++|.+.|++....  .....+  ..+|
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            4444567889999998888776542    1 111 2456788888899999999999999987541  110011  1357


Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHHC---CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEAF---DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~~---Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +.|=..|...|++++|++.|.+-...   .-.|+...++..+-..|.+.|+.++|...+++...+..
T Consensus       226 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  292 (378)
T 3q15_A          226 LNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHIT  292 (378)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            88888999999999999999988761   01244346678888899999999999999998777643

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.47  E-value=0.017  Score=56.50  Aligned_cols=96  Identities=9%  Similarity=0.003  Sum_probs=75.1

Q ss_pred             HHHHcCCHHHHHHHHHHhhh---CCCCC-CCh--hhHHHHHHHHHHcCCHhHHHHHHHHHHH-----CC-CCCChHHHHH
Q 047178          153 ALDMDHRAEEAHKFWEKRIG---IDLHS-VPW--QLCKSMIAIYYRNNMLERLIKLFKGLEA-----FD-RKPPEKSIVQ  220 (287)
Q Consensus       153 ~y~K~G~leeA~~lF~eM~~---~g~~s-v~~--~tyNsmIsgY~k~G~~eeA~~Lf~eM~~-----~G-i~PD~~~Ty~  220 (287)
                      .+-..|+.++|+.++++..+   +-+.. -|.  .++|.|-..|...|++++|..++.+..+     .| -.|+...+|+
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            45678999999999988653   11110 011  4799999999999999999999998753     33 4688788899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          221 RVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       221 sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      .|-..|...|++++|+.++++...++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~  425 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLV  425 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999876666543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.44  E-value=0.032  Score=38.92  Aligned_cols=81  Identities=15%  Similarity=0.196  Sum_probs=57.3

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      ...|..+-..|.+.|++++|...|++....+-  .....|..+-..|.+.|++++|...|.+....  .|+....+..+-
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~   84 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP--NNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAKQNLG   84 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCHHHHHHHH
Confidence            34667777788889999999999998876432  22345777888899999999999999988764  354334444444


Q ss_pred             HHHHh
Q 047178          224 DAYEV  228 (287)
Q Consensus       224 ~a~~k  228 (287)
                      ..+..
T Consensus        85 ~~~~~   89 (91)
T 1na3_A           85 NAKQK   89 (91)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            44443

>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=96.43  E-value=0.015  Score=56.01  Aligned_cols=94  Identities=11%  Similarity=0.041  Sum_probs=74.5

Q ss_pred             HcCCHHHHHHHHHHhhh---CCCCCC-Ch--hhHHHHHHHHHHcCCHhHHHHHHHHHHH-----CC-CCCChHHHHHHHH
Q 047178          156 MDHRAEEAHKFWEKRIG---IDLHSV-PW--QLCKSMIAIYYRNNMLERLIKLFKGLEA-----FD-RKPPEKSIVQRVA  223 (287)
Q Consensus       156 K~G~leeA~~lF~eM~~---~g~~sv-~~--~tyNsmIsgY~k~G~~eeA~~Lf~eM~~-----~G-i~PD~~~Ty~sLI  223 (287)
                      ..|+.++|+.++++..+   +-+.+- |.  .++|.|-..|...|++++|..++++..+     .| -.||...+|+.|-
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            35789999999987653   211100 11  4799999999999999999999998753     34 4688888899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHhHHHhhh
Q 047178          224 DAYEVLGLLEEKERVLEKYKDLFTEK  249 (287)
Q Consensus       224 ~a~~k~G~leeA~~ll~~m~~l~~~~  249 (287)
                      ..|...|++++|+.++++...++...
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~  415 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVA  415 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988887654

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=96.41  E-value=0.011  Score=59.43  Aligned_cols=120  Identities=13%  Similarity=-0.017  Sum_probs=95.0

Q ss_pred             HHccchhhHHHHHHHHHH-------CCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH
Q 047178          120 EKEQQWHRVVQVIKWMLS-------KGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR  192 (287)
Q Consensus       120 ~k~~~~~~A~qv~~~M~~-------~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k  192 (287)
                      ...+++++|++.++....       .....+...|..+-..|.+.|+.++|.+.|++..+.+-  .++..|+.+=..|.+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p--~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVG--WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc--chHHHHHHHHHHHHH
Confidence            567888999999988771       11233566788889999999999999999999987542  234568888889999


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      .|++++|.+.|++..+.  .|+....|..+-.+|...|++++ ...+++...
T Consensus       480 ~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~  528 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWS  528 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHH
Confidence            99999999999998875  36545668888889999999988 877776544

>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=96.34  E-value=0.041  Score=51.17  Aligned_cols=120  Identities=11%  Similarity=0.035  Sum_probs=84.0

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHC--------------CCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSK--------------GQG-STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV  178 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~--------------G~~-pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv  178 (287)
                      ..-..+.+.+++++|++.+...++.              ... .+..+|+-+-.+|.+.|+.++|.+.|++..+.+-  .
T Consensus       228 ~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p--~  305 (370)
T 1ihg_A          228 NIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP--S  305 (370)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT--T
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc--h
Confidence            3444567788888888888776641              011 2345778888888999999999999999887542  2


Q ss_pred             ChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHH
Q 047178          179 PWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKER  237 (287)
Q Consensus       179 ~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~  237 (287)
                      ....|..+=.+|.+.|++++|++.|++..+.  .|+....+..+...+...++.+++.+
T Consensus       306 ~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          306 NTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            2346777888899999999999999987764  45544555566666666666655543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=96.29  E-value=0.078  Score=46.71  Aligned_cols=91  Identities=13%  Similarity=-0.018  Sum_probs=57.5

Q ss_pred             HHHHHHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC
Q 047178           79 LVNTLLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH  158 (287)
Q Consensus        79 Li~~l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G  158 (287)
                      +-..+...|+...++ ..+...... ..-....+...-..+.+.|++++|++.+...++.. ..+...|..+-.+|...|
T Consensus        10 ~g~~~~~~g~~~~A~-~~~~~al~~-~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g   86 (281)
T 2c2l_A           10 QGNRLFVGRKYPEAA-ACYGRAITR-NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEME   86 (281)
T ss_dssp             HHHHHHHTTCHHHHH-HHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHH-HHHHHHHHh-CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            444555666655443 223332222 11123444455556778888999988888776532 235567888888888999


Q ss_pred             CHHHHHHHHHHhhh
Q 047178          159 RAEEAHKFWEKRIG  172 (287)
Q Consensus       159 ~leeA~~lF~eM~~  172 (287)
                      +.++|...|.+...
T Consensus        87 ~~~~A~~~~~~al~  100 (281)
T 2c2l_A           87 SYDEAIANLQRAYS  100 (281)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999998888764

>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=96.28  E-value=0.062  Score=45.12  Aligned_cols=102  Identities=11%  Similarity=-0.008  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCC-----Ch-----hhHHHHHHHHHHcCCHhHHHHHHHHHHHC-----CC
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSV-----PW-----QLCKSMIAIYYRNNMLERLIKLFKGLEAF-----DR  211 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv-----~~-----~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~-----Gi  211 (287)
                      +..+=+.+.+.|++++|...|++-.+-+-..+     ..     ..|+-+=.+|.+.|++++|+..|+.-.+.     -+
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            33444557788888888888888765321100     11     26888888999999999999999988763     23


Q ss_pred             CCChHHHH----HHHHHHHHhcCCHHHHHHHHHHHhHHHhh
Q 047178          212 KPPEKSIV----QRVADAYEVLGLLEEKERVLEKYKDLFTE  248 (287)
Q Consensus       212 ~PD~~~Ty----~sLI~a~~k~G~leeA~~ll~~m~~l~~~  248 (287)
                      .||..-.|    .-.-.++..+|++++|..-+++...+--+
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~  134 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE  134 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            78876666    67777899999999999999988777544

>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=96.15  E-value=0.038  Score=51.42  Aligned_cols=99  Identities=13%  Similarity=0.077  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhC--------------CCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCC
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGI--------------DLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDR  211 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~--------------g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi  211 (287)
                      .|..+=..|.+.|+.++|.+.|++....              ...+.....|+.+-.+|.+.|++++|++.|.+..+.  
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--  302 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--  302 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--
Confidence            4677778899999999999999987651              011111246888889999999999999999998874  


Q ss_pred             CCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          212 KPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       212 ~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .|+....|..+-.+|...|++++|...+++...+.
T Consensus       303 ~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~  337 (370)
T 1ihg_A          303 DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  337 (370)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            46655678888889999999999999998766553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.05  E-value=0.058  Score=40.07  Aligned_cols=83  Identities=10%  Similarity=0.037  Sum_probs=63.1

Q ss_pred             HHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          161 EEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       161 eeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      ++|.+.|++....+-  .+...|..+-..|.+.|++++|+..|++.....  |+....|..+-..|...|+.++|...++
T Consensus         2 ~~a~~~~~~al~~~p--~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~   77 (115)
T 2kat_A            2 QAITERLEAMLAQGT--DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD--PTYSVAWKWLGKTLQGQGDRAGARQAWE   77 (115)
T ss_dssp             CCHHHHHHHHHTTTC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            356777887766542  233567788888999999999999999887653  5545667888888999999999999988


Q ss_pred             HHhHHHh
Q 047178          241 KYKDLFT  247 (287)
Q Consensus       241 ~m~~l~~  247 (287)
                      +...+..
T Consensus        78 ~al~~~~   84 (115)
T 2kat_A           78 SGLAAAQ   84 (115)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhcc
Confidence            7766654

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=96.02  E-value=0.032  Score=43.19  Aligned_cols=99  Identities=13%  Similarity=0.162  Sum_probs=76.3

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC--CCCC---hHHHH
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFD--RKPP---EKSIV  219 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G--i~PD---~~~Ty  219 (287)
                      .++.-|=+.|.+.|++++|.+.|++..+.+  +.....|+-+=.+|.+.|++++|++.|....+..  ..++   ...+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~--p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD--PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            345566678889999999999999988754  2234578889999999999999999999876532  1122   11357


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          220 QRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       220 ~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..+-.+|...|++++|.+.+++...+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            77888999999999999999876543

>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=96.02  E-value=0.033  Score=53.50  Aligned_cols=89  Identities=15%  Similarity=0.034  Sum_probs=74.5

Q ss_pred             HHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCH
Q 047178          153 ALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       153 ~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~l  232 (287)
                      .|.+.|+.++|.+.|++..+.+-  .....|+.+-.+|.+.|++++|++.|++..+.  .|+....|..+-.+|...|++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p--~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNP--SNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCC--ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            45678999999999999877542  23457888999999999999999999998876  466567788888999999999


Q ss_pred             HHHHHHHHHHhHH
Q 047178          233 EEKERVLEKYKDL  245 (287)
Q Consensus       233 eeA~~ll~~m~~l  245 (287)
                      ++|.+.+++...+
T Consensus        91 ~eA~~~~~~al~~  103 (477)
T 1wao_1           91 RAALRDYETVVKV  103 (477)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999876554

>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=95.91  E-value=0.081  Score=50.61  Aligned_cols=97  Identities=11%  Similarity=0.027  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHC---CCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhh-----CCCCCC
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSK---GQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIG-----IDLHSV  178 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~---G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~-----~g~~sv  178 (287)
                      .+...+..+.+.|++++|+++++..++.   -++|+    ..+++.|...|...|++++|+.++++...     -|-.-+
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            4445677788899999999999888753   23443    35789999999999999999999998753     121111


Q ss_pred             C-hhhHHHHHHHHHHcCCHhHHHHHHHHHH
Q 047178          179 P-WQLCKSMIAIYYRNNMLERLIKLFKGLE  207 (287)
Q Consensus       179 ~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~  207 (287)
                      . -.+|+.|=..|...|++++|..+|.+-.
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            1 1479999999999999999999998764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=95.68  E-value=0.089  Score=41.53  Aligned_cols=98  Identities=15%  Similarity=0.008  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhC--------CC--------CCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGI--------DL--------HSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~--------g~--------~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      +..+=+.|.+.|++++|...|.+....        +.        .+.....|..+-.+|.+.|++++|+..|...... 
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~-   92 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR-   92 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc-
Confidence            334445678899999999999987653        00        0111246888899999999999999999998875 


Q ss_pred             CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          211 RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       211 i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                       .|+....|..+-.+|...|++++|...+++...+.
T Consensus        93 -~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           93 -EETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             -STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             -CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence             46656778888899999999999999998766553

>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=95.67  E-value=0.084  Score=50.20  Aligned_cols=97  Identities=8%  Similarity=-0.017  Sum_probs=78.6

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC--------------hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP--------------WQLCKSMIAIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~--------------~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      ..|..+=..|.+.|++++|...|++.....-. .+              ...|+.+-.+|.+.|++++|+..|.+..+. 
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~-~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  346 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEM-EYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL-  346 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTT-CCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcc-cccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            46777888899999999999999998763211 11              246888889999999999999999998875 


Q ss_pred             CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          211 RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       211 i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                       .|+....|..+-.+|...|++++|...|++...
T Consensus       347 -~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~  379 (457)
T 1kt0_A          347 -DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  379 (457)
T ss_dssp             -STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             -CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence             455556788888899999999999999886544

>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=95.59  E-value=0.41  Score=39.95  Aligned_cols=83  Identities=13%  Similarity=0.055  Sum_probs=34.2

Q ss_pred             chhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH----cCC
Q 047178          124 QWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM----DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR----NNM  195 (287)
Q Consensus       124 ~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K----~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k----~G~  195 (287)
                      +.++|++.|..-.+.|   +...+..|=..|..    .++.++|.+.|++-.+.+........++.|=..|..    .++
T Consensus        68 ~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d  144 (212)
T 3rjv_A           68 DYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPED  144 (212)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCC
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCC
Confidence            3444444444444432   22333333333333    445555555555544433100001233334444444    444


Q ss_pred             HhHHHHHHHHHHHC
Q 047178          196 LERLIKLFKGLEAF  209 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~  209 (287)
                      +++|+.+|..-.+.
T Consensus       145 ~~~A~~~~~~A~~~  158 (212)
T 3rjv_A          145 DVKASEYFKGSSSL  158 (212)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHc
Confidence            55555555554444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.58  E-value=0.24  Score=44.79  Aligned_cols=136  Identities=12%  Similarity=0.032  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC-CCCCChh----HHHHHHHHHHHcCCHHHHHHHHHHhhh----CCCCCCChhh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK-GQGSTMG----TCGQLIRALDMDHRAEEAHKFWEKRIG----IDLHSVPWQL  182 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~-G~~pd~~----TYnaLI~~y~K~G~leeA~~lF~eM~~----~g~~sv~~~t  182 (287)
                      +..+...+.+.|++++|.+++....+. +..++..    +.+.+=..+...|..++|..++.+...    .+....-..+
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            445666677888888888887766542 1112211    122222223346788888888877643    1111111235


Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHHC----CCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          183 CKSMIAIYYRNNMLERLIKLFKGLEAF----DRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       183 yNsmIsgY~k~G~~eeA~~Lf~eM~~~----Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      +..|...|...|++++|..++.+....    +-.|..+.+|..++..|...|++++|..++.+...+..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~  206 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAAN  206 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhh
Confidence            777888888899999998888876532    22344445677788888888999998888876655543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=95.57  E-value=0.28  Score=49.87  Aligned_cols=124  Identities=10%  Similarity=0.027  Sum_probs=71.7

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCC---------CCCC------------hhHHHHHHHHHHHcCCHHHHHHHHHHhhh
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKG---------QGST------------MGTCGQLIRALDMDHRAEEAHKFWEKRIG  172 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G---------~~pd------------~~TYnaLI~~y~K~G~leeA~~lF~eM~~  172 (287)
                      ..+....+.+.+++|.++++.+++..         ..|+            ..+|-..++..-+.|.++.|..+|.+...
T Consensus       383 ~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~  462 (679)
T 4e6h_A          383 SLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRR  462 (679)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34445566777888888887776531         0131            23567777777777888888888887765


Q ss_pred             C-CCCCCChhhHHHHHHHHHHc-CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047178          173 I-DLHSVPWQLCKSMIAIYYRN-NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       173 ~-g~~sv~~~tyNsmIsgY~k~-G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~  241 (287)
                      . +.  .++..|-..+..-.+. +.++.|..+|+...+.  .|+....+...++-....|+.+.|+.+|+.
T Consensus       463 ~~~~--~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lfer  529 (679)
T 4e6h_A          463 LKKL--VTPDIYLENAYIEYHISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFES  529 (679)
T ss_dssp             TGGG--SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hcCC--CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            4 21  1122222111112233 3367777777766654  343334455666666666777777777764

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.34  E-value=0.095  Score=38.57  Aligned_cols=64  Identities=14%  Similarity=-0.016  Sum_probs=46.3

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHH
Q 047178          143 TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEA  208 (287)
Q Consensus       143 d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~  208 (287)
                      +..++..|-..|.+.|+.++|...|++..+.+-  .....|..+=.+|.+.|++++|.+.|++-.+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDP--DYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST--TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            455677777778888888888888888776542  1223577777888888888888888876553

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.32  E-value=0.3  Score=44.12  Aligned_cols=129  Identities=12%  Similarity=0.005  Sum_probs=91.0

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCC-Ch---------------hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGS-TM---------------GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP  179 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~p-d~---------------~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~  179 (287)
                      ...+.+.|++.+|++.+....+..-.. +.               ..+..|...|.+.|+.++|.+++.+.....-....
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            345678899999999999988753221 11               13678899999999999999999987542100011


Q ss_pred             h----hhHHHHHHHHHHcCCHhHHHHHHHHHH----HCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          180 W----QLCKSMIAIYYRNNMLERLIKLFKGLE----AFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       180 ~----~tyNsmIsgY~k~G~~eeA~~Lf~eM~----~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      .    ...+.+=..+...|.+++|.+++.+..    ..+..+....++..+...|...|++++|..++.+...
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~  163 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLR  163 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHH
Confidence            1    123333333445689999999998875    3455565556778889999999999999999876543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.21  E-value=0.11  Score=38.24  Aligned_cols=64  Identities=14%  Similarity=0.137  Sum_probs=54.2

Q ss_pred             hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          181 QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       181 ~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ..|..+=..|.+.|++++|++.|++..+..  |+....|..+-.+|...|++++|...+++...+.
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~   71 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVA   71 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            457778889999999999999999988754  5444668888899999999999999998877664

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=95.21  E-value=0.055  Score=49.28  Aligned_cols=87  Identities=10%  Similarity=-0.083  Sum_probs=56.0

Q ss_pred             HHHHccchhhHHHHHHHHHHCCCCCChh------------------HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQGSTMG------------------TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP  179 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~~pd~~------------------TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~  179 (287)
                      .+.+.+++++|+..|...++.  .|+..                  .|+-|-.+|.+.|++++|...|++....+-  ..
T Consensus       188 ~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p--~~  263 (338)
T 2if4_A          188 SLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEEE--KN  263 (338)
T ss_dssp             HTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHCT--TC
T ss_pred             HHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC--CC
Confidence            344566777777777665542  23322                  566667777777888888887777765431  12


Q ss_pred             hhhHHHHHHHHHHcCCHhHHHHHHHHHHH
Q 047178          180 WQLCKSMIAIYYRNNMLERLIKLFKGLEA  208 (287)
Q Consensus       180 ~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~  208 (287)
                      ...|..+-.+|...|++++|...|.+..+
T Consensus       264 ~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          264 PKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            23566677777778888888887776543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=95.21  E-value=0.16  Score=51.72  Aligned_cols=132  Identities=11%  Similarity=-0.006  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC-C-CCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK-G-QGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~-G-~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      +...+....+.+..+.|..+|...++. + ..+.+....+.|.-.+ .++.+.|..+|+...+.--  -+...|...+.-
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-SKDTKTACKVLELGLKYFA--TDGEYINKYLDF  513 (679)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHHHT--TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHCC--CchHHHHHHHHH
Confidence            445555566778889999999998775 2 3344555555555332 3459999999999877521  223457888888


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKP-PEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~P-D~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ....|..+.|..+|+.-....-.| +....|...++--.+.|.++.+..|.+++...+
T Consensus       514 e~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          514 LIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             HHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             HHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            888999999999999887664322 234568888888888999999999988766554

>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=95.19  E-value=0.18  Score=48.50  Aligned_cols=86  Identities=12%  Similarity=-0.040  Sum_probs=66.1

Q ss_pred             ccchhhHHHHHHHHHH---CCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhhh-----CCCCCCCh-hhHHHHHH
Q 047178          122 EQQWHRVVQVIKWMLS---KGQGST----MGTCGQLIRALDMDHRAEEAHKFWEKRIG-----IDLHSVPW-QLCKSMIA  188 (287)
Q Consensus       122 ~~~~~~A~qv~~~M~~---~G~~pd----~~TYnaLI~~y~K~G~leeA~~lF~eM~~-----~g~~sv~~-~tyNsmIs  188 (287)
                      .|++++|+.+++..++   +-++|+    ..+||.|-..|...|++++|+.++++...     -|-..++. .+||.|=.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            4578899888887654   334443    35799999999999999999999998753     22211222 47999999


Q ss_pred             HHHHcCCHhHHHHHHHHHH
Q 047178          189 IYYRNNMLERLIKLFKGLE  207 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~  207 (287)
                      .|...|++++|..+|.+-.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            9999999999999998754

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=95.17  E-value=0.047  Score=49.76  Aligned_cols=96  Identities=14%  Similarity=0.010  Sum_probs=76.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCCh------------------hhHHHHHHHHHHcCCHhHHHHHHHHHH
Q 047178          146 TCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPW------------------QLCKSMIAIYYRNNMLERLIKLFKGLE  207 (287)
Q Consensus       146 TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~------------------~tyNsmIsgY~k~G~~eeA~~Lf~eM~  207 (287)
                      .|..+=+.|.+.|++++|...|.+.....   +..                  ..|+.+-.+|.+.|++++|+..|....
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~---p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAYM---GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHHS---CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHh---ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666677888999999999999876532   111                  157788889999999999999999987


Q ss_pred             HCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          208 AFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       208 ~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      +.  .|+....|..+-.+|...|++++|...|++...+.
T Consensus       258 ~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~  294 (338)
T 2if4_A          258 TE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA  294 (338)
T ss_dssp             HH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--
T ss_pred             Hh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            64  46545678888889999999999999998765543

>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=94.89  E-value=0.25  Score=54.68  Aligned_cols=111  Identities=13%  Similarity=0.018  Sum_probs=68.9

Q ss_pred             CHHHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          108 PVGSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       108 ~~~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      ....+..+=..+...|++++|..+|...         ..|..|...|++.|++++|.+.+.+-..       ..+|.-+-
T Consensus      1194 n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n-------~~aWkev~ 1257 (1630)
T 1xi4_A         1194 NNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANS-------TRTWKEVC 1257 (1630)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCC-------HHHHHHHH
Confidence            3455666666677788888888887663         3788888888888888888888876421       12355555


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      .++...|.++.|....-.+.   +.||.   +..++.-|.+.|.+++|..+++
T Consensus      1258 ~acve~~Ef~LA~~cgl~Ii---v~~de---Leeli~yYe~~G~feEAI~LlE 1304 (1630)
T 1xi4_A         1258 FACVDGKEFRLAQMCGLHIV---VHADE---LEELINYYQDRGYFEELITMLE 1304 (1630)
T ss_pred             HHHhhhhHHHHHHHHHHhhh---cCHHH---HHHHHHHHHHcCCHHHHHHHHH
Confidence            55555555555554433211   23432   4566666666666666666554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=94.65  E-value=0.22  Score=34.44  Aligned_cols=63  Identities=17%  Similarity=0.271  Sum_probs=52.3

Q ss_pred             hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          181 QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       181 ~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..|..+-..|.+.|++++|+..|.+.....  |+....+..+-..|...|++++|...+++...+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            357777788999999999999999987653  544566788888999999999999999887665

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=94.49  E-value=1.1  Score=40.75  Aligned_cols=84  Identities=10%  Similarity=0.030  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChH-HHHHHHHH-HHHhcCCHHHHHH
Q 047178          160 AEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEK-SIVQRVAD-AYEVLGLLEEKER  237 (287)
Q Consensus       160 leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~-~Ty~sLI~-a~~k~G~leeA~~  237 (287)
                      .++|...|++..+.+.  ....+|..+-..|.+.|++++|.+.|++.......|+.. ..+..+.. .+...|+.++|..
T Consensus       316 ~~~A~~~~~~a~~~~~--~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~  393 (472)
T 4g1t_A          316 IGHAVAHLKKADEAND--NLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIH  393 (472)
T ss_dssp             HHHHHHHHHHHHHHCT--TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHH
T ss_pred             HHHHHHHHHHHhhcCC--chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            4455555555443321  112346667778888888888888888877765444321 11122111 2346788888887


Q ss_pred             HHHHHhHH
Q 047178          238 VLEKYKDL  245 (287)
Q Consensus       238 ll~~m~~l  245 (287)
                      .+.+...+
T Consensus       394 ~y~kal~i  401 (472)
T 4g1t_A          394 HFIEGVKI  401 (472)
T ss_dssp             HHHHHHHS
T ss_pred             HHHHHHhc
Confidence            77665443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=94.46  E-value=2.7  Score=39.20  Aligned_cols=113  Identities=4%  Similarity=-0.101  Sum_probs=76.9

Q ss_pred             cchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC---CHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH----cCC
Q 047178          123 QQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH---RAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR----NNM  195 (287)
Q Consensus       123 ~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G---~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k----~G~  195 (287)
                      ++.++|++.+....+.|   +...+..|=..|.+.|   +.++|.+.|++..+.+.    ...+..|=..|..    .++
T Consensus       310 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~----~~a~~~Lg~~y~~g~g~~~~  382 (490)
T 2xm6_A          310 KNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGE----KAAQFNLGNALLQGKGVKKD  382 (490)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHTSSSCCC
T ss_pred             CCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCC----HHHHHHHHHHHHcCCCCCCC
Confidence            56777777777766654   3345566666666655   67788888887776542    1345666667777    788


Q ss_pred             HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh----cCCHHHHHHHHHHHhHHH
Q 047178          196 LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV----LGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k----~G~leeA~~ll~~m~~l~  246 (287)
                      +++|+++|+.-.+.|. |   ..+..|-..|..    .++.++|...+++....-
T Consensus       383 ~~~A~~~~~~A~~~~~-~---~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          383 EQQAAIWMRKAAEQGL-S---AAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHHHHHTTC-H---HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-H---HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            8888888888877762 2   335566666776    788888888887766554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=94.46  E-value=2.9  Score=39.00  Aligned_cols=112  Identities=10%  Similarity=0.028  Sum_probs=71.0

Q ss_pred             ccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH----c
Q 047178          122 EQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDM----DHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR----N  193 (287)
Q Consensus       122 ~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K----~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k----~  193 (287)
                      .+++++|++.|+...+.|   +...+..|=..|..    .++.++|.+.|++..+.+.    ...+..|-..|.+    .
T Consensus       128 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~----~~a~~~Lg~~y~~g~g~~  200 (490)
T 2xm6_A          128 KVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGN----VWSCNQLGYMYSRGLGVE  200 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHTSSSC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC----HHHHHHHHHHHhcCCCCC
Confidence            456677777777666654   34455556566665    6677777777777766542    2345556666666    6


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh----cCCHHHHHHHHHHHhH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV----LGLLEEKERVLEKYKD  244 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k----~G~leeA~~ll~~m~~  244 (287)
                      +++++|+++|..-.+.|   + ...+..+-..|..    .++.++|...+++...
T Consensus       201 ~~~~~A~~~~~~a~~~~---~-~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~  251 (490)
T 2xm6_A          201 RNDAISAQWYRKSATSG---D-ELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAE  251 (490)
T ss_dssp             CCHHHHHHHHHHHHHTT---C-HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHHCC---C-HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            77777777777777665   2 2335555555655    6777777777776543

>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=94.05  E-value=0.43  Score=52.81  Aligned_cols=114  Identities=11%  Similarity=0.063  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      ..+..+-..+.+.|++++|++.+..      .-|...|.-++.+|.+.|++++|.+.+..-....-   +....+-+.-+
T Consensus      1106 ~vWsqLAKAql~~G~~kEAIdsYiK------AdD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~---e~~Idt~Lafa 1176 (1630)
T 1xi4_A         1106 AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR---ESYVETELIFA 1176 (1630)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHh------cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcc---cccccHHHHHH
Confidence            3444556667777888888777744      14566677788888888888888887765443221   11123346666


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      |++.+++++.....     .  .|+. ..|..+-+.|...|++++|..++.
T Consensus      1177 YAKl~rleele~fI-----~--~~n~-ad~~~iGd~le~eg~YeeA~~~Y~ 1219 (1630)
T 1xi4_A         1177 LAKTNRLAELEEFI-----N--GPNN-AHIQQVGDRCYDEKMYDAAKLLYN 1219 (1630)
T ss_pred             HHhhcCHHHHHHHH-----h--CCCH-HHHHHHHHHHHhcCCHHHHHHHHH
Confidence            77766666432221     1  1221 223445555666666666665555

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=93.94  E-value=0.23  Score=35.68  Aligned_cols=63  Identities=11%  Similarity=0.057  Sum_probs=52.6

Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .|..+-..|.+.|++++|++.|.+....  .|+....+..+-.+|...|++++|...+++...+.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            4677788899999999999999998775  45545778888889999999999999998766553

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=93.94  E-value=1.1  Score=40.76  Aligned_cols=135  Identities=12%  Similarity=-0.032  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHC-----C---CCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhC-----CCC
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSK-----G---QGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGI-----DLH  176 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~-----G---~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~-----g~~  176 (287)
                      ..++.+=..+...|+.++|++.|+.-++.     +   .....++|+-|=..|...|+.++|...|++...-     +..
T Consensus        52 ~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~  131 (472)
T 4g1t_A           52 TMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPY  131 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSS
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccccc
Confidence            33444445567889999999999875431     1   2234578999999999999999999999986531     100


Q ss_pred             CC-ChhhHHHHHHHHHHc--CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHH---HHhcCCHHHHHHHHHHHhHHH
Q 047178          177 SV-PWQLCKSMIAIYYRN--NMLERLIKLFKGLEAFDRKPPEKSIVQRVADA---YEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       177 sv-~~~tyNsmIsgY~k~--G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a---~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .+ ...+|+.+=.++.+.  +++++|++.|++-.+.  .|+....+..+..+   +...|..++|.+.+.+...+-
T Consensus       132 ~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~  205 (472)
T 4g1t_A          132 RIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN  205 (472)
T ss_dssp             CCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC
T ss_pred             chhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC
Confidence            01 113455554555554  4689999999987764  57654445544444   344567777888777766553

>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=93.92  E-value=0.81  Score=38.22  Aligned_cols=94  Identities=13%  Similarity=-0.036  Sum_probs=72.3

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCCCCCC--------h-----hHHHHHHHHHHHcCCHHHHHHHHHHhhhC-------CC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKGQGST--------M-----GTCGQLIRALDMDHRAEEAHKFWEKRIGI-------DL  175 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G~~pd--------~-----~TYnaLI~~y~K~G~leeA~~lF~eM~~~-------g~  175 (287)
                      =..+.+.|++++|+..++.-++.  .|+        .     ..|+-+=.+|.+.|+.++|...|++-.+.       + 
T Consensus        18 G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~-   94 (159)
T 2hr2_A           18 AQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN-   94 (159)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT-
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC-
Confidence            34467788999999988877653  233        2     28888889999999999999999988764       3 


Q ss_pred             CCCCh-hhH----HHHHHHHHHcCCHhHHHHHHHHHHH-----CCCCCC
Q 047178          176 HSVPW-QLC----KSMIAIYYRNNMLERLIKLFKGLEA-----FDRKPP  214 (287)
Q Consensus       176 ~sv~~-~ty----NsmIsgY~k~G~~eeA~~Lf~eM~~-----~Gi~PD  214 (287)
                        +++ ..|    ...=.+|...|++++|+.-|++-.+     .|+.+.
T Consensus        95 --pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~  141 (159)
T 2hr2_A           95 --QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPG  141 (159)
T ss_dssp             --STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTT
T ss_pred             --CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHH
Confidence              233 357    7788899999999999999998753     456554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=93.68  E-value=0.25  Score=35.27  Aligned_cols=56  Identities=13%  Similarity=0.057  Sum_probs=36.8

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChh-hHHHHHHHHHHcCCHhHHHHHHHHHHHC
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQ-LCKSMIAIYYRNNMLERLIKLFKGLEAF  209 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~-tyNsmIsgY~k~G~~eeA~~Lf~eM~~~  209 (287)
                      ..|.+.|++++|...|++....+-  .... .|..+=..|.+.|++++|.+.|.+....
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEP--VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCS--STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC--CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            445667777777777777765431  1223 5666666777777777777777776654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.57  E-value=0.78  Score=45.14  Aligned_cols=59  Identities=19%  Similarity=0.011  Sum_probs=41.3

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC
Q 047178          142 STMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G  210 (287)
                      .+...|..|=..+.+.|+++.|++.|.++..          |..+...|...|..++..++-+..+..|
T Consensus       679 ~~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~~~  737 (814)
T 3mkq_A          679 SAEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAETTG  737 (814)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            4566788888888889999999998887732          5556666666666666655555545444

>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=93.32  E-value=1.2  Score=37.01  Aligned_cols=126  Identities=7%  Similarity=-0.055  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC----CHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH----RAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G----~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      ...+=..+...+++++|++.|+.-.+.|   +...+..|=..|.. |    +.++|.+.|++-.+.+.   + ..+..|=
T Consensus        21 ~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g~---~-~a~~~Lg   92 (212)
T 3rjv_A           21 QYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAGS---K-SGEIVLA   92 (212)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTTC---H-HHHHHHH
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCCC---H-HHHHHHH
Confidence            3334445566789999999999988876   45566666666666 6    89999999999887763   2 2455566


Q ss_pred             HHHHH----cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh----cCCHHHHHHHHHHHhHH
Q 047178          188 AIYYR----NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV----LGLLEEKERVLEKYKDL  245 (287)
Q Consensus       188 sgY~k----~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k----~G~leeA~~ll~~m~~l  245 (287)
                      ..|..    .+++++|+++|.+-.+.|...+....+..|-..|..    .++.++|...+++...+
T Consensus        93 ~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  158 (212)
T 3rjv_A           93 RVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL  158 (212)
T ss_dssp             HHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc
Confidence            66666    789999999999988876433347778888888888    88999999999998665

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=93.14  E-value=0.62  Score=42.53  Aligned_cols=124  Identities=9%  Similarity=0.044  Sum_probs=89.4

Q ss_pred             HHHccchh--hHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCC------HHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          119 LEKEQQWH--RVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHR------AEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       119 L~k~~~~~--~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~------leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      +.+.+.++  +++++++.|++... .|-..|+---..+.+.|+      ++++.+.++++...+.  -+...|+-+-..+
T Consensus       154 l~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p--~n~SaW~y~~~ll  230 (306)
T 3dra_A          154 VDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCP--QNPSTWNYLLGIH  230 (306)
T ss_dssp             HHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCS--SCHHHHHHHHHHH
T ss_pred             HHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCC--CCccHHHHHHHHH
Confidence            45566777  88999999987543 355566554444555565      8999999999987653  3445788888888


Q ss_pred             HHcCCHhH-HHHHHHHHHHCC-CCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          191 YRNNMLER-LIKLFKGLEAFD-RKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       191 ~k~G~~ee-A~~Lf~eM~~~G-i~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+.|+..+ +.+++.+....+ ..|.....+..+.+.|++.|+.++|.++++.....
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~  287 (306)
T 3dra_A          231 ERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSK  287 (306)
T ss_dssp             HHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhc
Confidence            89998555 555766665543 22333466788899999999999999999987653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=93.05  E-value=0.38  Score=43.86  Aligned_cols=90  Identities=14%  Similarity=0.023  Sum_probs=66.6

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCCh---HHHHHHHHH
Q 047178          148 GQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPE---KSIVQRVAD  224 (287)
Q Consensus       148 naLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~---~~Ty~sLI~  224 (287)
                      -.+...|...|++++|.++|+.+...+   +.+...-.+-..|.+.|++++|+..|.....   .||.   ...+..+-.
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~~---p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~---~~d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVAG---SEHLVAWMKAVVYGAAERWTDVIDQVKSAGK---WPDKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCTT---CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG---CSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcC---CchHHHHHHHHHHHHcCCHHHHHHHHHHhhc---cCCcccHHHHHHHHHH
Confidence            345677889999999999999987644   2222344455688999999999999984433   2332   124566777


Q ss_pred             HHHhcCCHHHHHHHHHHHh
Q 047178          225 AYEVLGLLEEKERVLEKYK  243 (287)
Q Consensus       225 a~~k~G~leeA~~ll~~m~  243 (287)
                      ++..+|++++|+..+++..
T Consensus       180 al~~LG~~~eAl~~l~~a~  198 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEAN  198 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHh
Confidence            8999999999999998763

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=92.66  E-value=0.45  Score=33.83  Aligned_cols=59  Identities=15%  Similarity=0.160  Sum_probs=48.4

Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHHCCCCCChHH-HHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          186 MIAIYYRNNMLERLIKLFKGLEAFDRKPPEKS-IVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       186 mIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~-Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .-..|.+.|++++|++.|++..+.  .|+... .+..+-.+|...|++++|...+++...+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            345678999999999999998875  465556 77888889999999999999998776554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=92.08  E-value=2.3  Score=40.96  Aligned_cols=124  Identities=14%  Similarity=0.101  Sum_probs=80.4

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..+..+.+.+..+.|..+|+.....+..+++....+.+...+ .+..+.|..+|+........ .+ ..|...|.-..+.
T Consensus       291 ~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~~~-~~-~~~~~yid~e~~~  367 (493)
T 2uy1_A          291 NHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKHPD-ST-LLKEEFFLFLLRI  367 (493)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHCTT-CH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHCCC-CH-HHHHHHHHHHHHc
Confidence            344445556778888888887721111112222234444433 23689999999988764321 12 2466677877888


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      |..+.|..+|+...    + . ...+...++-=...|+.+.+..++++..+-+
T Consensus       368 ~~~~~aR~l~er~~----k-~-~~lw~~~~~fE~~~G~~~~~r~v~~~~~~~~  414 (493)
T 2uy1_A          368 GDEENARALFKRLE----K-T-SRMWDSMIEYEFMVGSMELFRELVDQKMDAI  414 (493)
T ss_dssp             TCHHHHHHHHHHSC----C-B-HHHHHHHHHHHHHHSCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH----H-H-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            99999999999862    1 2 4667888876677799999999888776633

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=92.08  E-value=3.4  Score=32.09  Aligned_cols=110  Identities=9%  Similarity=0.092  Sum_probs=76.6

Q ss_pred             cchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH----cCCHhH
Q 047178          123 QQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR----NNMLER  198 (287)
Q Consensus       123 ~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k----~G~~ee  198 (287)
                      ++.++|++.|..-.+.|. ++  .+  |=..|...+.+++|.+.|++-.+.|.   + ..++.|=..|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~--a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~---~-~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MF--GC--LSLVSNSQINKQKLFQYLSKACELNS---G-NGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TT--HH--HHHHTCTTSCHHHHHHHHHHHHHTTC---H-HHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hh--hh--HHHHHHcCCCHHHHHHHHHHHHcCCC---H-HHHHHHHHHHHcCCCCCccHHH
Confidence            456677777777777773 33  23  44555566778889999998877653   1 245556666766    788999


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHHh----cCCHHHHHHHHHHHhHH
Q 047178          199 LIKLFKGLEAFDRKPPEKSIVQRVADAYEV----LGLLEEKERVLEKYKDL  245 (287)
Q Consensus       199 A~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k----~G~leeA~~ll~~m~~l  245 (287)
                      |+++|..-.+.|. |   ..+..|-..|..    .+++++|...+++--.+
T Consensus        80 A~~~~~~Aa~~g~-~---~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           80 AAQYYSKACGLND-Q---DGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHHTTC-H---HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCC-H---HHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            9999999888875 2   335556667777    78899999888765443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=89.52  E-value=6.1  Score=36.96  Aligned_cols=18  Identities=22%  Similarity=0.252  Sum_probs=9.5

Q ss_pred             cCCHhHHHHHHHHHHHCC
Q 047178          193 NNMLERLIKLFKGLEAFD  210 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~G  210 (287)
                      .|++++|+++|.+-.+.|
T Consensus       264 ~~d~~~A~~~~~~Aa~~g  281 (452)
T 3e4b_A          264 LGDVEQMMKYLDNGRAAD  281 (452)
T ss_dssp             GCCHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHCC
Confidence            455555555555555444

>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=88.91  E-value=1.6  Score=36.38  Aligned_cols=114  Identities=12%  Similarity=0.037  Sum_probs=76.3

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCC----------HHHHHHHHHHhhhCCCCCCChhhHHHHHH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHR----------AEEAHKFWEKRIGIDLHSVPWQLCKSMIA  188 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~----------leeA~~lF~eM~~~g~~sv~~~tyNsmIs  188 (287)
                      +.+.+++++|++.++.-.+.. ..+...|+-+=.+|...|+          +++|...|++-.+.+-  .....|+.+=+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP--~~~~A~~~LG~   88 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP--KKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCc--CcHHHHHHHHH
Confidence            456777888888887776642 2355666666666666655          5699999999887542  22346777888


Q ss_pred             HHHHcC-----------CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhhc
Q 047178          189 IYYRNN-----------MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKEK  251 (287)
Q Consensus       189 gY~k~G-----------~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~~  251 (287)
                      +|...|           ++++|++.|++-.+  +.|+. ..|             ..+.++..+-++++.+.-+
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~-~~y-------------~~al~~~~ka~el~~~~~~  146 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDN-THY-------------LKSLEMTAKAPQLHAEAYK  146 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTC-HHH-------------HHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCC-HHH-------------HHHHHHHHhCHhccCcccc
Confidence            898774           89999999998876  46774 444             3444445555555554443

>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=88.29  E-value=0.91  Score=37.90  Aligned_cols=88  Identities=11%  Similarity=0.073  Sum_probs=65.3

Q ss_pred             HHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH----------hHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          154 LDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML----------ERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       154 y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~----------eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      ..+.+++++|.+.|++-.+.+-  .+...|+.+=.++...|++          ++|+..|++-.+.  .|+....|..+-
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~P--~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG   87 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSNP--LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIG   87 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHH
Confidence            4577889999999999887542  2334566565677776654          5999999988764  566556788888


Q ss_pred             HHHHhcC-----------CHHHHHHHHHHHhHH
Q 047178          224 DAYEVLG-----------LLEEKERVLEKYKDL  245 (287)
Q Consensus       224 ~a~~k~G-----------~leeA~~ll~~m~~l  245 (287)
                      .+|...|           ++++|.+.|++..++
T Consensus        88 ~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           88 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            8998875           899999998876655

>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=88.06  E-value=21  Score=34.92  Aligned_cols=114  Identities=8%  Similarity=-0.053  Sum_probs=84.2

Q ss_pred             hhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcC--CHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC-CHhHHHH
Q 047178          125 WHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDH--RAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN-MLERLIK  201 (287)
Q Consensus       125 ~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G--~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G-~~eeA~~  201 (287)
                      +++++++++.+.+.. ..+..+|+----.+.+.|  ++++|.+++++|.+.+.  -....|+---..+.+.| ..+++++
T Consensus        89 ~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~--~N~~aW~~R~~~l~~l~~~~~~el~  165 (567)
T 1dce_A           89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE--RNFHCWDYRRFVAAQAAVAPAEELA  165 (567)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhcc--ccccHHHHHHHHHHHcCCChHHHHH
Confidence            788999999988743 245566766666677888  77999999999998763  34456887777788889 8999999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHh
Q 047178          202 LFKGLEAFDRKPPEKSIVQRVADAYEVL--------------GLLEEKERVLEKYK  243 (287)
Q Consensus       202 Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~--------------G~leeA~~ll~~m~  243 (287)
                      .+.++.+..  |+....|+-.-..+.+.              +.++++.+.+++..
T Consensus       166 ~~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai  219 (567)
T 1dce_A          166 FTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAF  219 (567)
T ss_dssp             HHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHC--CCCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHH
Confidence            999998765  43346666665566553              55677777776544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=87.07  E-value=5.2  Score=29.52  Aligned_cols=80  Identities=9%  Similarity=-0.005  Sum_probs=52.5

Q ss_pred             CChhHHHHHHHHHHHcCC---HHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHH
Q 047178          142 STMGTCGQLIRALDMDHR---AEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSI  218 (287)
Q Consensus       142 pd~~TYnaLI~~y~K~G~---leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~T  218 (287)
                      .|...+..+-.++...+.   .++|..+|++....+-  ........+=..+.+.|++++|+..|..+.+..-. +  ..
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp--~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~--~~   78 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEP--YNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-N--LD   78 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-T--CC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCc--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-C--cc
Confidence            345556666666654443   6899999999877552  22234555567788999999999999999876533 2  22


Q ss_pred             HHHHHHHH
Q 047178          219 VQRVADAY  226 (287)
Q Consensus       219 y~sLI~a~  226 (287)
                      ...|....
T Consensus        79 ~~~i~~~I   86 (93)
T 3bee_A           79 RVTIIESI   86 (93)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=84.87  E-value=6.5  Score=28.95  Aligned_cols=69  Identities=13%  Similarity=0.145  Sum_probs=45.6

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhC---CC-CCCC-hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCCh
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGI---DL-HSVP-WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~---g~-~sv~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      .-+-.|=..+.+.|+.+.|...|++-...   +- ..++ ...|..|-.+|.+.|++++|+.++++...  +.|+.
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~   79 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCC
Confidence            34555666677888888888888775432   10 0011 23577777888888888888888887765  46764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=84.12  E-value=27  Score=32.46  Aligned_cols=79  Identities=13%  Similarity=0.026  Sum_probs=44.4

Q ss_pred             HcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC-----CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHh--
Q 047178          156 MDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN-----MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEV--  228 (287)
Q Consensus       156 K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G-----~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k--  228 (287)
                      ..|+.++|.+.|++-.+.|.   + ..++.|=..|. .|     ++++|+++|..-. .|    ....+..|-..|..  
T Consensus       263 ~~~d~~~A~~~~~~Aa~~g~---~-~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g----~~~A~~~Lg~~y~~G~  332 (452)
T 3e4b_A          263 ELGDVEQMMKYLDNGRAADQ---P-RAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR----EVAADYYLGQIYRRGY  332 (452)
T ss_dssp             GGCCHHHHHHHHHHHHHTTC---H-HHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT----CHHHHHHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHCCC---H-HHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC----CHHHHHHHHHHHHCCC
Confidence            46677777777777666552   1 23343444444 55     7777777777655 22    22334444444444  


Q ss_pred             --cCCHHHHHHHHHHHhH
Q 047178          229 --LGLLEEKERVLEKYKD  244 (287)
Q Consensus       229 --~G~leeA~~ll~~m~~  244 (287)
                        ..+.++|...+.+--.
T Consensus       333 g~~~d~~~A~~~~~~Aa~  350 (452)
T 3e4b_A          333 LGKVYPQKALDHLLTAAR  350 (452)
T ss_dssp             TSSCCHHHHHHHHHHHHT
T ss_pred             CCCcCHHHHHHHHHHHHh
Confidence              2277777777766543

>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=83.54  E-value=3.2  Score=38.71  Aligned_cols=75  Identities=12%  Similarity=0.085  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHH-----HCCCCCChHHHHHH
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLE-----AFDRKPPEKSIVQR  221 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~-----~~Gi~PD~~~Ty~s  221 (287)
                      ...++..+...|+.++|..........+  +.....|-.+|.+|.+.|+..+|++.|+...     +.|+.|.. .+ ..
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~--P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~-~l-~~  249 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH--PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP-TL-RA  249 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH-HH-HH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH-HH-HH
Confidence            3456777889999999999988887654  3445679999999999999999999999874     46999985 43 44


Q ss_pred             HHHH
Q 047178          222 VADA  225 (287)
Q Consensus       222 LI~a  225 (287)
                      |...
T Consensus       250 l~~~  253 (388)
T 2ff4_A          250 LNER  253 (388)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>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=82.60  E-value=30  Score=32.59  Aligned_cols=117  Identities=4%  Similarity=-0.066  Sum_probs=71.4

Q ss_pred             cchhhHHHHHHHHHHCCCCCCh-hHHHHHHHHHH----HcC----CHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          123 QQWHRVVQVIKWMLSKGQGSTM-GTCGQLIRALD----MDH----RAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       123 ~~~~~A~qv~~~M~~~G~~pd~-~TYnaLI~~y~----K~G----~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ....+|+.+|+..++.  .|+- ..|..+--+|.    ..+    .++.....+.........+.+..+|.++-..+.-.
T Consensus       213 ~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~  290 (372)
T 3ly7_A          213 KSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVK  290 (372)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhC
Confidence            3457888888887763  4652 23332222221    111    11111222222111111123345677776666667


Q ss_pred             CCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          194 NMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       194 G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      |++++|...+++....+  |+ ...|..+-..+.-.|+.++|.+.+++...
T Consensus       291 gd~d~A~~~l~rAl~Ln--~s-~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          291 GKTDESYQAINTGIDLE--MS-WLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             TCHHHHHHHHHHHHHHC--CC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcC--CC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999999999999886  88 47777777788899999999999875443

>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=82.32  E-value=6.9  Score=36.00  Aligned_cols=93  Identities=13%  Similarity=0.056  Sum_probs=68.5

Q ss_pred             hhHHHHHHHHHHHc-----CCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc-CCHhHHHHHHHHHHHCCCC--CCh
Q 047178          144 MGTCGQLIRALDMD-----HRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN-NMLERLIKLFKGLEAFDRK--PPE  215 (287)
Q Consensus       144 ~~TYnaLI~~y~K~-----G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~-G~~eeA~~Lf~eM~~~Gi~--PD~  215 (287)
                      -..|.+|-..|.+.     |+.++|+++|++-..-+-.. ..-++...-..||+. |+.++|.+.|++-......  |+.
T Consensus       199 GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~-~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          199 GAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAH-DPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTT-CSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSC
T ss_pred             CHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCC-CchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCCh
Confidence            45789999999994     99999999999987643110 112355566778885 9999999999999998877  774


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          216 KSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       216 ~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                       ...        ..+.=.+|+.++++...+|
T Consensus       278 -~la--------n~~~q~eA~~LL~~~~d~F  299 (301)
T 3u64_A          278 -KLL--------VILSQKRARWLKAHVQDFF  299 (301)
T ss_dssp             -HHH--------HHHHHHHHHHHHHTHHHHC
T ss_pred             -hHH--------HHHHHHHHHHHHHHhHHhc
Confidence             322        2344578888888877665

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=81.33  E-value=9.7  Score=31.43  Aligned_cols=73  Identities=14%  Similarity=0.030  Sum_probs=37.6

Q ss_pred             HHHHHHCCCCCChhHHHHHHHHHHHcC---CHHHHHHHHHHhhhCCCCCC---ChhhHHHHHHHHHHcCCHhHHHHHHHH
Q 047178          132 IKWMLSKGQGSTMGTCGQLIRALDMDH---RAEEAHKFWEKRIGIDLHSV---PWQLCKSMIAIYYRNNMLERLIKLFKG  205 (287)
Q Consensus       132 ~~~M~~~G~~pd~~TYnaLI~~y~K~G---~leeA~~lF~eM~~~g~~sv---~~~tyNsmIsgY~k~G~~eeA~~Lf~e  205 (287)
                      +......|. ++..+---+=-+|++..   .+++|..+|++....+.  +   ....|+.= -||.+.|++++|.+.|+.
T Consensus        21 y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~--p~~~rd~lY~LA-v~~~kl~~Y~~A~~y~~~   96 (152)
T 1pc2_A           21 FQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGS--KEEQRDYVFYLA-VGNYRLKEYEKALKYVRG   96 (152)
T ss_dssp             HHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSC--HHHHHHHHHHHH-HHHHHTSCHHHHHHHHHH
T ss_pred             HHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCC--ccchHHHHHHHH-HHHHHccCHHHHHHHHHH
Confidence            333333333 44445445555566655   45566666666655431  1   11345532 244666666666666666


Q ss_pred             HHH
Q 047178          206 LEA  208 (287)
Q Consensus       206 M~~  208 (287)
                      ..+
T Consensus        97 lL~   99 (152)
T 1pc2_A           97 LLQ   99 (152)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=80.31  E-value=17  Score=30.31  Aligned_cols=55  Identities=15%  Similarity=0.193  Sum_probs=25.5

Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      +.-++.+...|.-|...++..++.. .-.|+. ...-.+-.||.+.|+..+|.+++.
T Consensus        95 d~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~-~~l~kia~Ay~Klg~~r~a~eLl~  149 (172)
T 1wy6_A           95 NKALDILVIQGKRDKLEEIGREILK-NNEVSA-SILVAIANALRRVGDERDATTLLI  149 (172)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC---CCSCH-HHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhccHhHHHHHHHHHhc-cCCCCh-HHHHHHHHHHHHhcchhhHHHHHH
Confidence            3344445555555555555555322 122221 223444555555555555555554

---

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	287
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.39
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.98
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.87
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.79
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.77
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.74
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.56
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.51
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.34
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.3
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.22
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.22
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.22
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.19
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.14
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.09
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.07
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.04
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.84
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	96.77
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.74
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.67
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.66
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.62
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.5
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.48
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.47
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.39
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	96.31
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.3
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.13
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.02
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	95.97
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	95.67
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	95.61
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	95.55
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	95.41
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	95.38
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.3
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	94.49
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	93.24
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	92.27
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	91.17
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	90.27
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	89.98
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	87.0
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	86.89
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	82.11
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	80.3

>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=98.39  E-value=1.9e-05  Score=67.18  Aligned_cols=131  Identities=10%  Similarity=0.047  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          110 GSLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       110 ~s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      ..+..+-..+.+.|++++|++.++...+.. +.+..+|..+-..|.+.|+.++|.+.|+......-  .....+..+...
T Consensus       238 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~l~~~  314 (388)
T d1w3ba_         238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP--THADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT--TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCC--ccchhhhHHHHH
Confidence            334445566778889999999998887642 23456788889999999999999999998766431  233568888899


Q ss_pred             HHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          190 YYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |.+.|++++|++.|++..+  +.|+...++..+-..|.+.|++++|...+++...+
T Consensus       315 ~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         315 KREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999998765  46776677888888999999999999998876544

>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=97.98  E-value=0.00014  Score=61.58  Aligned_cols=129  Identities=12%  Similarity=0.066  Sum_probs=100.0

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIY  190 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY  190 (287)
                      .+..+-..+...+++++|+..+........ .+...|..+-..|.+.|+.++|...|++..+.+-  ....+|..+-..|
T Consensus       205 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~l~~~~  281 (388)
T d1w3ba_         205 AYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP--HFPDAYCNLANAL  281 (388)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS--SCHHHHHHHHHHH
T ss_pred             HHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHH
Confidence            344455567788899999998888776543 4556778888889999999999999999877542  2334688888999


Q ss_pred             HHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhH
Q 047178          191 YRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKD  244 (287)
Q Consensus       191 ~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~  244 (287)
                      .+.|++++|.+.|.......  |+....+..+...|...|++++|...+++...
T Consensus       282 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  333 (388)
T d1w3ba_         282 KEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHhhhccC--CccchhhhHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999998876643  33346778888899999999999999887544

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=0.00019  Score=61.14  Aligned_cols=128  Identities=10%  Similarity=0.044  Sum_probs=101.4

Q ss_pred             HHHHHHccchhhHHHHHHHHHHCC-CCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          116 LLALEKEQQWHRVVQVIKWMLSKG-QGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       116 i~~L~k~~~~~~A~qv~~~M~~~G-~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      +..+...+.+.++.+.+....+.. -..+..++..+-..+...|+.++|...|++....+-  .....|..+-..|.+.|
T Consensus       143 ~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~lg~~~~~~g  220 (323)
T d1fcha_         143 LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP--NDYLLWNKLGATLANGN  220 (323)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccccc--ccccchhhhhhcccccc
Confidence            334556677788888887766532 224566788888999999999999999999876542  23357888999999999


Q ss_pred             CHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          195 MLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ++++|++.|....+.  .|+....|..+-.+|.+.|++++|...+++...+.-
T Consensus       221 ~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p  271 (323)
T d1fcha_         221 QSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQR  271 (323)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            999999999998764  576566788889999999999999999998777644

>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=97.79  E-value=0.00082  Score=58.02  Aligned_cols=137  Identities=12%  Similarity=-0.032  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHH-HHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRA-LDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~-y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      .+...+..+.+.+..+.|.++|+..++.+.. +...|-..... +...|..+.|..+|+.+.....  .....|...+..
T Consensus       136 ~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p--~~~~~w~~y~~~  212 (308)
T d2onda1         136 VYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG--DIPEYVLAYIDY  212 (308)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT--TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhh--hhHHHHHHHHHH
Confidence            3556666667777777788888777654322 22233222222 2335777888888887776431  222457777777


Q ss_pred             HHHcCCHhHHHHHHHHHHHC-CCCCCh-HHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhh
Q 047178          190 YYRNNMLERLIKLFKGLEAF-DRKPPE-KSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       190 Y~k~G~~eeA~~Lf~eM~~~-Gi~PD~-~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~  250 (287)
                      +.+.|.+++|..+|++-... +..|+. ...|...+.--...|+++.+..+.+.+.++|....
T Consensus       213 ~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         213 LSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             HHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             HHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            78888888888888876554 345541 23566667666677888888888888877775443

>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=97.77  E-value=0.0017  Score=55.97  Aligned_cols=125  Identities=10%  Similarity=0.005  Sum_probs=95.3

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH-HHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI-YYR  192 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg-Y~k  192 (287)
                      .....+.+.+.+++|..+++.+++........+|...++.+-+.|.++.|.++|++....+.  .+...|-..... +..
T Consensus       104 ~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~--~~~~~~~~~a~~e~~~  181 (308)
T d2onda1         104 AYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR--TRHHVYVTAALMEYYC  181 (308)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT--CCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHh
Confidence            34455678889999999999988643322345799999999999999999999999887543  222233332222 344


Q ss_pred             cCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047178          193 NNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKY  242 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m  242 (287)
                      .|..+.|..+|+.+...  .|+....+...++-+...|+++.|+.+|++.
T Consensus       182 ~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~a  229 (308)
T d2onda1         182 SKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERV  229 (308)
T ss_dssp             SCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            68999999999999875  4555567899999999999999999999974

>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=97.74  E-value=0.00032  Score=55.71  Aligned_cols=91  Identities=5%  Similarity=-0.088  Sum_probs=63.4

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNN  194 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G  194 (287)
                      .=..|.+.|++++|+..|...++.. +.+...|+-+=.+|.+.|++++|...|.+....+  +-....|..+=.+|.+.|
T Consensus        10 ~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~--p~~~~a~~~lg~~~~~l~   86 (201)
T d2c2la1          10 QGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFFLGQCQLEME   86 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC--CCcHHHHHHHHHHHHHCC
Confidence            3345677788888888887766642 2355667777777888888888888888776543  112345677777888888


Q ss_pred             CHhHHHHHHHHHHH
Q 047178          195 MLERLIKLFKGLEA  208 (287)
Q Consensus       195 ~~eeA~~Lf~eM~~  208 (287)
                      ++++|+..|.....
T Consensus        87 ~~~~A~~~~~~al~  100 (201)
T d2c2la1          87 SYDEAIANLQRAYS  100 (201)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            88888888876654

>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=97.56  E-value=0.00043  Score=54.29  Aligned_cols=94  Identities=11%  Similarity=-0.033  Sum_probs=78.1

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML  196 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~  196 (287)
                      ..+.+.|++++|+..|...++.. +.+...|.-+-..|-..|++++|...|++..+.+-  .....|..+..+|...|++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p--~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK--KYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcc--cchHHHHHHHHHHHHcCCH
Confidence            35778999999999999988753 23667788899999999999999999999987542  2345789999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCCh
Q 047178          197 ERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       197 eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      ++|.+.|.+....  .|+.
T Consensus        95 ~eA~~~~~~a~~~--~p~~  111 (159)
T d1a17a_          95 RAALRDYETVVKV--KPHD  111 (159)
T ss_dssp             HHHHHHHHHHHHH--STTC
T ss_pred             HHHHHHHHHHHHc--CCCC
Confidence            9999999998875  3654

>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=97.51  E-value=0.0016  Score=50.88  Aligned_cols=90  Identities=14%  Similarity=0.045  Sum_probs=74.5

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      +.|.+.|++++|...|.+....+  +.....|+.+-..|.+.|++++|+..|....+.  .|+..-.|..+..+|...|+
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcCC
Confidence            35679999999999999988765  233457888889999999999999999998875  36656678888899999999


Q ss_pred             HHHHHHHHHHHhHH
Q 047178          232 LEEKERVLEKYKDL  245 (287)
Q Consensus       232 leeA~~ll~~m~~l  245 (287)
                      +++|...+++...+
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999988876654

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.34  E-value=0.0062  Score=51.25  Aligned_cols=63  Identities=8%  Similarity=0.135  Sum_probs=52.3

Q ss_pred             hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          181 QLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       181 ~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..|..+-..|...|++++|+..|++....  .|+...+|..+-..|...|++++|.+.+++...+
T Consensus       173 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  235 (323)
T d1fcha_         173 DVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL  235 (323)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHH
Confidence            35777778899999999999999998764  4665677888889999999999999999876553

>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=97.30  E-value=0.0012  Score=49.48  Aligned_cols=94  Identities=7%  Similarity=-0.150  Sum_probs=64.3

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML  196 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~  196 (287)
                      ..+.+.|++++|+.+|...++. .+.+...|+.+=.+|-+.|+.++|...|.+....+-  .....|..+-.+|...|++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~-~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p--~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL-DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP--DWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc-CCcchhhhhcccccccccccccccchhhhhHHHhcc--chhhHHHHHHHHHHHccCH
Confidence            3456677788888888777654 223555677777777788888888888887766542  2334566677778888888


Q ss_pred             hHHHHHHHHHHHCCCCCCh
Q 047178          197 ERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       197 eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      ++|+..|+.-.+  +.|+.
T Consensus        88 ~~A~~~~~~a~~--~~p~~  104 (117)
T d1elwa_          88 EEAKRTYEEGLK--HEANN  104 (117)
T ss_dssp             HHHHHHHHHHHT--TCTTC
T ss_pred             HHHHHHHHHHHH--hCCCC
Confidence            888888877665  34654

>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=97.22  E-value=0.00068  Score=52.06  Aligned_cols=97  Identities=13%  Similarity=0.071  Sum_probs=55.8

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCH---HHHHHHHHHhhhCCCCCCCh--hhHHHHHH
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRA---EEAHKFWEKRIGIDLHSVPW--QLCKSMIA  188 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~l---eeA~~lF~eM~~~g~~sv~~--~tyNsmIs  188 (287)
                      .++..+...+.+.+|.+.|...+..+- .+..++.-+=.+|.+.++.   ++|..+|++....+.  .|.  -+|..|=.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~--~~~~~~~~~~Lg~   80 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGS--KEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSC--HHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccC--CchHHHHHHHHHH
Confidence            455566666677777777766655321 2445555555566554443   346777777665442  121  13444556


Q ss_pred             HHHHcCCHhHHHHHHHHHHHCCCCCCh
Q 047178          189 IYYRNNMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       189 gY~k~G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      +|.+.|++++|.+.|+...+  +.|+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~--~~P~~  105 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ--TEPQN  105 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHhhhHHHHHHHHHHHH--hCcCC
Confidence            66677777777777777666  34653

>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=97.22  E-value=0.0046  Score=46.03  Aligned_cols=91  Identities=18%  Similarity=0.073  Sum_probs=75.8

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCC
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGL  231 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~  231 (287)
                      +.+.+.|++++|..+|++....+-  -....|+.+=.+|.+.|++++|++.|.......  |+....|..+-.++...|+
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p--~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDP--HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC--cchhhhhcccccccccccccccchhhhhHHHhc--cchhhHHHHHHHHHHHccC
Confidence            456788999999999999987652  233578888999999999999999999998754  5556778888889999999


Q ss_pred             HHHHHHHHHHHhHHH
Q 047178          232 LEEKERVLEKYKDLF  246 (287)
Q Consensus       232 leeA~~ll~~m~~l~  246 (287)
                      +++|...+++...+.
T Consensus        87 ~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          87 FEEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999998766543

>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=97.22  E-value=0.001  Score=49.52  Aligned_cols=86  Identities=10%  Similarity=-0.052  Sum_probs=61.9

Q ss_pred             HHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCH
Q 047178          153 ALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       153 ~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~l  232 (287)
                      .|-+.|++++|...|++....+-  .....|.-+-..|.+.|++++|+..|....+.  .|+....+..+...|...|+.
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~p--~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKEP--EREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhccccc--ccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHCCCH
Confidence            46677888888888888776541  22346777777888888888888888876653  455456677777788888888


Q ss_pred             HHHHHHHHHH
Q 047178          233 EEKERVLEKY  242 (287)
Q Consensus       233 eeA~~ll~~m  242 (287)
                      ++|.+.++++
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888887765

>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=97.19  E-value=0.0044  Score=50.35  Aligned_cols=121  Identities=15%  Similarity=0.099  Sum_probs=90.8

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLER  198 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~ee  198 (287)
                      +...++|+.|++.|..+    ..|+..+|.-|=..|.+.|++++|.+.|++-.+.+-  -....|+-+=.+|.+.|++++
T Consensus        15 ~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp--~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK--HLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh--hhhhhHHHHHHHHHhhccHHH
Confidence            35678899999988764    346777888888889999999999999999887652  223468888889999999999


Q ss_pred             HHHHHHHHHHCC------------C--CCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          199 LIKLFKGLEAFD------------R--KPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       199 A~~Lf~eM~~~G------------i--~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |++-|+.-....            .  .++..-++..+-.+|.+.|++++|.+.+.....+
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            999999865421            1  1111122334455899999999999988865544

>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=97.14  E-value=0.0054  Score=49.93  Aligned_cols=119  Identities=10%  Similarity=-0.096  Sum_probs=83.4

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML  196 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~  196 (287)
                      ..+.+.|++++|++.|+..++.. +-+..+|+.|=.+|.+.|++++|.+.|++....+-  ....+|..+-..|...|++
T Consensus        45 ~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~a~~~lg~~~~~~g~~  121 (259)
T d1xnfa_          45 VLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP--TYNYAHLNRGIALYYGGRD  121 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh--hhhhhHHHHHHHHHHHhhH
Confidence            35677899999999999887642 23567888898999999999999999999887542  1224577788889999999


Q ss_pred             hHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047178          197 ERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLE  240 (287)
Q Consensus       197 eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~  240 (287)
                      ++|.+.|..-.+..  |+.......+.-++.+.+..+....+..
T Consensus       122 ~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (259)
T d1xnfa_         122 KLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQ  163 (259)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            99999999887653  4432333333334455554444444433

>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=97.09  E-value=0.0026  Score=55.52  Aligned_cols=172  Identities=9%  Similarity=0.016  Sum_probs=112.6

Q ss_pred             CCCCcccHHHHHHH----HHccCCCcchHHHHHHHHHHccCCCCHHHHHHHHHHHHHccc-hhhHHHHHHHHHHCCCCCC
Q 047178           69 NVPRKDKINFLVNT----LLDLKNSKEDVYGTLDAWVAWEQNFPVGSLKKALLALEKEQQ-WHRVVQVIKWMLSKGQGST  143 (287)
Q Consensus        69 ~~s~~~~~~~Li~~----l~~lg~~~~~v~~~Ld~~~~~~~~~~~~s~~~ai~~L~k~~~-~~~A~qv~~~M~~~G~~pd  143 (287)
                      .|.+.|....++.-    +.+.+...++ ....+..+...- -....+..--..|...++ +++|++.++..++.. +-+
T Consensus        35 ~I~~~p~~~~a~~~~~~~~~~~e~~~~A-l~~~~~ai~lnP-~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~  111 (315)
T d2h6fa1          35 QIIYSDKFRDVYDYFRAVLQRDERSERA-FKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKN  111 (315)
T ss_dssp             EECCCHHHHHHHHHHHHHHHHTCCCHHH-HHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTC
T ss_pred             ccccCHHHHHHHHHHHHHHHhCCchHHH-HHHHHHHHHHCC-CChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-Hhh
Confidence            36777766665543    3333444433 233444433211 112333333334556554 899999998877642 235


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          144 MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       144 ~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      ..+|+-+=..|.+.|+.++|.+.|.++.+.+-  .....|+-+-..|.+.|++++|++.|+...+..  |+....|+-+-
T Consensus       112 ~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp--~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~  187 (315)
T d2h6fa1         112 YQVWHHRRVLVEWLRDPSQELEFIADILNQDA--KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRY  187 (315)
T ss_dssp             HHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             hhHHHHHhHHHHhhccHHHHHHHHhhhhhhhh--cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHH
Confidence            67888888889999999999999999988652  234578889999999999999999999998854  54445566555


Q ss_pred             HHHHhcCC------HHHHHHHHHHHhHHHh
Q 047178          224 DAYEVLGL------LEEKERVLEKYKDLFT  247 (287)
Q Consensus       224 ~a~~k~G~------leeA~~ll~~m~~l~~  247 (287)
                      ..+.+.+.      +++|...+.+...+.-
T Consensus       188 ~~l~~~~~~~~~~~~~~ai~~~~~al~~~P  217 (315)
T d2h6fa1         188 FVISNTTGYNDRAVLEREVQYTLEMIKLVP  217 (315)
T ss_dssp             HHHHHTTCSCSHHHHHHHHHHHHHHHHHST
T ss_pred             HHHHHccccchhhhhHHhHHHHHHHHHhCC
Confidence            55566555      5666666666555554

>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=97.07  E-value=0.008  Score=48.84  Aligned_cols=95  Identities=9%  Similarity=-0.157  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHH
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYY  191 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~  191 (287)
                      +..+-..+.+.|++++|+..|+..++..- -+..+|..+-..|...|+.++|...|++....+-  .+...+..+--++.
T Consensus        74 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p--~~~~~~~~~~~~~~  150 (259)
T d1xnfa_          74 FNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP--NDPFRSLWLYLAEQ  150 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHH
T ss_pred             HhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc--ccHHHHHHHHHHHH
Confidence            44444456667777777777777665321 2344566666677777777777777777665431  12122222333445


Q ss_pred             HcCCHhHHHHHHHHHHHC
Q 047178          192 RNNMLERLIKLFKGLEAF  209 (287)
Q Consensus       192 k~G~~eeA~~Lf~eM~~~  209 (287)
                      +.+..+.+..+.......
T Consensus       151 ~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_         151 KLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHCHHHHHHHHHHHHHHS
T ss_pred             HhhhHHHHHHHHHHhhcc
Confidence            555555555555555443

>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=97.04  E-value=0.0079  Score=47.12  Aligned_cols=96  Identities=9%  Similarity=-0.022  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 047178          147 CGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAY  226 (287)
Q Consensus       147 YnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~  226 (287)
                      +.-.=+.|.+.|++++|...|.+....+  +.....|+-+=.+|.+.|++++|+..|.....  +.|+.+..|..+-.+|
T Consensus         7 l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg~~~   82 (201)
T d2c2la1           7 LKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQCQ   82 (201)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHHHHH
Confidence            3333467888999999999998877654  22335688888889999999999999988764  5677667788888889


Q ss_pred             HhcCCHHHHHHHHHHHhHHH
Q 047178          227 EVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       227 ~k~G~leeA~~ll~~m~~l~  246 (287)
                      ...|++++|...+++...+.
T Consensus        83 ~~l~~~~~A~~~~~~al~l~  102 (201)
T d2c2la1          83 LEMESYDEAIANLQRAYSLA  102 (201)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC
Confidence            99999999998888766554

>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=96.84  E-value=0.0076  Score=48.85  Aligned_cols=98  Identities=11%  Similarity=0.080  Sum_probs=73.4

Q ss_pred             HHHHccchhhHHHHHHHHHHC--CCC-CC------------------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCC
Q 047178          118 ALEKEQQWHRVVQVIKWMLSK--GQG-ST------------------MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH  176 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~--G~~-pd------------------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~  176 (287)
                      .+...|++++|.+.+..-++.  |.. ++                  ...+..+...+.+.|+.++|...+++....+  
T Consensus        20 ~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~--   97 (179)
T d2ff4a2          20 HAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH--   97 (179)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC--
Confidence            445666666666666665542  211 11                  1356778999999999999999999998765  


Q ss_pred             CCChhhHHHHHHHHHHcCCHhHHHHHHHHH-----HHCCCCCChHHH
Q 047178          177 SVPWQLCKSMIAIYYRNNMLERLIKLFKGL-----EAFDRKPPEKSI  218 (287)
Q Consensus       177 sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM-----~~~Gi~PD~~~T  218 (287)
                      +.+...|..+|.+|.+.|+.++|++.|+++     .+.|+.|.. .|
T Consensus        98 P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~-~l  143 (179)
T d2ff4a2          98 PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP-TL  143 (179)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH-HH
T ss_pred             CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH-HH
Confidence            234467999999999999999999999997     457999984 43

>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=96.77  E-value=0.0071  Score=51.46  Aligned_cols=134  Identities=10%  Similarity=-0.037  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHC----CCCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhh----CCCCCCChhh
Q 047178          112 LKKALLALEKEQQWHRVVQVIKWMLSK----GQGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIG----IDLHSVPWQL  182 (287)
Q Consensus       112 ~~~ai~~L~k~~~~~~A~qv~~~M~~~----G~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~----~g~~sv~~~t  182 (287)
                      +..+-..+...++|++|++.|....+.    |-.++ ..+|+-+-.+|-+.|+.++|.+.+++...    .+.......+
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            455666677888888888888776542    22222 35688888899999999999999887543    2210000124


Q ss_pred             HHHHHHHHHH-cCCHhHHHHHHHHHHH----CCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          183 CKSMIAIYYR-NNMLERLIKLFKGLEA----FDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       183 yNsmIsgY~k-~G~~eeA~~Lf~eM~~----~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +..|...|-. .|++++|++.|.+..+    .+-.++...+|.-+...|...|++++|...+++...+
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~  187 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHh
Confidence            5556666644 6999999999987642    3444433455777888999999999999998875543

>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=96.74  E-value=0.0074  Score=45.57  Aligned_cols=90  Identities=9%  Similarity=0.092  Sum_probs=53.4

Q ss_pred             HHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCC-CCCh----hhHHHHHHHHHH
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLH-SVPW----QLCKSMIAIYYR  192 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~-sv~~----~tyNsmIsgY~k  192 (287)
                      .+.+.+++++|++.|...++.. +.+..+|.-+=.+|.+.|++++|...|++..+.+-. ..++    .+|..|=..|..
T Consensus        13 ~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~~   91 (128)
T d1elra_          13 DAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFK   91 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHH
Confidence            3556677777777777766642 234566666777777777777777777776542100 0111    235555556666


Q ss_pred             cCCHhHHHHHHHHHHH
Q 047178          193 NNMLERLIKLFKGLEA  208 (287)
Q Consensus       193 ~G~~eeA~~Lf~eM~~  208 (287)
                      .+++++|++.|..-..
T Consensus        92 ~~~~~~A~~~~~kal~  107 (128)
T d1elra_          92 EEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHh
Confidence            6677777777765443

>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=96.67  E-value=0.011  Score=46.88  Aligned_cols=99  Identities=15%  Similarity=0.004  Sum_probs=74.6

Q ss_pred             HHHHccchhhHHHHHHHHHHCCC-CCC-------------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhH
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQ-GST-------------MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLC  183 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~-~pd-------------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~ty  183 (287)
                      .+.+.+++++|+..|...++.-. .+.             ..+|+-+-.+|.+.|++++|...+++....+  |.....|
T Consensus        22 ~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~--p~~~~a~   99 (170)
T d1p5qa1          22 VYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGL   99 (170)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc--ccchhhh
Confidence            57788999999999988775321 111             2356667788899999999999999988765  2234568


Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHH
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQ  220 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~  220 (287)
                      .-+-.+|.+.|++++|+..|++..+.  -|+......
T Consensus       100 ~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~  134 (170)
T d1p5qa1         100 SRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKT  134 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHH
Confidence            88889999999999999999998774  475434333

>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=96.66  E-value=0.019  Score=45.27  Aligned_cols=90  Identities=9%  Similarity=-0.021  Sum_probs=64.9

Q ss_pred             HHHcCCHHHHHHHHHHhhhCCCCCC---C----------hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHH
Q 047178          154 LDMDHRAEEAHKFWEKRIGIDLHSV---P----------WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQ  220 (287)
Q Consensus       154 y~K~G~leeA~~lF~eM~~~g~~sv---~----------~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~  220 (287)
                      |.+.|++++|...|.+.....-...   +          ..+|+-|-.+|.+.|++++|+..+..-...  .|+.+..|.
T Consensus        23 ~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~~a~~  100 (170)
T d1p5qa1          23 YFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKGLS  100 (170)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhc--cccchhhhH
Confidence            4567888888888887653210000   0          124777788888999999999988887765  465567778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          221 RVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       221 sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      .+-.+|...|++++|...|++...+
T Consensus       101 ~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1         101 RRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            8888899999999999888876554

>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=96.62  E-value=0.082  Score=42.92  Aligned_cols=135  Identities=8%  Similarity=-0.018  Sum_probs=94.5

Q ss_pred             HHHHHHHHHccchhhHHHHHHHHHH----CCCCC--ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCC--hhhHH
Q 047178          113 KKALLALEKEQQWHRVVQVIKWMLS----KGQGS--TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVP--WQLCK  184 (287)
Q Consensus       113 ~~ai~~L~k~~~~~~A~qv~~~M~~----~G~~p--d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~--~~tyN  184 (287)
                      ......+...+....+...+.....    .+..+  ....++.+...+...|+.++|...+.+.........+  ...+.
T Consensus       176 ~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  255 (366)
T d1hz4a_         176 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  255 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            3334445566667777665554332    11111  1234666777888999999999999987654321111  23466


Q ss_pred             HHHHHHHHcCCHhHHHHHHHHHH----HCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          185 SMIAIYYRNNMLERLIKLFKGLE----AFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       185 smIsgY~k~G~~eeA~~Lf~eM~----~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .+-..|...|++++|...|++..    ..+..|+...++..+-..|...|+.++|.+.+++...+-.
T Consensus       256 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~  322 (366)
T d1hz4a_         256 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLAN  322 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence            67889999999999999999875    3577787666777888899999999999999988766543

>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=0.047  Score=44.49  Aligned_cols=129  Identities=12%  Similarity=0.041  Sum_probs=53.0

Q ss_pred             HHHccchhhHHHHHHHHHHCC----CCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhhh----CCCCCCCh--hhHHHHH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKG----QGS-TMGTCGQLIRALDMDHRAEEAHKFWEKRIG----IDLHSVPW--QLCKSMI  187 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G----~~p-d~~TYnaLI~~y~K~G~leeA~~lF~eM~~----~g~~sv~~--~tyNsmI  187 (287)
                      +...|++++|+..+....+..    ..+ ...++..+-..|...|+++.|...+.+...    ......+.  ..+..+-
T Consensus        61 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la  140 (366)
T d1hz4a_          61 LHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRA  140 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHH
Confidence            344455555555555443211    000 112334444445555555555555554321    11100111  1233334


Q ss_pred             HHHHHcCCHhHHHHHHHHHHHCCCC---CChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          188 AIYYRNNMLERLIKLFKGLEAFDRK---PPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       188 sgY~k~G~~eeA~~Lf~eM~~~Gi~---PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      ..|...|++++|...+.......-.   +....++..+...+...|...++...+.+...++.
T Consensus       141 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~  203 (366)
T d1hz4a_         141 QLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLG  203 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHH
Confidence            4455555555555555554432111   11112233333444455555555555544444443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=96.48  E-value=0.008  Score=44.39  Aligned_cols=86  Identities=6%  Similarity=-0.067  Sum_probs=71.3

Q ss_pred             HHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHh
Q 047178          118 ALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLE  197 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~e  197 (287)
                      .+.+.|++.+|+..|+..++.. +-+..+|.-|=..|.+.|+.++|...|++....+-  .....|..+-..|...|+++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p--~~~~a~~~la~~y~~~g~~~  101 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP--KDIAVHAALAVSHTNEHNAN  101 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccccc--ccccchHHHHHHHHHCCCHH
Confidence            4667899999999999988753 22577899999999999999999999999887541  22346888999999999999


Q ss_pred             HHHHHHHHH
Q 047178          198 RLIKLFKGL  206 (287)
Q Consensus       198 eA~~Lf~eM  206 (287)
                      +|++.|++-
T Consensus       102 ~A~~~l~~~  110 (112)
T d1hxia_         102 AALASLRAW  110 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999874

>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=96.47  E-value=0.021  Score=44.22  Aligned_cols=89  Identities=11%  Similarity=-0.041  Sum_probs=41.8

Q ss_pred             HHHHHccchhhHHHHHHHHHHCCCC----CC-----------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChh
Q 047178          117 LALEKEQQWHRVVQVIKWMLSKGQG----ST-----------MGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQ  181 (287)
Q Consensus       117 ~~L~k~~~~~~A~qv~~~M~~~G~~----pd-----------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~  181 (287)
                      ..+.+.|++.+|+..+...++.-..    ++           ..+|+-+-.+|.+.|+.++|.+.+++..+.+  |...-
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~--p~~~k  102 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID--KNNVK  102 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc--chhhh
Confidence            3455666777777666665542110    11           0123334444455555555555555544432  11223


Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHH
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLE  207 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~  207 (287)
                      +|..+-.+|...|++++|+..|..-.
T Consensus       103 a~~~~g~~~~~lg~~~~A~~~~~~al  128 (153)
T d2fbna1         103 ALYKLGVANMYFGFLEEAKENLYKAA  128 (153)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hhHHhHHHHHHcCCHHHHHHHHHHHH
Confidence            44445555555555555555554443

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.39  E-value=0.02  Score=43.37  Aligned_cols=96  Identities=13%  Similarity=-0.014  Sum_probs=73.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCH---hHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 047178          148 GQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNML---ERLIKLFKGLEAFDRKPPEKSIVQRVAD  224 (287)
Q Consensus       148 naLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~---eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~  224 (287)
                      ..|++.+...+++++|++.|++....+-  ....++.-+=.+|.+.++.   ++|+++|.+....+-.|+...++..+-.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p--~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGS--VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSC--CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCC--CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            4578889999999999999999987652  2223444466677765554   5699999999887755653235566777


Q ss_pred             HHHhcCCHHHHHHHHHHHhHH
Q 047178          225 AYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       225 a~~k~G~leeA~~ll~~m~~l  245 (287)
                      +|.+.|++++|.+.+++...+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999999987665

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.31  E-value=0.12  Score=44.34  Aligned_cols=126  Identities=10%  Similarity=0.037  Sum_probs=69.5

Q ss_pred             HHHHHHHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHc
Q 047178          114 KALLALEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRN  193 (287)
Q Consensus       114 ~ai~~L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~  193 (287)
                      ..-..+.+.|++++|++++..+++. -+.+..+|+-+-..|.+.|+.++|.+.|++..+.+.  -....|+-+-..+.+.
T Consensus       117 ~~~~~~~~l~~~~eAl~~~~kal~~-dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p--~n~~a~~~r~~~l~~~  193 (315)
T d2h6fa1         117 HRRVLVEWLRDPSQELEFIADILNQ-DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV--RNNSVWNQRYFVISNT  193 (315)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT--TCHHHHHHHHHHHHHT
T ss_pred             HHhHHHHhhccHHHHHHHHhhhhhh-hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC--ccHHHHHHHHHHHHHc
Confidence            3334455666677777777766653 123455666666777777777777777777666542  1223455444444444


Q ss_pred             CC------HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          194 NM------LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       194 G~------~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      |.      +++|++.+.....  +.|+....|+-+...| ....++++.+.+.....+
T Consensus       194 ~~~~~~~~~~~ai~~~~~al~--~~P~~~~~~~~l~~ll-~~~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         194 TGYNDRAVLEREVQYTLEMIK--LVPHNESAWNYLKGIL-QDRGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             TCSCSHHHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHH-TTTCGGGCHHHHHHHHHH
T ss_pred             cccchhhhhHHhHHHHHHHHH--hCCCchHHHHHHHHHH-HhcChHHHHHHHHHHHHh
Confidence            44      4566666655443  4666644444444333 333356666666555444

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.30  E-value=0.019  Score=44.44  Aligned_cols=106  Identities=13%  Similarity=0.050  Sum_probs=74.3

Q ss_pred             hHHHHH--HHHHHHcCCHHHHHHHHHHhhh--CCCCC-CC-------hhhHHHHHHHHHHcCCHhHHHHHHHHHHHC---
Q 047178          145 GTCGQL--IRALDMDHRAEEAHKFWEKRIG--IDLHS-VP-------WQLCKSMIAIYYRNNMLERLIKLFKGLEAF---  209 (287)
Q Consensus       145 ~TYnaL--I~~y~K~G~leeA~~lF~eM~~--~g~~s-v~-------~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~---  209 (287)
                      .+|..|  -..+...|++++|...|++-.+  ..... .+       ...|+.+=.+|.+.|++++|++-+.+....   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            355555  4456678999999999998764  11100 00       145888889999999999999998887541   


Q ss_pred             --CCCCCh----HHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhh
Q 047178          210 --DRKPPE----KSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       210 --Gi~PD~----~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~  250 (287)
                        ...|+.    ...|+.+-.+|...|++++|...|.+..+++.+.-
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence              233321    12355567789999999999999999988876544

>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=96.13  E-value=0.057  Score=43.36  Aligned_cols=94  Identities=10%  Similarity=0.042  Sum_probs=74.7

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhC--CCC-----CCCh-------------hhHHHHHHHHHHcCCHhHHHHHHHHHHHCCC
Q 047178          152 RALDMDHRAEEAHKFWEKRIGI--DLH-----SVPW-------------QLCKSMIAIYYRNNMLERLIKLFKGLEAFDR  211 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~--g~~-----sv~~-------------~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi  211 (287)
                      ..+...|+.++|...|.+-..-  |-.     ..+|             ..+..+...|.+.|++++|+..++.+...  
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            4678899999999999987652  211     0112             14788899999999999999999999874  


Q ss_pred             CCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh
Q 047178          212 KPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFT  247 (287)
Q Consensus       212 ~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~  247 (287)
                      .|.....|..++.+|...|+.++|.+.|+.+...+.
T Consensus        97 ~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~  132 (179)
T d2ff4a2          97 HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLA  132 (179)
T ss_dssp             STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence            454457899999999999999999999998766553

>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=96.02  E-value=0.052  Score=42.20  Aligned_cols=67  Identities=7%  Similarity=-0.089  Sum_probs=48.7

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCCh
Q 047178          145 GTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       145 ~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      ..|+-+=.+|.+.|+.++|...|.+..+.+-  .....|..+=.+|.+.|++++|++.|....+.  .|+.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p--~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n  144 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEIDP--SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APED  144 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT--TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhhh--hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCC
Confidence            3455566677888888888888888876541  22346777888888888888888888887763  4654

>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=95.97  E-value=0.054  Score=45.65  Aligned_cols=139  Identities=12%  Similarity=-0.061  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHHccchhhHHHHHHHHHHC----CCCC-ChhHHHHHHHHHHH-cCCHHHHHHHHHHhhh---CCCCCCC--
Q 047178          111 SLKKALLALEKEQQWHRVVQVIKWMLSK----GQGS-TMGTCGQLIRALDM-DHRAEEAHKFWEKRIG---IDLHSVP--  179 (287)
Q Consensus       111 s~~~ai~~L~k~~~~~~A~qv~~~M~~~----G~~p-d~~TYnaLI~~y~K-~G~leeA~~lF~eM~~---~g~~sv~--  179 (287)
                      .+..+-..+.+.+++++|++.+....+.    |... ...++..|-..|-. .|+.++|.+.|.+..+   ..- ..+  
T Consensus        79 ~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~-~~~~~  157 (290)
T d1qqea_          79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQ-SVALS  157 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT-CHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcC-chhhh
Confidence            4556666788899999998888765432    2111 12345555556644 5999999999988643   111 111  


Q ss_pred             hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCC-----CChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHhhhh
Q 047178          180 WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRK-----PPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLFTEKE  250 (287)
Q Consensus       180 ~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~-----PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~~~~~  250 (287)
                      ..+|+-+...|.+.|++++|++.|.+.....-.     +.....|...+-.+...|+.+.|...++++..+.-.|.
T Consensus       158 ~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~  233 (290)
T d1qqea_         158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFA  233 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----
T ss_pred             hhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcc
Confidence            235888999999999999999999998764321     11101123334466678999999999998776654443

>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=95.67  E-value=0.13  Score=39.37  Aligned_cols=91  Identities=15%  Similarity=0.137  Sum_probs=70.4

Q ss_pred             HHHcCCHHHHHHHHHHhhhCCCCC---CC-----------hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHH
Q 047178          154 LDMDHRAEEAHKFWEKRIGIDLHS---VP-----------WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIV  219 (287)
Q Consensus       154 y~K~G~leeA~~lF~eM~~~g~~s---v~-----------~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty  219 (287)
                      |.+.|++++|...|.+....-...   .+           ..+|+-+-.+|.+.|++++|++.+....+.  .|+.+-.|
T Consensus        27 ~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~--~p~~~ka~  104 (153)
T d2fbna1          27 FFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI--DKNNVKAL  104 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccc--cchhhhhh
Confidence            457789999999998866421100   01           125778889999999999999999998765  46556778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          220 QRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       220 ~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ..+..+|...|++++|...|++..++.
T Consensus       105 ~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1         105 YKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            888999999999999999998776654

>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=95.61  E-value=0.051  Score=42.24  Aligned_cols=63  Identities=11%  Similarity=0.072  Sum_probs=54.0

Q ss_pred             hHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          182 LCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       182 tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      .|+.+=.+|.+.|++++|+..|....+.  .|+.+..|..+-.+|...|++++|...|.+..++-
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhh--hhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            4677778899999999999999998864  57666788889999999999999999998777663

>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=95.55  E-value=0.056  Score=40.37  Aligned_cols=92  Identities=11%  Similarity=0.084  Sum_probs=72.9

Q ss_pred             HHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCC-----CCCChHHHHHHHHHHH
Q 047178          152 RALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFD-----RKPPEKSIVQRVADAY  226 (287)
Q Consensus       152 ~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~G-----i~PD~~~Ty~sLI~a~  226 (287)
                      +.|.+.|++++|...|.+....+-  .....|.-+=.+|.+.|++++|+..|.+..+..     ..++-..+|..+-..+
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~p--~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~   89 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELDP--TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSY   89 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc--ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHH
Confidence            468889999999999999887642  234578889999999999999999999987521     1222124688888999


Q ss_pred             HhcCCHHHHHHHHHHHhHH
Q 047178          227 EVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       227 ~k~G~leeA~~ll~~m~~l  245 (287)
                      ...+++++|...+.+...+
T Consensus        90 ~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          90 FKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            9999999999999875543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=95.41  E-value=0.11  Score=40.28  Aligned_cols=101  Identities=14%  Similarity=0.018  Sum_probs=68.9

Q ss_pred             HHHHccchhhHHHHHHHHHHC---CCCC-----------ChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhH
Q 047178          118 ALEKEQQWHRVVQVIKWMLSK---GQGS-----------TMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLC  183 (287)
Q Consensus       118 ~L~k~~~~~~A~qv~~~M~~~---G~~p-----------d~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~ty  183 (287)
                      .+.+.|.+.+|+..+..-+..   -...           ...+|+-+=.+|.+.|+.++|...+++....+-  .....|
T Consensus        24 ~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p--~~~~a~  101 (168)
T d1kt1a1          24 VYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS--ANEKGL  101 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT--TCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhccc--chHHHH
Confidence            355666677776666554321   1111           112455566678899999999999999887542  233467


Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHH
Q 047178          184 KSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRV  222 (287)
Q Consensus       184 NsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sL  222 (287)
                      ..+-.+|...|++++|.+.|.....  +.|+.......+
T Consensus       102 ~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l  138 (168)
T d1kt1a1         102 YRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQI  138 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            7788999999999999999999886  457754443333

>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=95.38  E-value=0.055  Score=43.44  Aligned_cols=85  Identities=8%  Similarity=-0.089  Sum_probs=68.7

Q ss_pred             HHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCH
Q 047178          153 ALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLL  232 (287)
Q Consensus       153 ~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~l  232 (287)
                      .+...|++++|.+.|+++..     +...+|.-+=..|.+.|++++|++.|.+-.+.  .|+....|.-+-.+|.+.|++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~~-----~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQD-----PHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSSS-----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHCCCHHHHHHHHHhcCC-----CCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccH
Confidence            35678999999999987632     22245666888899999999999999998874  466667788888899999999


Q ss_pred             HHHHHHHHHHhH
Q 047178          233 EEKERVLEKYKD  244 (287)
Q Consensus       233 eeA~~ll~~m~~  244 (287)
                      ++|..-|++...
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998887654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=95.30  E-value=0.016  Score=49.98  Aligned_cols=123  Identities=10%  Similarity=-0.010  Sum_probs=78.0

Q ss_pred             HHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHH
Q 047178          120 EKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERL  199 (287)
Q Consensus       120 ~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA  199 (287)
                      -+.|++++|+..+..-++. .+.|...+..|...||..|++++|...|+...+.+  +-....+..+-..+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~-~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA-SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHHH
Confidence            3568899999999887764 33467889999999999999999999999988754  11122344343333322322222


Q ss_pred             HHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Q 047178          200 IKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKERVLEKYKDLF  246 (287)
Q Consensus       200 ~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l~  246 (287)
                      ..-+..-... ..|+....+......+...|+.++|..++++..++-
T Consensus        84 ~~~~~~~~~~-~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVL-GENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECC-CSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhcc-cCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            2111100001 124433434444566888899999999998876654

>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=94.49  E-value=0.17  Score=39.22  Aligned_cols=94  Identities=9%  Similarity=0.068  Sum_probs=70.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhhh---CCCCCCC-----------hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCC
Q 047178          149 QLIRALDMDHRAEEAHKFWEKRIG---IDLHSVP-----------WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPP  214 (287)
Q Consensus       149 aLI~~y~K~G~leeA~~lF~eM~~---~g~~sv~-----------~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD  214 (287)
                      -.=+.|.+.|++++|...|.+-..   .... .+           ..+|+-+=.+|.+.|++++|+..+......  .|+
T Consensus        20 e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~-~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l--~p~   96 (168)
T d1kt1a1          20 EKGTVYFKGGKYVQAVIQYGKIVSWLEMEYG-LSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL--DSA   96 (168)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTCCS-CCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhhc-cchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhc--ccc
Confidence            344567789999999999977542   1110 11           123555667899999999999999998864  466


Q ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH
Q 047178          215 EKSIVQRVADAYEVLGLLEEKERVLEKYKDL  245 (287)
Q Consensus       215 ~~~Ty~sLI~a~~k~G~leeA~~ll~~m~~l  245 (287)
                      ..-.|..+..+|...|++++|...+.+...+
T Consensus        97 ~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          97 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5677888888999999999999999887655

>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=93.24  E-value=0.11  Score=44.13  Aligned_cols=114  Identities=8%  Similarity=-0.095  Sum_probs=80.9

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCChhHHHHHHHHHHHcCC--HHHHHHHHHHhhhCCCCCCChhhHHHHH-HHHHHcCC
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGSTMGTCGQLIRALDMDHR--AEEAHKFWEKRIGIDLHSVPWQLCKSMI-AIYYRNNM  195 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd~~TYnaLI~~y~K~G~--leeA~~lF~eM~~~g~~sv~~~tyNsmI-sgY~k~G~  195 (287)
                      +...+++.+|+.+++...+.. ..+...|..+-.++...++  .++|...|.++.+.+-  .....|..++ ..|-..|.
T Consensus        83 ~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~--~~~~~~~~~~~~~~~~~~~  159 (334)
T d1dcea1          83 EESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE--RNFHCWDYRRFVAAQAAVA  159 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc--hhhhhhhhHHHHHHHhccc
Confidence            345567788999998877642 2355566767667766664  8999999999987652  2223344444 56667899


Q ss_pred             HhHHHHHHHHHHHCCCCCChHHHHHHHHHHHHhcCCHHHHHH
Q 047178          196 LERLIKLFKGLEAFDRKPPEKSIVQRVADAYEVLGLLEEKER  237 (287)
Q Consensus       196 ~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~a~~k~G~leeA~~  237 (287)
                      +++|+..++......  |+....|+-+-..+...|+.++|..
T Consensus       160 ~~~Al~~~~~~i~~~--p~~~~a~~~l~~~~~~~~~~~~A~~  199 (334)
T d1dcea1         160 PAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGP  199 (334)
T ss_dssp             HHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999999887664  5545778888888889988776643

>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=92.27  E-value=0.82  Score=34.49  Aligned_cols=89  Identities=11%  Similarity=-0.040  Sum_probs=63.6

Q ss_pred             HHHccchhhHHHHHHHHHHCCC-CCC----------hhHHHHHHHHHHHcCCHHHHHHHHHHhhhC-----CCCCC--Ch
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQ-GST----------MGTCGQLIRALDMDHRAEEAHKFWEKRIGI-----DLHSV--PW  180 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~-~pd----------~~TYnaLI~~y~K~G~leeA~~lF~eM~~~-----g~~sv--~~  180 (287)
                      ....|++++|++.|..-++..- .|+          ...|+-+=.+|.+.|++++|.+-+++...-     .....  +.
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            4566788888888887664211 121          357888999999999999999999886531     11100  11


Q ss_pred             --hhHHHHHHHHHHcCCHhHHHHHHHHHH
Q 047178          181 --QLCKSMIAIYYRNNMLERLIKLFKGLE  207 (287)
Q Consensus       181 --~tyNsmIsgY~k~G~~eeA~~Lf~eM~  207 (287)
                        ..|+.+=.+|...|++++|++.|++..
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence              246667789999999999999999864

>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=91.17  E-value=0.53  Score=33.00  Aligned_cols=65  Identities=14%  Similarity=0.140  Sum_probs=45.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhhhC---CCCC-CC-hhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCCh
Q 047178          149 QLIRALDMDHRAEEAHKFWEKRIGI---DLHS-VP-WQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPE  215 (287)
Q Consensus       149 aLI~~y~K~G~leeA~~lF~eM~~~---g~~s-v~-~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~  215 (287)
                      -|=..+.+.|+.++|...|++-...   +..+ ++ ..+|+-|=.+|.+.|++++|++.|++..+.  .|+.
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~   79 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEH   79 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCC
Confidence            3445677889999999988876432   1111 11 135777888899999999999999988764  5775

>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=90.27  E-value=0.38  Score=40.78  Aligned_cols=66  Identities=12%  Similarity=0.035  Sum_probs=51.2

Q ss_pred             HHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 047178          155 DMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDRKPPEKSIVQRVAD  224 (287)
Q Consensus       155 ~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI~  224 (287)
                      -+.|++++|...|++-.+..  |.+...+..+...||..|++++|...|+...+.  .|+....+..+..
T Consensus         7 L~~G~l~eAl~~l~~al~~~--P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~   72 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRH   72 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            35799999999999998765  223457899999999999999999999998764  5765444443333

>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=89.98  E-value=0.86  Score=38.09  Aligned_cols=115  Identities=10%  Similarity=0.030  Sum_probs=75.3

Q ss_pred             HccchhhHHHHHHHHHHCCCCCChhH-HHH---HHHH-------HHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHH
Q 047178          121 KEQQWHRVVQVIKWMLSKGQGSTMGT-CGQ---LIRA-------LDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAI  189 (287)
Q Consensus       121 k~~~~~~A~qv~~~M~~~G~~pd~~T-Yna---LI~~-------y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsg  189 (287)
                      +....++|++++...++  ..|+..+ |+.   ++..       +-..|++++|..+|++....+-  -....|..+-.+
T Consensus        41 ~~~~~~~al~~~~~~l~--~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~p--k~~~~~~~~~~~  116 (334)
T d1dcea1          41 AGELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP--KSYGTWHHRCWL  116 (334)
T ss_dssp             TTCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCC--CcHHHHHHhhHH
Confidence            33345788888888776  3466543 322   2233       3445668999999999877542  233457777777


Q ss_pred             HHHcCC--HhHHHHHHHHHHHCCCCCChHHHHH-HHHHHHHhcCCHHHHHHHHHH
Q 047178          190 YYRNNM--LERLIKLFKGLEAFDRKPPEKSIVQ-RVADAYEVLGLLEEKERVLEK  241 (287)
Q Consensus       190 Y~k~G~--~eeA~~Lf~eM~~~Gi~PD~~~Ty~-sLI~a~~k~G~leeA~~ll~~  241 (287)
                      +...|+  .++|+..+.++.+..  |+....+. ..-..+-..|..++|...+++
T Consensus       117 ~~~~~~~~~~~a~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~  169 (334)
T d1dcea1         117 LSRLPEPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDS  169 (334)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHHHHHT
T ss_pred             HHHhccccHHHHHHHHHHHHhhC--chhhhhhhhHHHHHHHhccccHHHHHHHHH
Confidence            777765  789999999988753  33223233 333566778999999988774

>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=87.00  E-value=1.6  Score=32.73  Aligned_cols=98  Identities=10%  Similarity=0.064  Sum_probs=63.2

Q ss_pred             HHHccchhhHHHHHHHHHHCCCCCC-hhHHHHHHHHHH----------HcCCHHHHHHHHHHhhhCCCCCCChhhHHHHH
Q 047178          119 LEKEQQWHRVVQVIKWMLSKGQGST-MGTCGQLIRALD----------MDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMI  187 (287)
Q Consensus       119 L~k~~~~~~A~qv~~~M~~~G~~pd-~~TYnaLI~~y~----------K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmI  187 (287)
                      |.+.+.+++|++.++.-++.  .|+ ..+|.-+=.+|.          ..+.+++|...|++..+.+  |....+|+.|=
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~--P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--PKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc--chhhHHHhhHH
Confidence            45677788998888887764  354 344444433343          3356789999999988754  22334677676


Q ss_pred             HHHHHcCC-----------HhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          188 AIYYRNNM-----------LERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       188 sgY~k~G~-----------~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      .+|...|.           +++|.+.|+...+  +.|+. .+|..-|
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~-~~~~~~L  126 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDN-THYLKSL  126 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTC-HHHHHHH
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCH-HHHHHHH
Confidence            77766543           5788888887765  46875 5444444

>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=86.89  E-value=0.67  Score=35.07  Aligned_cols=87  Identities=13%  Similarity=0.141  Sum_probs=56.8

Q ss_pred             HHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHH----------cCCHhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 047178          154 LDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYR----------NNMLERLIKLFKGLEAFDRKPPEKSIVQRVA  223 (287)
Q Consensus       154 y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k----------~G~~eeA~~Lf~eM~~~Gi~PD~~~Ty~sLI  223 (287)
                      |-+.+++++|...|++-...+-  .+...|+.+=.+|..          .+.+++|++.|++..+.  .|+...+|..+-
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P--~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNP--LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCC--cchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHH
Confidence            4566779999999999887652  222334444344443          35568899999988864  577667787777


Q ss_pred             HHHHhcCC-----------HHHHHHHHHHHhH
Q 047178          224 DAYEVLGL-----------LEEKERVLEKYKD  244 (287)
Q Consensus       224 ~a~~k~G~-----------leeA~~ll~~m~~  244 (287)
                      .+|...|.           +++|.+.|++...
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            77776653           3555555554443

>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=82.11  E-value=4.4  Score=27.78  Aligned_cols=60  Identities=12%  Similarity=-0.009  Sum_probs=44.1

Q ss_pred             HHHHHHHccchhhHHHHHHHHHHCC-----CCCC-hhHHHHHHHHHHHcCCHHHHHHHHHHhhhCC
Q 047178          115 ALLALEKEQQWHRVVQVIKWMLSKG-----QGST-MGTCGQLIRALDMDHRAEEAHKFWEKRIGID  174 (287)
Q Consensus       115 ai~~L~k~~~~~~A~qv~~~M~~~G-----~~pd-~~TYnaLI~~y~K~G~leeA~~lF~eM~~~g  174 (287)
                      +=..+.+.|++.+|++.|++-++..     ..++ ..+|+-|=.+|.+.|+.++|...|++..+.+
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            3445678889999988887765421     1122 3568888889999999999999999988754

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=80.30  E-value=8.6  Score=29.76  Aligned_cols=60  Identities=5%  Similarity=-0.038  Sum_probs=24.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHhhhCCCCCCChhhHHHHHHHHHHcCCHhHHHHHHHHHHHCCC
Q 047178          150 LIRALDMDHRAEEAHKFWEKRIGIDLHSVPWQLCKSMIAIYYRNNMLERLIKLFKGLEAFDR  211 (287)
Q Consensus       150 LI~~y~K~G~leeA~~lF~eM~~~g~~sv~~~tyNsmIsgY~k~G~~eeA~~Lf~eM~~~Gi  211 (287)
                      -++.+.+.|+-|.-.++...+.+.+-. +| -..=.+=++|-+.|...+|-+|+.+--+.|+
T Consensus        92 ALd~lv~~~kkd~Ld~i~~~l~kn~~i-~~-~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          92 ALDILVIQGKRDKLEEIGREILKNNEV-SA-SILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC--CCS-CH-HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcCCC-CH-HHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            344444455544444444443332211 11 1122233445555555555555544444444