Citrus Sinensis ID: 043594

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80------
Protein Sequence
MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHHHHHcccccEEEcHHHHHHHHHHccHHHHHHHHccccccccEEHHHHHHHHHccccHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHc
Coil and Loop (DISEMBL)
mpvtscgstrnirggtqyQCLAVRSGFVANVYVGSSLISfcgkcgenidVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
Flexible Loop (DISEMBL)
mpvtscgstrnirggtqYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
Low Complexity Region (SEG)
MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
Disordered region (IsUnstruct)
***********IRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFI*
Disordered Region (DISOPRED)
MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
Disordered Region (DISEMBL)
********TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
Disordered Region (DISPRO)
MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFIV
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	86	2.2.26 [Sep-21-2011]
Q9ZUT4	500	Pentatricopeptide repeat-	yes	no	0.918	0.158	0.544	3e-21
Q9SZK1	559	Pentatricopeptide repeat-	no	no	0.813	0.125	0.442	8e-12
Q9LTF4	588	Putative pentatricopeptid	no	no	0.848	0.124	0.410	1e-11
Q1PFA6	613	Pentatricopeptide repeat-	no	no	0.779	0.109	0.441	3e-11
Q9CAA8	743	Putative pentatricopeptid	no	no	0.837	0.096	0.375	7e-11
Q9FHR3	550	Putative pentatricopeptid	no	no	0.860	0.134	0.378	3e-10
Q0WNP3	617	Pentatricopeptide repeat-	no	no	0.837	0.116	0.410	7e-10
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.767	0.094	0.361	9e-10
Q9SX45	596	Pentatricopeptide repeat-	no	no	0.837	0.120	0.397	2e-09
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.802	0.081	0.357	2e-09

>sp|Q9ZUT4|PP192_ARATH Pentatricopeptide repeat-containing protein At2g37320 OS=Arabidopsis thaliana GN=PCMP-E50 PE=2 SV=1

 Score =  100 bits (249), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 43/79 (54%), Positives = 59/79 (74%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           V SCG  R+ R G+ + CLA++ GF+++VY+GSSL+      GE  + YK+FE+MP RNV
Sbjct: 127 VRSCGLNRDFRTGSGFHCLALKGGFISDVYLGSSLVVLYRDSGEVENAYKVFEEMPERNV 186

Query: 63  VSWTAIIAAFAQEWEVDMC 81
           VSWTA+I+ FAQEW VD+C
Sbjct: 187 VSWTAMISGFAQEWRVDIC 205

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZK1|PP355_ARATH Pentatricopeptide repeat-containing protein At4g38010 OS=Arabidopsis thaliana GN=PCMP-E45 PE=3 SV=1

 Score = 68.9 bits (167), Expect = 8e-12,   Method: Composition-based stats.
 Identities = 31/70 (44%), Positives = 44/70 (62%)

Query: 5   SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVS 64
           +CG    IR G Q   +  + GF  ++YV +SL+ F G CGE+ +  K+F +MPVR+VVS
Sbjct: 115 ACGKFSGIREGKQIHGIVTKMGFYDDIYVQNSLVHFYGVCGESRNACKVFGEMPVRDVVS 174

Query: 65  WTAIIAAFAQ 74
           WT II  F +
Sbjct: 175 WTGIITGFTR 184

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTF4|PP429_ARATH Putative pentatricopeptide repeat-containing protein At5g52630 OS=Arabidopsis thaliana GN=PCMP-H52 PE=3 SV=1

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 30/73 (41%), Positives = 46/73 (63%)

Query: 5   SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVS 64
           SC        G    CL++++G+ A+V+VGSSL+    KCGE +   KMF++MP RNVV+
Sbjct: 125 SCAILSRCDIGRSVHCLSMKTGYDADVFVGSSLVDMYAKCGEIVYARKMFDEMPQRNVVT 184

Query: 65  WTAIIAAFAQEWE 77
           W+ ++  +AQ  E
Sbjct: 185 WSGMMYGYAQMGE 197

Arabidopsis thaliana (taxid: 3702)

>sp|Q1PFA6|PP144_ARATH Pentatricopeptide repeat-containing protein At2g02750 OS=Arabidopsis thaliana GN=PCMP-E22 PE=2 SV=2

 Score = 67.4 bits (163), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 30/68 (44%), Positives = 45/68 (66%)

Query: 7   GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWT 66
           G   +I GG Q  CLA++SGF   VYVG+SL+S   +CGE +   +MFEK+P ++VV++ 
Sbjct: 140 GGCGDIEGGMQLHCLAMKSGFEMEVYVGTSLVSMYSRCGEWVLAARMFEKVPHKSVVTYN 199

Query: 67  AIIAAFAQ 74
           A I+   +
Sbjct: 200 AFISGLME 207

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAA8|PP108_ARATH Putative pentatricopeptide repeat-containing protein At1g68930 OS=Arabidopsis thaliana GN=PCMP-H22 PE=3 SV=1

 Score = 65.9 bits (159), Expect = 7e-11,   Method: Composition-based stats.
 Identities = 27/72 (37%), Positives = 49/72 (68%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           +++C +  ++  G+Q+   A+ SG +  V V +SL++  GKCG+  D  ++F +M VR+ 
Sbjct: 378 ISACANVSSLEEGSQFHGKAITSGLIHYVTVSNSLVTLYGKCGDIDDSTRLFNEMNVRDA 437

Query: 63  VSWTAIIAAFAQ 74
           VSWTA+++A+AQ
Sbjct: 438 VSWTAMVSAYAQ 449

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHR3|PP403_ARATH Putative pentatricopeptide repeat-containing protein At5g37570 OS=Arabidopsis thaliana GN=PCMP-E37 PE=3 SV=1

 Score = 63.9 bits (154), Expect = 3e-10,   Method: Composition-based stats.
 Identities = 28/74 (37%), Positives = 44/74 (59%)

Query: 6   CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSW 65
           C +   +R G+    L +R GF  +V VG+S + F GKC +     K+F +MP RN VSW
Sbjct: 120 CSNNGQVRVGSSVHGLVLRIGFDKDVVVGTSFVDFYGKCKDLFSARKVFGEMPERNAVSW 179

Query: 66  TAIIAAFAQEWEVD 79
           TA++ A+ +  E++
Sbjct: 180 TALVVAYVKSGELE 193

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WNP3|PP319_ARATH Pentatricopeptide repeat-containing protein At4g18520 OS=Arabidopsis thaliana GN=PCMP-A2 PE=2 SV=1

 Score = 62.8 bits (151), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 30/73 (41%), Positives = 44/73 (60%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           + +C   + +R G Q   L V+     +V+VG+SL+    KCGE  D  K+F+ M  RN 
Sbjct: 291 LKACSEEKALRFGRQVHSLVVKRMIKTDVFVGTSLMDMYAKCGEISDCRKVFDGMSNRNT 350

Query: 63  VSWTAIIAAFAQE 75
           V+WT+IIAA A+E
Sbjct: 351 VTWTSIIAAHARE 363

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIT7|PP151_ARATH Pentatricopeptide repeat-containing protein At2g13600 OS=Arabidopsis thaliana GN=PCMP-E76 PE=3 SV=1

 Score = 62.4 bits (150), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 26/72 (36%), Positives = 44/72 (61%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           +++C    ++  G Q   L  +S F+++VY+GS+L+    KCG   D  ++F++M  RNV
Sbjct: 159 LSACSGLNDMNKGVQVHSLIAKSPFLSDVYIGSALVDMYSKCGNVNDAQRVFDEMGDRNV 218

Query: 63  VSWTAIIAAFAQ 74
           VSW ++I  F Q
Sbjct: 219 VSWNSLITCFEQ 230

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX45|PPR75_ARATH Pentatricopeptide repeat-containing protein At1g50270 OS=Arabidopsis thaliana GN=PCMP-E42 PE=2 SV=1

 Score = 61.6 bits (148), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 29/73 (39%), Positives = 45/73 (61%), Gaps = 1/73 (1%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFV-ANVYVGSSLISFCGKCGENIDVYKMFEKMPVRN 61
           + + G   ++R G     L + +G V  +V++GSSL+   GKC    D  K+F++MP RN
Sbjct: 211 LKAAGKVEDVRFGRSVHGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRN 270

Query: 62  VVSWTAIIAAFAQ 74
           VV+WTA+IA + Q
Sbjct: 271 VVTWTALIAGYVQ 283

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFL5|PP390_ARATH Pentatricopeptide repeat-containing protein At5g16860 OS=Arabidopsis thaliana GN=PCMP-H92 PE=2 SV=1

 Score = 60.8 bits (146), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 25/70 (35%), Positives = 47/70 (67%)

Query: 5   SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVS 64
           +CG   ++R G     L++ +GF++NV+VG++L++   +C    D  K+F++M V +VVS
Sbjct: 136 ACGEISSVRCGESAHALSLVTGFISNVFVGNALVAMYSRCRSLSDARKVFDEMSVWDVVS 195

Query: 65  WTAIIAAFAQ 74
           W +II ++A+
Sbjct: 196 WNSIIESYAK 205

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	86
224140139	526	predicted protein [Populus trichocarpa]	0.918	0.150	0.670	2e-28
449448934	524	PREDICTED: pentatricopeptide repeat-cont	0.860	0.141	0.671	5e-26
297741511	1400	unnamed protein product [Vitis vinifera]	0.883	0.054	0.657	4e-25
357508177	487	Pentatricopeptide repeat-containing prot	0.883	0.156	0.684	9e-25
356564808	501	PREDICTED: pentatricopeptide repeat-cont	0.918	0.157	0.670	1e-24
359481497	510	PREDICTED: pentatricopeptide repeat-cont	0.883	0.149	0.657	1e-24
255568478	501	pentatricopeptide repeat-containing prot	0.837	0.143	0.597	3e-20
15228119	500	pentatricopeptide repeat-containing prot	0.918	0.158	0.544	1e-19
297823557	500	pentatricopeptide repeat-containing prot	0.918	0.158	0.518	3e-18
357127969	567	PREDICTED: pentatricopeptide repeat-cont	0.918	0.139	0.430	3e-12

>gi|224140139|ref|XP_002323442.1| predicted protein [Populus trichocarpa] gi|222868072|gb|EEF05203.1| predicted protein [Populus trichocarpa]

 Score =  129 bits (324), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 53/79 (67%), Positives = 69/79 (87%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           V+SC STR++RGG QY CLA+ +GF+AN Y+GSSL++F GKCGE  + YK+F++MPVRNV
Sbjct: 135 VSSCASTRDLRGGIQYHCLAISAGFIANAYIGSSLVTFYGKCGELDNAYKVFKEMPVRNV 194

Query: 63  VSWTAIIAAFAQEWEVDMC 81
           VSWTAII+ FAQ+W+VDMC
Sbjct: 195 VSWTAIISGFAQDWQVDMC 213

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449448934|ref|XP_004142220.1| PREDICTED: pentatricopeptide repeat-containing protein At2g37320-like [Cucumis sativus] gi|449502632|ref|XP_004161699.1| PREDICTED: pentatricopeptide repeat-containing protein At2g37320-like [Cucumis sativus]

 Score =  121 bits (304), Expect = 5e-26,   Method: Composition-based stats.
 Identities = 51/76 (67%), Positives = 64/76 (84%)

Query: 6   CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSW 65
           C S RN+RGG QY  +A+R+GF+ANVYVGSSL+S  GKCGE  + Y++F++MPVRNVVSW
Sbjct: 140 CNSQRNLRGGIQYHSVAIRTGFIANVYVGSSLVSLYGKCGELSNAYRVFDEMPVRNVVSW 199

Query: 66  TAIIAAFAQEWEVDMC 81
           TAIIA FA EW+V+MC
Sbjct: 200 TAIIAGFAVEWQVNMC 215

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741511|emb|CBI32643.3| unnamed protein product [Vitis vinifera]

 Score =  118 bits (296), Expect = 4e-25,   Method: Composition-based stats.
 Identities = 50/76 (65%), Positives = 61/76 (80%)

Query: 6    CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSW 65
            C S+R+++ G Q+ CLA+R+GFV NVYVGS LISF  KCGE    Y++FE+MPV+NVVSW
Sbjct: 984  CASSRSLKSGVQFHCLAIRTGFVGNVYVGSCLISFYSKCGELCHAYRVFEEMPVKNVVSW 1043

Query: 66   TAIIAAFAQEWEVDMC 81
            TAIIA FAQEW VD C
Sbjct: 1044 TAIIAGFAQEWLVDGC 1059

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357508177|ref|XP_003624377.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355499392|gb|AES80595.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  117 bits (293), Expect = 9e-25,   Method: Composition-based stats.
 Identities = 52/76 (68%), Positives = 60/76 (78%)

Query: 6   CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSW 65
           CGS R+  GG QY CLA+R GF+ANVYVGSSLIS   +CG   D Y++F++M VRNVVSW
Sbjct: 118 CGSKRDFYGGIQYHCLAIRIGFIANVYVGSSLISLYSRCGLLGDAYRVFDEMSVRNVVSW 177

Query: 66  TAIIAAFAQEWEVDMC 81
           TAIIA FAQEW VDMC
Sbjct: 178 TAIIAGFAQEWRVDMC 193

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564808|ref|XP_003550640.1| PREDICTED: pentatricopeptide repeat-containing protein At2g37320-like [Glycine max]

 Score =  117 bits (292), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 53/79 (67%), Positives = 63/79 (79%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           V+SCGS R++ GG QY CLA+ +GFVA+VYVGSSLIS   +C    D  ++FE+MPVRNV
Sbjct: 114 VSSCGSKRDLWGGIQYHCLAITTGFVASVYVGSSLISLYSRCAFLGDACRVFEEMPVRNV 173

Query: 63  VSWTAIIAAFAQEWEVDMC 81
           VSWTAIIA FAQEW VDMC
Sbjct: 174 VSWTAIIAGFAQEWHVDMC 192

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481497|ref|XP_002273989.2| PREDICTED: pentatricopeptide repeat-containing protein At2g37320-like [Vitis vinifera]

 Score =  117 bits (292), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 50/76 (65%), Positives = 61/76 (80%)

Query: 6   CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSW 65
           C S+R+++ G Q+ CLA+R+GFV NVYVGS LISF  KCGE    Y++FE+MPV+NVVSW
Sbjct: 123 CASSRSLKSGVQFHCLAIRTGFVGNVYVGSCLISFYSKCGELCHAYRVFEEMPVKNVVSW 182

Query: 66  TAIIAAFAQEWEVDMC 81
           TAIIA FAQEW VD C
Sbjct: 183 TAIIAGFAQEWLVDGC 198

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255568478|ref|XP_002525213.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223535510|gb|EEF37179.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  102 bits (254), Expect = 3e-20,   Method: Composition-based stats.
 Identities = 43/72 (59%), Positives = 59/72 (81%)

Query: 10  RNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAII 69
           R++ GG Q+ CLA+ SGF++N YVGSSLI+  GKCG+  + +K+F +MPVRNVV+WTAII
Sbjct: 120 RDLPGGIQFHCLAITSGFISNSYVGSSLITLYGKCGKLDNAHKLFHEMPVRNVVTWTAII 179

Query: 70  AAFAQEWEVDMC 81
           + FAQE +VD+C
Sbjct: 180 SGFAQECQVDVC 191

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15228119|ref|NP_181269.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75216847|sp|Q9ZUT4.1|PP192_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g37320 gi|4056486|gb|AAC98052.1| hypothetical protein [Arabidopsis thaliana] gi|37202040|gb|AAQ89635.1| At2g37320 [Arabidopsis thaliana] gi|51969760|dbj|BAD43572.1| hypothetical protein [Arabidopsis thaliana] gi|330254289|gb|AEC09383.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  100 bits (249), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 43/79 (54%), Positives = 59/79 (74%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           V SCG  R+ R G+ + CLA++ GF+++VY+GSSL+      GE  + YK+FE+MP RNV
Sbjct: 127 VRSCGLNRDFRTGSGFHCLALKGGFISDVYLGSSLVVLYRDSGEVENAYKVFEEMPERNV 186

Query: 63  VSWTAIIAAFAQEWEVDMC 81
           VSWTA+I+ FAQEW VD+C
Sbjct: 187 VSWTAMISGFAQEWRVDIC 205

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297823557|ref|XP_002879661.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297325500|gb|EFH55920.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score = 95.5 bits (236), Expect = 3e-18,   Method: Composition-based stats.
 Identities = 41/79 (51%), Positives = 58/79 (73%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           V SCGS R+ R G+ + CLA++ GF+++VY+GSSL+      GE  + +K+F +MP  NV
Sbjct: 127 VRSCGSNRDFRTGSGFHCLALKGGFISDVYLGSSLVVLYRDSGEVENAHKVFAEMPDNNV 186

Query: 63  VSWTAIIAAFAQEWEVDMC 81
           VSWTA+I+ FAQEW VD+C
Sbjct: 187 VSWTAMISGFAQEWRVDIC 205

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357127969|ref|XP_003565649.1| PREDICTED: pentatricopeptide repeat-containing protein At2g37320-like [Brachypodium distachyon]

 Score = 75.9 bits (185), Expect = 3e-12,   Method: Composition-based stats.
 Identities = 34/79 (43%), Positives = 53/79 (67%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           ++ C   ++IRGG Q   L V+ G+   V  G+SLIS   +C +  + Y++F+ MPVRNV
Sbjct: 187 ISFCAVKQSIRGGGQLHALLVKVGYDLAVLSGTSLISLYARCYQLENAYQVFQNMPVRNV 246

Query: 63  VSWTAIIAAFAQEWEVDMC 81
           VSWTA+I+ +AQ+ +V+ C
Sbjct: 247 VSWTALISGYAQDNQVEPC 265

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	86
TAIR|locus:2049736	500	AT2G37320 "AT2G37320" [Arabido	0.918	0.158	0.544	1.4e-19
TAIR|locus:2121055	559	AT4G38010 "AT4G38010" [Arabido	0.848	0.130	0.445	3.1e-11
TAIR|locus:2149664	588	MEF1 "mitochondrial RNA editin	0.848	0.124	0.410	1.2e-10
TAIR|locus:2058812	613	AT2G02750 [Arabidopsis thalian	0.790	0.110	0.441	1.6e-10
TAIR|locus:2205425	743	AT1G68930 "AT1G68930" [Arabido	0.837	0.096	0.375	5.7e-10
TAIR|locus:2151694	550	AT5G37570 "AT5G37570" [Arabido	0.860	0.134	0.378	5.9e-10
TAIR|locus:2054131	697	SLO2 "AT2G13600" [Arabidopsis	0.837	0.103	0.361	2.3e-09
TAIR|locus:2011892	596	AT1G50270 "AT1G50270" [Arabido	0.813	0.117	0.408	3.8e-09
TAIR|locus:2124603	617	AT4G18520 [Arabidopsis thalian	0.825	0.115	0.422	4e-09
TAIR|locus:2040565	501	AT2G36730 [Arabidopsis thalian	0.906	0.155	0.346	6.1e-09

TAIR|locus:2049736 AT2G37320 "AT2G37320" [Arabidopsis thaliana (taxid:3702)]

 Score = 240 (89.5 bits), Expect = 1.4e-19, P = 1.4e-19
 Identities = 43/79 (54%), Positives = 59/79 (74%)

Query:     3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
             V SCG  R+ R G+ + CLA++ GF+++VY+GSSL+      GE  + YK+FE+MP RNV
Sbjct:   127 VRSCGLNRDFRTGSGFHCLALKGGFISDVYLGSSLVVLYRDSGEVENAYKVFEEMPERNV 186

Query:    63 VSWTAIIAAFAQEWEVDMC 81
             VSWTA+I+ FAQEW VD+C
Sbjct:   187 VSWTAMISGFAQEWRVDIC 205

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2121055 AT4G38010 "AT4G38010" [Arabidopsis thaliana (taxid:3702)]

 Score = 164 (62.8 bits), Expect = 3.1e-11, P = 3.1e-11
 Identities = 33/74 (44%), Positives = 46/74 (62%)

Query:     2 PV-TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVR 60
             PV  +CG    IR G Q   +  + GF  ++YV +SL+ F G CGE+ +  K+F +MPVR
Sbjct:   111 PVFKACGKFSGIREGKQIHGIVTKMGFYDDIYVQNSLVHFYGVCGESRNACKVFGEMPVR 170

Query:    61 NVVSWTAIIAAFAQ 74
             +VVSWT II  F +
Sbjct:   171 DVVSWTGIITGFTR 184

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2149664 MEF1 "mitochondrial RNA editing factor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 159 (61.0 bits), Expect = 1.2e-10, P = 1.2e-10
 Identities = 30/73 (41%), Positives = 46/73 (63%)

Query:     5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVS 64
             SC        G    CL++++G+ A+V+VGSSL+    KCGE +   KMF++MP RNVV+
Sbjct:   125 SCAILSRCDIGRSVHCLSMKTGYDADVFVGSSLVDMYAKCGEIVYARKMFDEMPQRNVVT 184

Query:    65 WTAIIAAFAQEWE 77
             W+ ++  +AQ  E
Sbjct:   185 WSGMMYGYAQMGE 197

GO:0005739 "mitochondrion" evidence=ISM

GO:0016554 "cytidine to uridine editing" evidence=IMP

TAIR|locus:2058812 AT2G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 1.6e-10, P = 1.6e-10
 Identities = 30/68 (44%), Positives = 45/68 (66%)

Query:     7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWT 66
             G   +I GG Q  CLA++SGF   VYVG+SL+S   +CGE +   +MFEK+P ++VV++ 
Sbjct:   140 GGCGDIEGGMQLHCLAMKSGFEMEVYVGTSLVSMYSRCGEWVLAARMFEKVPHKSVVTYN 199

Query:    67 AIIAAFAQ 74
             A I+   +
Sbjct:   200 AFISGLME 207

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2205425 AT1G68930 "AT1G68930" [Arabidopsis thaliana (taxid:3702)]

 Score = 154 (59.3 bits), Expect = 5.7e-10, P = 5.7e-10
 Identities = 27/72 (37%), Positives = 49/72 (68%)

Query:     3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
             +++C +  ++  G+Q+   A+ SG +  V V +SL++  GKCG+  D  ++F +M VR+ 
Sbjct:   378 ISACANVSSLEEGSQFHGKAITSGLIHYVTVSNSLVTLYGKCGDIDDSTRLFNEMNVRDA 437

Query:    63 VSWTAIIAAFAQ 74
             VSWTA+++A+AQ
Sbjct:   438 VSWTAMVSAYAQ 449

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151694 AT5G37570 "AT5G37570" [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 5.9e-10, P = 5.9e-10
 Identities = 28/74 (37%), Positives = 44/74 (59%)

Query:     6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSW 65
             C +   +R G+    L +R GF  +V VG+S + F GKC +     K+F +MP RN VSW
Sbjct:   120 CSNNGQVRVGSSVHGLVLRIGFDKDVVVGTSFVDFYGKCKDLFSARKVFGEMPERNAVSW 179

Query:    66 TAIIAAFAQEWEVD 79
             TA++ A+ +  E++
Sbjct:   180 TALVVAYVKSGELE 193

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2054131 SLO2 "AT2G13600" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 2.3e-09, P = 2.3e-09
 Identities = 26/72 (36%), Positives = 44/72 (61%)

Query:     3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
             +++C    ++  G Q   L  +S F+++VY+GS+L+    KCG   D  ++F++M  RNV
Sbjct:   159 LSACSGLNDMNKGVQVHSLIAKSPFLSDVYIGSALVDMYSKCGNVNDAQRVFDEMGDRNV 218

Query:    63 VSWTAIIAAFAQ 74
             VSW ++I  F Q
Sbjct:   219 VSWNSLITCFEQ 230

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0010182 "sugar mediated signaling pathway" evidence=IMP

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

TAIR|locus:2011892 AT1G50270 "AT1G50270" [Arabidopsis thaliana (taxid:3702)]

 Score = 145 (56.1 bits), Expect = 3.8e-09, P = 3.8e-09
 Identities = 29/71 (40%), Positives = 44/71 (61%)

Query:     5 SCGSTRNIRGGTQYQCLAVRSGFV-ANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVV 63
             + G   ++R G     L + +G V  +V++GSSL+   GKC    D  K+F++MP RNVV
Sbjct:   213 AAGKVEDVRFGRSVHGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVV 272

Query:    64 SWTAIIAAFAQ 74
             +WTA+IA + Q
Sbjct:   273 TWTALIAGYVQ 283

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007059 "chromosome segregation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2124603 AT4G18520 [Arabidopsis thaliana (taxid:3702)]

 Score = 145 (56.1 bits), Expect = 4.0e-09, P = 4.0e-09
 Identities = 30/71 (42%), Positives = 43/71 (60%)

Query:     5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVS 64
             +C   + +R G Q   L V+     +V+VG+SL+    KCGE  D  K+F+ M  RN V+
Sbjct:   293 ACSEEKALRFGRQVHSLVVKRMIKTDVFVGTSLMDMYAKCGEISDCRKVFDGMSNRNTVT 352

Query:    65 WTAIIAAFAQE 75
             WT+IIAA A+E
Sbjct:   353 WTSIIAAHARE 363

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2040565 AT2G36730 [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 6.1e-09, P = 6.1e-09
 Identities = 27/78 (34%), Positives = 46/78 (58%)

Query:     5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVS 64
             +C S   +  G Q Q   ++ GF  +VYVG++LI   G C +  D  K+F++M  RNVVS
Sbjct:   122 ACASFLGLTAGRQIQVEVLKHGFDFDVYVGNNLIHLYGTCKKTSDARKVFDEMTERNVVS 181

Query:    65 WTAIIAAFAQEWEVDMCY 82
             W +I+ A  +  ++++ +
Sbjct:   182 WNSIMTALVENGKLNLVF 199

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.XVI.2589.1 hypothetical protein (467 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	86
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-11
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-09
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.004

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

 Score = 56.4 bits (136), Expect = 6e-11
 Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 3/71 (4%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
               GS    R G Q  C  +++G V + +V  +LI    KCG+  D   +F+ MP +  
Sbjct: 234 SAGLGS---ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTT 290

Query: 63  VSWTAIIAAFA 73
           V+W +++A +A
Sbjct: 291 VAWNSMLAGYA 301

Length = 697

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

 Score = 55.2 bits (133), Expect = 1e-10
 Identities = 24/77 (31%), Positives = 43/77 (55%), Gaps = 3/77 (3%)

Query: 5   SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVS 64
           +CG   ++  G +     VR GF  +V V ++LI+   KCG+ +    +F++MP R+ +S
Sbjct: 196 TCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS 255

Query: 65  WTAIIAAFAQEWEVDMC 81
           W A+I+ +   +E   C
Sbjct: 256 WNAMISGY---FENGEC 269

Length = 857

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

 Score = 50.6 bits (121), Expect = 6e-09
 Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 4/76 (5%)

Query: 1   MPVTS----CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEK 56
           M +TS    C    + R G +     V++GF  +V V +SLI      G   +  K+F +
Sbjct: 289 MTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR 348

Query: 57  MPVRNVVSWTAIIAAF 72
           M  ++ VSWTA+I+ +
Sbjct: 349 METKDAVSWTAMISGY 364

Length = 857

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

 Score = 47.2 bits (112), Expect = 9e-08
 Identities = 21/70 (30%), Positives = 38/70 (54%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           +++C    ++  G +   LA R G ++ V V ++LI    KC       ++F  +P ++V
Sbjct: 396 LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

Query: 63  VSWTAIIAAF 72
           +SWT+IIA  
Sbjct: 456 ISWTSIIAGL 465

Length = 857

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

 Score = 46.4 bits (110), Expect = 2e-07
 Identities = 16/51 (31%), Positives = 31/51 (60%)

Query: 23  VRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFA 73
           +R+GF  ++   ++L+    K G   D   +F++MP +N++SW A+IA + 
Sbjct: 352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYG 402

Length = 697

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

 Score = 42.9 bits (101), Expect = 2e-06
 Identities = 22/70 (31%), Positives = 36/70 (51%)

Query: 3   VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNV 62
           V +C + ++IR           SGF  + Y+ + ++    KCG  ID  ++F++MP RN+
Sbjct: 130 VEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL 189

Query: 63  VSWTAIIAAF 72
            SW  II   
Sbjct: 190 ASWGTIIGGL 199

Length = 697

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

 Score = 35.6 bits (82), Expect = 0.001
 Identities = 20/73 (27%), Positives = 40/73 (54%), Gaps = 4/73 (5%)

Query: 1   MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVR 60
           M ++ C S+++I G  +   L   +G  A+  + ++LIS C K G+   ++++F +M   
Sbjct: 442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA 501

Query: 61  ----NVVSWTAII 69
               NV ++ A+I
Sbjct: 502 GVEANVHTFGALI 514

Length = 1060

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

 Score = 34.1 bits (78), Expect = 0.004
 Identities = 13/44 (29%), Positives = 28/44 (63%)

Query: 31  VYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQ 74
           V +G++++S   + GE +  + +F KMP R++ SW  ++  +A+
Sbjct: 121 VRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAK 164

Length = 857

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	86
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.89
PLN03077	857	Protein ECB2; Provisional	99.85
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.85
PLN03077	857	Protein ECB2; Provisional	99.84
PLN03218	1060	maturation of RBCL 1; Provisional	99.82
PLN03218	1060	maturation of RBCL 1; Provisional	99.81
PF13041	50	PPR_2: PPR repeat family	99.7
PF12854	34	PPR_1: PPR repeat	99.55
PF13041	50	PPR_2: PPR repeat family	99.51
PF12854	34	PPR_1: PPR repeat	99.24
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.74
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.54
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.53
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.5
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.5
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.41
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.4
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.38
KOG4422	625	consensus Uncharacterized conserved protein [Funct	98.12
KOG4422	625	consensus Uncharacterized conserved protein [Funct	97.97
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	97.87
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	97.82
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	97.81
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.78
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.78
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.73
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.71
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.67
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.65
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.58
PRK15359	144	type III secretion system chaperone protein SscB;	97.57
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.57
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	97.56
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.52
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	97.21
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	97.2
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.1
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	97.09
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.05
PRK11189	296	lipoprotein NlpI; Provisional	97.01
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.0
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.96
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.95
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	96.84
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.84
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	96.82
KOG1915	677	consensus Cell cycle control protein (crooked neck	96.72
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	96.69
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	96.67
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	96.64
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	96.63
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	96.59
PRK12370	553	invasion protein regulator; Provisional	96.59
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.57
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.53
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	96.52
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.51
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	96.51
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	96.43
PRK12370	553	invasion protein regulator; Provisional	96.37
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.31
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.3
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	96.26
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.25
PF12688	120	TPR_5: Tetratrico peptide repeat	96.24
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	96.18
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	96.17
PRK14574	822	hmsH outer membrane protein; Provisional	96.16
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.15
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	96.14
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.13
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	96.12
PRK15359	144	type III secretion system chaperone protein SscB;	96.1
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.05
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.94
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	95.81
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	95.8
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	95.78
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	95.68
PRK14574	822	hmsH outer membrane protein; Provisional	95.66
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	95.6
PF13371	73	TPR_9: Tetratricopeptide repeat	95.59
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	95.56
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.47
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	95.35
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.33
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.31
PF13371	73	TPR_9: Tetratricopeptide repeat	95.17
PRK11189	296	lipoprotein NlpI; Provisional	95.12
KOG3616	1636	consensus Selective LIM binding factor [Transcript	95.04
KOG3785	557	consensus Uncharacterized conserved protein [Funct	94.94
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	94.9
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	94.87
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	94.81
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	94.69
KOG3941	406	consensus Intermediate in Toll signal transduction	94.66
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.61
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	94.58
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	94.44
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	94.38
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	94.34
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	94.3
COG4783	484	Putative Zn-dependent protease, contains TPR repea	94.17
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	94.12
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	94.11
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.05
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	94.0
TIGR02552	135	LcrH_SycD type III secretion low calcium response	93.92
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	93.83
KOG2003	840	consensus TPR repeat-containing protein [General f	93.77
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.62
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	93.54
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.53
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	93.48
KOG2076	895	consensus RNA polymerase III transcription factor	93.47
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	93.47
PRK10803	263	tol-pal system protein YbgF; Provisional	93.3
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	93.29
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	93.23
PF13428	44	TPR_14: Tetratricopeptide repeat	93.2
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	93.07
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	93.03
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	92.79
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	92.54
PRK10370	198	formate-dependent nitrite reductase complex subuni	92.53
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	92.41
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.37
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	92.21
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	92.17
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	92.14
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.1
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.05
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	91.89
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.56
KOG3785	557	consensus Uncharacterized conserved protein [Funct	91.43
COG4783	484	Putative Zn-dependent protease, contains TPR repea	91.41
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	91.39
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	91.34
KOG0553	304	consensus TPR repeat-containing protein [General f	91.0
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	90.78
KOG1915	677	consensus Cell cycle control protein (crooked neck	90.69
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	90.28
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	90.04
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	89.97
KOG3616	1636	consensus Selective LIM binding factor [Transcript	89.81
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	89.78
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	89.57
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	89.51
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	89.02
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.61
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	88.53
PF12688	120	TPR_5: Tetratrico peptide repeat	88.27
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.16
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	87.99
PF13431	34	TPR_17: Tetratricopeptide repeat	87.96
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	87.87
KOG2047	835	consensus mRNA splicing factor [RNA processing and	87.52
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	87.28
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	87.14
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	87.01
PF09477	116	Type_III_YscG: Bacterial type II secretion system	86.86
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	86.23
KOG1126	638	consensus DNA-binding cell division cycle control	86.21
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	85.93
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	85.87
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	85.69
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	85.6
COG3629	280	DnrI DNA-binding transcriptional activator of the	85.49
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.24
KOG1129	478	consensus TPR repeat-containing protein [General f	84.74
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	84.73
KOG0547	606	consensus Translocase of outer mitochondrial membr	84.68
KOG1126	638	consensus DNA-binding cell division cycle control	84.1
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	83.67
PRK14720	906	transcript cleavage factor/unknown domain fusion p	83.66
KOG1125	579	consensus TPR repeat-containing protein [General f	83.62
PRK10803	263	tol-pal system protein YbgF; Provisional	83.51
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	83.08
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	82.91
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	82.44
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.38
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	82.12
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	82.03
KOG3941	406	consensus Intermediate in Toll signal transduction	81.79
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	81.06
PRK15331	165	chaperone protein SicA; Provisional	81.05
PF13512	142	TPR_18: Tetratricopeptide repeat	81.05
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	80.72
PF13929	292	mRNA_stabil: mRNA stabilisation	80.37
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	80.13

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

Probab=99.89  E-value=2.2e-23  Score=145.25  Aligned_cols=86  Identities=20%  Similarity=0.397  Sum_probs=83.0

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhH
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ++|++|++.|.+++|+++|++|.+.|+.||..++|+||++|+++|++++|.++|++|.+||++|||+||.+|++.|+.++
T Consensus       330 ~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~  409 (697)
T PLN03081        330 IMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTK  409 (697)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccC
Q 043594           81 CYTFIV   86 (86)
Q Consensus        81 a~~~f~   86 (86)
                      |+++|+
T Consensus       410 A~~lf~  415 (697)
T PLN03081        410 AVEMFE  415 (697)
T ss_pred             HHHHHH
Confidence            999884

>PLN03077 Protein ECB2; Provisional

Probab=99.85  E-value=1.3e-21  Score=138.80  Aligned_cols=86  Identities=26%  Similarity=0.404  Sum_probs=82.2

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhH
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ++|++|++.|+++.|.++|.+|.+.|+.||..+||+||++|+++|++++|.++|++|++||+++||+||.+|++.|++++
T Consensus       293 ~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~  372 (857)
T PLN03077        293 SVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDK  372 (857)
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHH
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccC
Q 043594           81 CYTFIV   86 (86)
Q Consensus        81 a~~~f~   86 (86)
                      |+++|+
T Consensus       373 A~~lf~  378 (857)
T PLN03077        373 ALETYA  378 (857)
T ss_pred             HHHHHH
Confidence            999874

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

Probab=99.85  E-value=2.7e-21  Score=134.87  Aligned_cols=86  Identities=26%  Similarity=0.455  Sum_probs=83.2

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhH
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ++|.+|++.++++.+.++|..|.+.|+.||..+||+||++|+++|++++|.++|++|++||+++||+||++|++.|++++
T Consensus       128 ~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~  207 (697)
T PLN03081        128 ALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYRE  207 (697)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHH
Confidence            36889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccC
Q 043594           81 CYTFIV   86 (86)
Q Consensus        81 a~~~f~   86 (86)
                      |+++|+
T Consensus       208 A~~lf~  213 (697)
T PLN03081        208 AFALFR  213 (697)
T ss_pred             HHHHHH
Confidence            999884

>PLN03077 Protein ECB2; Provisional

Probab=99.84  E-value=6e-21  Score=135.45  Aligned_cols=86  Identities=26%  Similarity=0.467  Sum_probs=82.2

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhH
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ++|.+|++.|++++|.++|+.|.+.|+.|+..++|+||++|+++|++++|.++|++|.+||+++||+||.+|+++|+.++
T Consensus       394 ~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~e  473 (857)
T PLN03077        394 SVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFE  473 (857)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHH
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccC
Q 043594           81 CYTFIV   86 (86)
Q Consensus        81 a~~~f~   86 (86)
                      |+++|+
T Consensus       474 A~~lf~  479 (857)
T PLN03077        474 ALIFFR  479 (857)
T ss_pred             HHHHHH
Confidence            999884

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.82  E-value=1.7e-20  Score=135.43  Aligned_cols=84  Identities=25%  Similarity=0.418  Sum_probs=63.3

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC----CCChhhHHHHHHHHhhcCC
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP----VRNVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~t~~~li~~~~~~g~   77 (86)
                      +|++|++.|++++|.++|++|.+.|+.||..+||+||++|+++|++++|.++|++|.    .||++|||+||.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            567777777777777777777777777777777777777777777777777777775    4677777777777777777


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      +++|+++|
T Consensus       523 ~eeAl~lf  530 (1060)
T PLN03218        523 VAKAFGAY  530 (1060)
T ss_pred             HHHHHHHH
Confidence            77777665

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.81  E-value=4.2e-20  Score=133.40  Aligned_cols=85  Identities=15%  Similarity=0.208  Sum_probs=69.8

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC----CCChhhHHHHHHHHhhcCC
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP----VRNVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~t~~~li~~~~~~g~   77 (86)
                      +|++|++.|++++|.++|++|.+.|+.||..+|++||++|+++|++++|.++|++|.    .||+++||+||.+|++.|+
T Consensus       655 LI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~  734 (1060)
T PLN03218        655 LVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ  734 (1060)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence            677788888888888888888888888888888888888888888888888888884    5788888888888888888


Q ss_pred             hhHhhhccC
Q 043594           78 VDMCYTFIV   86 (86)
Q Consensus        78 ~~~a~~~f~   86 (86)
                      +++|.++|+
T Consensus       735 ~eeAlelf~  743 (1060)
T PLN03218        735 LPKALEVLS  743 (1060)
T ss_pred             HHHHHHHHH
Confidence            888887763

>PF13041 PPR_2: PPR repeat family

Probab=99.70  E-value=1.2e-17  Score=81.70  Aligned_cols=46  Identities=22%  Similarity=0.343  Sum_probs=43.7

Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHhhcCCC----CCChhhHHHHHHHHhh
Q 043594           29 ANVYVGSSLISFCGKCGENIDVYKMFEKMP----VRNVVSWTAIIAAFAQ   74 (86)
Q Consensus        29 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~t~~~li~~~~~   74 (86)
                      ||..+||++|++|++.|++++|.++|++|.    .||..|||+||++|+|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            899999999999999999999999999996    5999999999999986

>PF12854 PPR_1: PPR repeat

Probab=99.55  E-value=5.1e-15  Score=67.05  Aligned_cols=34  Identities=24%  Similarity=0.383  Sum_probs=32.2

Q ss_pred             HcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594           25 SGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus        25 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .|+.||..|||+||++||+.|++++|.++|++|+
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            4899999999999999999999999999999995

>PF13041 PPR_2: PPR repeat family

Probab=99.51  E-value=1.7e-14  Score=70.44  Aligned_cols=43  Identities=12%  Similarity=0.057  Sum_probs=41.3

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHh
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGK   43 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~   43 (86)
                      ++|++|++.|++++|.++|++|.+.|++||..||++||++|+|
T Consensus         8 ~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    8 TLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999999999999999999999999986

>PF12854 PPR_1: PPR repeat

Probab=99.24  E-value=6.6e-12  Score=56.72  Aligned_cols=29  Identities=17%  Similarity=0.369  Sum_probs=27.0

Q ss_pred             CCCChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           58 PVRNVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        58 ~~~~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      ..||++|||+||++|++.|++++|.++|+
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~   31 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFD   31 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            36999999999999999999999999984

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

Probab=98.74  E-value=4.6e-09  Score=45.71  Aligned_cols=30  Identities=30%  Similarity=0.317  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCCCCC
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMPVRN   61 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~~~~   61 (86)
                      ++||++|++|++.|++++|.++|++|++.+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            478999999999999999999999887643

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.54  E-value=4.5e-08  Score=43.34  Aligned_cols=31  Identities=6%  Similarity=0.060  Sum_probs=27.6

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchH
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANV   31 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~   31 (86)
                      ++|++|++.|++++|.++|.+|.+.|+.||.
T Consensus         5 ~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         5 TLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            4788999999999999999999999999873

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

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.53  E-value=4.2e-08  Score=43.43  Aligned_cols=28  Identities=21%  Similarity=0.230  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      .+||++|++|++.|++++|.++|++|.+
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~   28 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLE   28 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3789999999999999999999999864

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=98.50  E-value=3.8e-07  Score=59.85  Aligned_cols=80  Identities=5%  Similarity=-0.041  Sum_probs=39.0

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHhhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +.+.|++++|.+++.++.+.+-.....+++.+...|.+.|++++|...++++.  .|+...++.+...+.+.|++++|.+
T Consensus       224 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~  303 (389)
T PRK11788        224 ALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQA  303 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHH
Confidence            34455555555555555443221223344555555555555555555555443  2444444555555555555555554


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      +|
T Consensus       304 ~l  305 (389)
T PRK11788        304 LL  305 (389)
T ss_pred             HH
Confidence            43

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

Probab=98.50  E-value=5.9e-08  Score=42.07  Aligned_cols=24  Identities=8%  Similarity=0.296  Sum_probs=22.3

Q ss_pred             hhHHHHHHHHhhcCChhHhhhccC
Q 043594           63 VSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        63 ~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      +|||+||++|++.|++++|.++|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~   24 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFD   24 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHH
Confidence            589999999999999999999874

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.41  E-value=1e-07  Score=42.21  Aligned_cols=30  Identities=20%  Similarity=0.435  Sum_probs=25.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCCCCC
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMPVRN   61 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~~~~   61 (86)
                      .+||++|++|++.|+++.|.++|++|.+.+
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~g   31 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQG   31 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            588999999999999999999999887533

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.40  E-value=2.6e-07  Score=40.83  Aligned_cols=29  Identities=10%  Similarity=0.094  Sum_probs=27.3

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCc
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVA   29 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~   29 (86)
                      ++|.+|++.|+++.|.+++++|.+.|++|
T Consensus         6 ~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    6 ALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            37899999999999999999999999987

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.38  E-value=1.1e-06  Score=57.73  Aligned_cols=81  Identities=5%  Similarity=0.016  Sum_probs=69.2

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhh---cCC
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQ---EWE   77 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~---~g~   77 (86)
                      ..++.+.|++++|.+.+..+.+.  .|+..++..+...|.+.|++++|..+|+++.  .|+..+++.++..+..   .|+
T Consensus       256 ~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~  333 (389)
T PRK11788        256 MECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGR  333 (389)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCcc
Confidence            46778899999999999999886  4777777999999999999999999999875  4899999999988775   557


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      .++++.+|
T Consensus       334 ~~~a~~~~  341 (389)
T PRK11788        334 AKESLLLL  341 (389)
T ss_pred             chhHHHHH
Confidence            88887765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.12  E-value=6.5e-06  Score=55.96  Aligned_cols=71  Identities=20%  Similarity=0.268  Sum_probs=59.5

Q ss_pred             chhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHh----hcCCC----CCChhhHHHHHHHHhhcCChhHh
Q 043594           11 NIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKM----FEKMP----VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~----~~~m~----~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+..++++..+|....+.||..|+|+++++..+.|+++.|+.-    +-+|+    +|...+|.-+|.-+.|.++..+.
T Consensus       253 S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~  331 (625)
T KOG4422|consen  253 SYSVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKV  331 (625)
T ss_pred             HhhccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhh
Confidence            3455688999999999999999999999999999998887764    44554    68999999999999999887553

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.97  E-value=2.3e-05  Score=53.42  Aligned_cols=79  Identities=9%  Similarity=-0.030  Sum_probs=63.7

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC----CCChhhHHHHHHHHhhcCC
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP----VRNVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~t~~~li~~~~~~g~   77 (86)
                      ||.+.|+-...+.|.+++.+-.....+.+..++|.+|.+-+-.-.    .++..+|.    .||+.|+|++++...+.|+
T Consensus       213 mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~  288 (625)
T KOG4422|consen  213 MIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKFGK  288 (625)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHhcc
Confidence            678888888888999999988888888888999998865443222    56677775    4999999999999999999


Q ss_pred             hhHhhhc
Q 043594           78 VDMCYTF   84 (86)
Q Consensus        78 ~~~a~~~   84 (86)
                      ++.|..-
T Consensus       289 F~~ar~a  295 (625)
T KOG4422|consen  289 FEDARKA  295 (625)
T ss_pred             hHHHHHH
Confidence            9887653

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

Probab=97.87  E-value=3e-05  Score=56.32  Aligned_cols=63  Identities=19%  Similarity=0.191  Sum_probs=54.6

Q ss_pred             HHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC----------------------------CCChhhHHHH
Q 043594           17 QYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP----------------------------VRNVVSWTAI   68 (86)
Q Consensus        17 ~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----------------------------~~~~~t~~~l   68 (86)
                      ..+..+...|+.|+-+||..+|.-||..|+++.|- +|.-|+                            +|-.-||+.|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~L   89 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNL   89 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHH
Confidence            46788999999999999999999999999999998 777662                            2456689999


Q ss_pred             HHHHhhcCChhH
Q 043594           69 IAAFAQEWEVDM   80 (86)
Q Consensus        69 i~~~~~~g~~~~   80 (86)
                      ..+|.++||+..
T Consensus        90 l~ayr~hGDli~  101 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL  101 (1088)
T ss_pred             HHHHHhccchHH
Confidence            999999999864

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

Probab=97.82  E-value=7.5e-05  Score=52.66  Aligned_cols=78  Identities=10%  Similarity=-0.046  Sum_probs=38.2

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.+.|++++|.+++..+.+.. +.+..+|..+...|.+.|++++|...|+++.+  | +...|..+...|.+.|++++|.
T Consensus       577 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  655 (899)
T TIGR02917       577 YLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAI  655 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHH
Confidence            344455555555555554322 33444555555555555555555555554421  2 3344445555555555555554


Q ss_pred             hc
Q 043594           83 TF   84 (86)
Q Consensus        83 ~~   84 (86)
                      +.
T Consensus       656 ~~  657 (899)
T TIGR02917       656 TS  657 (899)
T ss_pred             HH
Confidence            44

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

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

Probab=97.81  E-value=8.3e-05  Score=52.43  Aligned_cols=19  Identities=0%  Similarity=-0.109  Sum_probs=7.3

Q ss_pred             HHHHHHhcCChHHHHHhhc
Q 043594           37 LISFCGKCGENIDVYKMFE   55 (86)
Q Consensus        37 li~~y~~~g~~~~A~~~~~   55 (86)
                      +...|.+.|++++|.+.|+
T Consensus       709 ~~~~~~~~g~~~~A~~~~~  727 (899)
T TIGR02917       709 EGDLYLRQKDYPAAIQAYR  727 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHH
Confidence            3333333333333333333

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.

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

Probab=97.78  E-value=8.8e-05  Score=50.43  Aligned_cols=77  Identities=9%  Similarity=0.065  Sum_probs=35.7

Q ss_pred             cCCchhHHHHHHHHHHHH--cCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC----CChhhHHHHHHHHhhcCChhHh
Q 043594            8 STRNIRGGTQYQCLAVRS--GFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV----RNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ...++++++.+.-.....  ....-+.|..++|.-|.+.|..+++..+++.=..    ||.+|+|.||+.+.+.|++..|
T Consensus        78 ~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A  157 (429)
T PF10037_consen   78 SKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSA  157 (429)
T ss_pred             CHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHH
Confidence            333444444444333332  2222233444555555555555555555544321    4555555555555555555555


Q ss_pred             hhc
Q 043594           82 YTF   84 (86)
Q Consensus        82 ~~~   84 (86)
                      .++
T Consensus       158 ~~V  160 (429)
T PF10037_consen  158 AKV  160 (429)
T ss_pred             HHH
Confidence            443

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 [].

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

Probab=97.78  E-value=0.00022  Score=35.89  Aligned_cols=62  Identities=11%  Similarity=0.081  Sum_probs=49.6

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CChhhHHHHHH
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RNVVSWTAIIA   70 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~t~~~li~   70 (86)
                      +.|++++|.+++..+.+.. +-+..++-.+...|.+.|++++|..++++...  |+...|..++.
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~a   66 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLLA   66 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHHh
Confidence            5789999999999998874 23666777899999999999999999999874  77666666553

...

>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=97.73  E-value=7.8e-05  Score=46.54  Aligned_cols=72  Identities=10%  Similarity=-0.010  Sum_probs=61.6

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcC----------------ChHHHHHhhcCCCC----CChhhHHH
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCG----------------ENIDVYKMFEKMPV----RNVVSWTA   67 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g----------------~~~~A~~~~~~m~~----~~~~t~~~   67 (86)
                      +.|.++=...-+..|.+.|++-|..+|+.||+.+-+..                +-+-|.+++++|+.    ||..|+..
T Consensus        64 RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~  143 (228)
T PF06239_consen   64 RRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQM  143 (228)
T ss_pred             CcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            45778888888999999999999999999999998732                23778889999974    99999999


Q ss_pred             HHHHHhhcCChh
Q 043594           68 IIAAFAQEWEVD   79 (86)
Q Consensus        68 li~~~~~~g~~~   79 (86)
                      |+..|++.+..-
T Consensus       144 ll~iFG~~s~p~  155 (228)
T PF06239_consen  144 LLNIFGRKSHPM  155 (228)
T ss_pred             HHHHhccccHHH
Confidence            999999988653

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

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

Probab=97.71  E-value=0.00013  Score=38.47  Aligned_cols=77  Identities=9%  Similarity=-0.016  Sum_probs=57.3

Q ss_pred             CCchhHHHHHHHHHHHHcC-CchHHHHHHHHHHHHhcCChHHHHHhhcCCC-CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594            9 TRNIRGGTQYQCLAVRSGF-VANVYVGSSLISFCGKCGENIDVYKMFEKMP-VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~-~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .|++++|..+++.+.+..- .++...+-.+-.+|.+.|++++|..++++.. .| +....-.+-..|.+.|+.++|+++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            5789999999999988764 2355555558899999999999999998832 12 3233334457799999999999876

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

Probab=97.67  E-value=0.00015  Score=41.04  Aligned_cols=73  Identities=10%  Similarity=0.166  Sum_probs=59.5

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcC-CchHHHHHHHHHHHHhcC--------ChHHHHHhhcCCC----CCChhhHHHHH
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGF-VANVYVGSSLISFCGKCG--------ENIDVYKMFEKMP----VRNVVSWTAII   69 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~y~~~g--------~~~~A~~~~~~m~----~~~~~t~~~li   69 (86)
                      |..|...+++..-.-+|..+++.|+ -|+..+|+.++.+-++-.        ++-+...+|+.|.    .|+..|||.+|
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            4456667999999999999999999 999999999999988742        3445566777664    69999999999


Q ss_pred             HHHhhc
Q 043594           70 AAFAQE   75 (86)
Q Consensus        70 ~~~~~~   75 (86)
                      ....+.
T Consensus       112 ~~Llkg  117 (120)
T PF08579_consen  112 GSLLKG  117 (120)
T ss_pred             HHHHHh
Confidence            887654

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 [, , ].

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

Probab=97.65  E-value=0.00027  Score=40.04  Aligned_cols=80  Identities=8%  Similarity=-0.047  Sum_probs=66.1

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|+.++|.+.+......+ ..+...+..+-..|.+.|++++|...|++..   ..+..+|..+-..|...|+.++|
T Consensus        26 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A  104 (135)
T TIGR02552        26 NLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESA  104 (135)
T ss_pred             HHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCHHHH
Confidence            4556799999999999988865 4477788888899999999999999999764   23566777777899999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       105 ~~~~  108 (135)
T TIGR02552       105 LKAL  108 (135)
T ss_pred             HHHH
Confidence            8776

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

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

Probab=97.58  E-value=0.00012  Score=49.85  Aligned_cols=74  Identities=12%  Similarity=0.023  Sum_probs=64.0

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC----CChhhHHHHHHHHhhc
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV----RNVVSWTAIIAAFAQE   75 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----~~~~t~~~li~~~~~~   75 (86)
                      ++.-|-+.|..+++..+...=...|+-||.+++|.||+.+.+.|++..|.++..+|..    .+..|+.--+.+|.+.
T Consensus       109 ~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  109 LVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            5677888899999999999999999999999999999999999999999999998852    3556777777777666

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 [].

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.57  E-value=0.00032  Score=40.85  Aligned_cols=80  Identities=5%  Similarity=-0.149  Sum_probs=66.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ++...|++++|...+....... ..+...+..+-..+.+.|++++|...|++...  | +..+|..+-..+.+.|+.++|
T Consensus        33 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~eA  111 (144)
T PRK15359         33 ASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEPGLA  111 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHH
Confidence            3456799999999999987754 33677888888899999999999999998753  4 677888888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       112 i~~~  115 (144)
T PRK15359        112 REAF  115 (144)
T ss_pred             HHHH
Confidence            8876

>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=97.57  E-value=0.00022  Score=36.33  Aligned_cols=80  Identities=13%  Similarity=0.008  Sum_probs=64.1

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+....+.. +.+..++..+-..|...|++++|.+.|++..   ..+..+|..+...+...|+.++|
T Consensus         9 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a   87 (100)
T cd00189           9 LYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEA   87 (100)
T ss_pred             HHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHHH
Confidence            3456789999999999987764 2344677888889999999999999998754   23556888888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        88 ~~~~   91 (100)
T cd00189          88 LEAY   91 (100)
T ss_pred             HHHH
Confidence            8765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=97.56  E-value=0.00051  Score=41.12  Aligned_cols=78  Identities=9%  Similarity=-0.016  Sum_probs=40.1

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      ...|++++|.+.+.+..+.. +.+...+..+...|...|++++|.+.|++..+   .+...+..+-..|...|++++|.+
T Consensus        42 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~  120 (234)
T TIGR02521        42 LEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQ  120 (234)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHH
Confidence            34555666666666555432 22344555555555566666666665554321   233444455555555555555554


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      .|
T Consensus       121 ~~  122 (234)
T TIGR02521       121 QF  122 (234)
T ss_pred             HH
Confidence            43

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.

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

Probab=97.52  E-value=0.0015  Score=37.92  Aligned_cols=83  Identities=6%  Similarity=-0.008  Sum_probs=60.7

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchH--HHHHHHHHHHHhcCChHHHHHhhcCCCCCC--hhhHHHHHHHHhhcCChh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANV--YVGSSLISFCGKCGENIDVYKMFEKMPVRN--VVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~li~~y~~~g~~~~A~~~~~~m~~~~--~~t~~~li~~~~~~g~~~   79 (86)
                      ..+...|++++|...+.......-.|+.  ...-.|-..+...|++++|...++..+.+.  ...+...=+.|.+.|+.+
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~  135 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYD  135 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHH
Confidence            3455679999999999999987733322  233345677788999999999998865432  334444557799999999


Q ss_pred             HhhhccC
Q 043594           80 MCYTFIV   86 (86)
Q Consensus        80 ~a~~~f~   86 (86)
                      +|...|+
T Consensus       136 ~A~~~y~  142 (145)
T PF09976_consen  136 EARAAYQ  142 (145)
T ss_pred             HHHHHHH
Confidence            9998763

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

Probab=97.21  E-value=0.00042  Score=44.05  Aligned_cols=76  Identities=11%  Similarity=0.016  Sum_probs=29.6

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      ..|+.+++.+++....+.. +.|+..+..+-.+|...|+.++|...|++..  .| |..+...+-+.+.+.|+.++|.++
T Consensus       192 ~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~  270 (280)
T PF13429_consen  192 DMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRL  270 (280)
T ss_dssp             TTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT-----------
T ss_pred             HCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3444444444544444433 3344444555555555555555555555432  13 344444455555555555555544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=97.20  E-value=0.002  Score=38.50  Aligned_cols=47  Identities=9%  Similarity=-0.094  Sum_probs=19.3

Q ss_pred             HHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhh
Q 043594           37 LISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus        37 li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +-..|.+.|++++|...|++...  | +...|..+...+.+.|+.++|.+
T Consensus       141 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  190 (234)
T TIGR02521       141 AGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARA  190 (234)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHH
Confidence            33344444444444444443221  1 22334444444444444444443

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.10  E-value=0.0036  Score=34.20  Aligned_cols=81  Identities=7%  Similarity=-0.140  Sum_probs=62.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcC--CchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC----hhhHHHHHHHHhhcC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGF--VANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN----VVSWTAIIAAFAQEW   76 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~----~~t~~~li~~~~~~g   76 (86)
                      .+.+.|+.++|.+.+..+.+..=  ......+-.+-..|.+.|+++.|...|++..  .|+    ..++..+-..+.+.|
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~   90 (119)
T TIGR02795        11 LVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELG   90 (119)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhC
Confidence            45578999999999999987531  1123455668889999999999999999875  244    345777778899999


Q ss_pred             ChhHhhhcc
Q 043594           77 EVDMCYTFI   85 (86)
Q Consensus        77 ~~~~a~~~f   85 (86)
                      +.++|.+.|
T Consensus        91 ~~~~A~~~~   99 (119)
T TIGR02795        91 DKEKAKATL   99 (119)
T ss_pred             ChHHHHHHH
Confidence            999998765

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.

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

Probab=97.09  E-value=0.0014  Score=41.68  Aligned_cols=81  Identities=6%  Similarity=-0.096  Sum_probs=50.0

Q ss_pred             cchhcCCchhHHHHHHHHHHHH-cCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRS-GFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~   79 (86)
                      ..+.+.++++++.++++.+... ..+.++..|..+-..|-+.|+.++|.+.+++..  .| |....+.++..+...|+.+
T Consensus       118 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~  197 (280)
T PF13429_consen  118 QLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYD  197 (280)
T ss_dssp             H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChH
Confidence            3445667777777777776543 245566777777777777788888877777664  35 3556677777777777776


Q ss_pred             Hhhhc
Q 043594           80 MCYTF   84 (86)
Q Consensus        80 ~a~~~   84 (86)
                      ++.++
T Consensus       198 ~~~~~  202 (280)
T PF13429_consen  198 EAREA  202 (280)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65443

>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=97.05  E-value=0.0016  Score=42.22  Aligned_cols=81  Identities=6%  Similarity=-0.006  Sum_probs=53.3

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHH---HHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcC
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYV---GSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEW   76 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~---~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g   76 (86)
                      +..+.+.++++.|.+.++.|.+..  .|..+   ..+.|+.+.-...+.+|.-+|+++.+   +++.+.|.+...+...|
T Consensus       138 Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~  215 (290)
T PF04733_consen  138 VQILLKMNRPDLAEKELKNMQQID--EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLG  215 (290)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHCCS--CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhC
Confidence            355667888888888888887643  34332   23333433334578888888888764   46677778888888888


Q ss_pred             ChhHhhhcc
Q 043594           77 EVDMCYTFI   85 (86)
Q Consensus        77 ~~~~a~~~f   85 (86)
                      ++++|.+++
T Consensus       216 ~~~eAe~~L  224 (290)
T PF04733_consen  216 HYEEAEELL  224 (290)
T ss_dssp             -HHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            888887654

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.01  E-value=0.0039  Score=40.33  Aligned_cols=79  Identities=9%  Similarity=-0.095  Sum_probs=60.5

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...|+.++|...+.+..+.. ..++..|+.+=..|...|++++|.+.|++..  .| +..+|..+-..+...|+.++|+
T Consensus        74 ~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~  152 (296)
T PRK11189         74 YDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQ  152 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            446688888888888877753 2346688888888889999999999888764  35 4567777777888888888888


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       153 ~~~  155 (296)
T PRK11189        153 DDL  155 (296)
T ss_pred             HHH
Confidence            765

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

Probab=97.00  E-value=0.0028  Score=36.43  Aligned_cols=24  Identities=13%  Similarity=0.128  Sum_probs=11.5

Q ss_pred             ChhhHHHHHHHHhhcCChhHhhhc
Q 043594           61 NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus        61 ~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      +..+-.+++.+|+.+|++..|+++
T Consensus        51 t~~lL~AIv~sf~~n~~i~~al~~   74 (126)
T PF12921_consen   51 TSRLLIAIVHSFGYNGDIFSALKL   74 (126)
T ss_pred             CHHHHHHHHHHHHhcccHHHHHHH
Confidence            344444455555555555544443

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

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

Probab=96.96  E-value=0.0013  Score=37.87  Aligned_cols=70  Identities=10%  Similarity=0.116  Sum_probs=55.5

Q ss_pred             hhcchhcCCchhHHHHHHHHH---------------HHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC
Q 043594            2 PVTSCGSTRNIRGGTQYQCLA---------------VRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN   61 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m---------------~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~   61 (86)
                      +|-++++.|+++..+.+.+..               ..+.+.|+..+..+++.+|+..|++..|.++.+....     -+
T Consensus         8 ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~   87 (126)
T PF12921_consen    8 IIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIP   87 (126)
T ss_pred             HHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCC
Confidence            577889999999888877654               1124678999999999999999999999999997653     13


Q ss_pred             hhhHHHHHHH
Q 043594           62 VVSWTAIIAA   71 (86)
Q Consensus        62 ~~t~~~li~~   71 (86)
                      -.+|..|+.=
T Consensus        88 ~~~W~~Ll~W   97 (126)
T PF12921_consen   88 KEFWRRLLEW   97 (126)
T ss_pred             HHHHHHHHHH
Confidence            5678887743

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

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

Probab=96.95  E-value=0.0043  Score=41.28  Aligned_cols=79  Identities=9%  Similarity=-0.124  Sum_probs=65.3

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      ....|++++|.+++.+.++.. .-+...+..+-.+|.+.|++++|...+++...  | +...|..+-.+|.+.|++++|.
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~   90 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAK   90 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHH
Confidence            346789999999999998864 23566777888899999999999999998753  4 5677888888999999999999


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus        91 ~~~   93 (356)
T PLN03088         91 AAL   93 (356)
T ss_pred             HHH
Confidence            876

>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=96.84  E-value=0.0024  Score=36.75  Aligned_cols=83  Identities=7%  Similarity=0.013  Sum_probs=62.4

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCC----------ChhhHHHHHHH
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVR----------NVVSWTAIIAA   71 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~----------~~~t~~~li~~   71 (86)
                      +++.+.+.+.+....+.++.+.+.+-..+....+.++..|++.++.++..++++....-          ..--|...+--
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~yd~~~~~~~c~~~~l~~~a~~L   92 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNNYDLDKALRLCEKHGLYEEAVYL   92 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSSS-CTHHHHHHHTTTSHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccccCHHHHHHHHHhcchHHHHHHH
Confidence            56778888899999999999998887788999999999999999999999999965431          12234555556


Q ss_pred             HhhcCChhHhhhc
Q 043594           72 FAQEWEVDMCYTF   84 (86)
Q Consensus        72 ~~~~g~~~~a~~~   84 (86)
                      |.+.|+.++|+++
T Consensus        93 y~~~~~~~~al~i  105 (143)
T PF00637_consen   93 YSKLGNHDEALEI  105 (143)
T ss_dssp             HHCCTTHTTCSST
T ss_pred             HHHcccHHHHHHH
Confidence            6666666666653

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.

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

Probab=96.84  E-value=0.0081  Score=36.84  Aligned_cols=80  Identities=9%  Similarity=-0.010  Sum_probs=63.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHH-HHhcCC--hHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISF-CGKCGE--NIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-y~~~g~--~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~   78 (86)
                      .+...|++++|.+.++...+.. ..|..++..+-.. |...|+  .++|.+++++..+  | |..++..+-..+.+.|++
T Consensus        82 ~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~  160 (198)
T PRK10370         82 YYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADY  160 (198)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCH
Confidence            4567899999999999888865 2356667776665 467777  5999999998753  4 677888888999999999


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|...|
T Consensus       161 ~~Ai~~~  167 (198)
T PRK10370        161 AQAIELW  167 (198)
T ss_pred             HHHHHHH
Confidence            9999876

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

Probab=96.82  E-value=0.0099  Score=38.68  Aligned_cols=80  Identities=5%  Similarity=0.034  Sum_probs=63.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CCh--hhHHHHHHHHhhcCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RNV--VSWTAIIAAFAQEWE   77 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~--~t~~~li~~~~~~g~   77 (86)
                      .+...|++++|.+.+....+.. +.+...+..+-..|...|++++|...+++...     |+.  ..|-.+-..+...|+
T Consensus       123 ~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~  201 (355)
T cd05804         123 GLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGD  201 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCC
Confidence            3456789999999999998865 34466778888899999999999999987643     232  345577888999999


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      .++|.++|
T Consensus       202 ~~~A~~~~  209 (355)
T cd05804         202 YEAALAIY  209 (355)
T ss_pred             HHHHHHHH
Confidence            99998876

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.

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

Probab=96.72  E-value=0.008  Score=41.91  Aligned_cols=76  Identities=16%  Similarity=0.120  Sum_probs=64.2

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC--CCCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM--PVRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m--~~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..|++..|.|+|.+...  .+||...|.+.|+.=.+-..++.|+.+++..  .+|++.+|---..-=-++|.+..|..+|
T Consensus       153 ~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            35888999999998765  6899999999999999999999999999985  4799999887777777888887777665

>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=96.69  E-value=0.009  Score=42.12  Aligned_cols=74  Identities=9%  Similarity=-0.098  Sum_probs=30.2

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      .|++++|.+.+....+.. ..++.++..+-..|...|++++|...|++..  .| +...|..+-..+.+.|+.++|+.
T Consensus       378 ~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~  454 (615)
T TIGR00990       378 LGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMA  454 (615)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHH
Confidence            344444444444443331 1123344444444444444444444444332  12 23333333344444444444443

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

Probab=96.67  E-value=0.011  Score=40.14  Aligned_cols=49  Identities=8%  Similarity=0.057  Sum_probs=35.0

Q ss_pred             HHHHHHhcCChHHHHHhhcCCC--CCC-hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           37 LISFCGKCGENIDVYKMFEKMP--VRN-VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        37 li~~y~~~g~~~~A~~~~~~m~--~~~-~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      -...+.+.++.+.|..+.++..  .|+ ..+|..|...|.+.|++++|+..+
T Consensus       240 Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaL  291 (395)
T PF09295_consen  240 QAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLAL  291 (395)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            3344555566666666666554  364 469999999999999999998654

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

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=96.64  E-value=0.011  Score=42.30  Aligned_cols=75  Identities=9%  Similarity=-0.105  Sum_probs=36.7

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhh
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      ..|+.++|.+.+..+.+.. +.+...+..+-..|.+.|++++|.+.|++...  | +...|..+...+.+.|+.++|..
T Consensus        88 ~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~  165 (656)
T PRK15174         88 ASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAIS  165 (656)
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHH
Confidence            3455555555555555432 11233444444555555555555555554432  2 33445555555555555555544

>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=96.63  E-value=0.0097  Score=41.96  Aligned_cols=80  Identities=6%  Similarity=-0.112  Sum_probs=65.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|...+....+.. +.+...+..+-..|.+.|++++|...|++..  .| +...|+.+-..+...|++++|
T Consensus       408 ~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A  486 (615)
T TIGR00990       408 LHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEA  486 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHH
Confidence            3556799999999999988764 2346677778888999999999999999864  34 467888889999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       487 ~~~~  490 (615)
T TIGR00990       487 IEKF  490 (615)
T ss_pred             HHHH
Confidence            8766

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=96.59  E-value=0.016  Score=39.02  Aligned_cols=78  Identities=12%  Similarity=-0.007  Sum_probs=58.4

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHhhhc
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      ...++.+++.+..+...+.. +-|+...-++=..+.+.|++++|++.|+...  .|+..+|..|-..+-+.|+.++|.+.
T Consensus       305 l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~  383 (398)
T PRK10747        305 LKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAM  383 (398)
T ss_pred             ccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34577777777777776543 2344456677788888888999999888775  48888888888888899998888776


Q ss_pred             c
Q 043594           85 I   85 (86)
Q Consensus        85 f   85 (86)
                      +
T Consensus       384 ~  384 (398)
T PRK10747        384 R  384 (398)
T ss_pred             H
Confidence            5

>PRK12370 invasion protein regulator; Provisional

Probab=96.59  E-value=0.01  Score=41.55  Aligned_cols=47  Identities=6%  Similarity=-0.178  Sum_probs=18.5

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      .|++++|.+.+++..+.+ +.+...+..+-..|...|++++|...+++
T Consensus       351 ~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        351 HSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             ccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            344444444444444332 11222333333344444444444444443

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

Probab=96.57  E-value=0.0014  Score=32.91  Aligned_cols=44  Identities=14%  Similarity=0.135  Sum_probs=36.8

Q ss_pred             HhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           42 GKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        42 ~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+.|++++|.+.|++..  .| |...+-.+...|.+.|++++|.+++
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l   48 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELL   48 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            46799999999999875  35 6777888999999999999999876

...

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

Probab=96.53  E-value=0.0061  Score=30.30  Aligned_cols=53  Identities=9%  Similarity=-0.071  Sum_probs=38.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .+.+.|++++|..++...++.. .-+...+..+-..+...|++++|...|++..
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3456788888888888887765 3366677777788888888888888887653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=96.52  E-value=0.012  Score=42.13  Aligned_cols=76  Identities=13%  Similarity=0.044  Sum_probs=35.0

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHH----HHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhH
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENID----VYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~----A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~   80 (86)
                      +.|+.++|.+.+....+.. ..+...+..+-..|...|++++    |...|++..  .| +...+..+-..+.+.|++++
T Consensus       224 ~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~e  302 (656)
T PRK15174        224 AVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEK  302 (656)
T ss_pred             HCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHH
Confidence            4455555555555554432 2233344444455555555543    444444432  12 23344455555555555555


Q ss_pred             hhhc
Q 043594           81 CYTF   84 (86)
Q Consensus        81 a~~~   84 (86)
                      |...
T Consensus       303 A~~~  306 (656)
T PRK15174        303 AIPL  306 (656)
T ss_pred             HHHH
Confidence            5443

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

Probab=96.51  E-value=0.0024  Score=41.09  Aligned_cols=77  Identities=14%  Similarity=0.188  Sum_probs=41.0

Q ss_pred             cCCchhHHHHHHHHHHHHc-CCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhh
Q 043594            8 STRNIRGGTQYQCLAVRSG-FVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +.+.++.|.++|.+..+.+ +..++++..+++..++ .++.+.|..+|+....   .+...|..-|+-+.+.|+.+.|..
T Consensus        13 r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~~~~d~~~aR~   91 (280)
T PF05843_consen   13 RTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKKFPSDPDFWLEYLDFLIKLNDINNARA   91 (280)
T ss_dssp             HHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhCcHHHHHH
Confidence            3444666666666665543 4455555555555332 2444456666665432   345556666666666666666665


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      +|
T Consensus        92 lf   93 (280)
T PF05843_consen   92 LF   93 (280)
T ss_dssp             HH
T ss_pred             HH
Confidence            55

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=96.51  E-value=0.018  Score=43.59  Aligned_cols=79  Identities=10%  Similarity=0.025  Sum_probs=46.8

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.+.|+.++|.+.+....+.. +.++..+..+...|...|+.++|.+.++...+  | +..++..+-..+.+.|+.++|.
T Consensus       613 ~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~  691 (1157)
T PRK11447        613 AQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQ  691 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHH
Confidence            345566666666666666542 22445666666666666777777766665542  2 3344455555666666666666


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      ++|
T Consensus       692 ~~~  694 (1157)
T PRK11447        692 RTF  694 (1157)
T ss_pred             HHH
Confidence            554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=96.43  E-value=0.015  Score=43.50  Aligned_cols=73  Identities=4%  Similarity=-0.156  Sum_probs=37.5

Q ss_pred             CchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhc
Q 043594           10 RNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus        10 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      |+.++|...+.+..+..  |+...+..+-..+.+.|+.++|...|++..  .| +...++.+-..+...|+.++|++.
T Consensus       590 Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~  665 (987)
T PRK09782        590 GQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREM  665 (987)
T ss_pred             CCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            55555555555554432  444455555555555666666666555443  13 233444444455555555555444

>PRK12370 invasion protein regulator; Provisional

Probab=96.37  E-value=0.02  Score=40.06  Aligned_cols=79  Identities=4%  Similarity=-0.024  Sum_probs=53.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHH-HHHHHHHHHHhcCChHHHHHhhcCCC---CCC-hhhHHHHHHHHhhcCChh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVY-VGSSLISFCGKCGENIDVYKMFEKMP---VRN-VVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~m~---~~~-~~t~~~li~~~~~~g~~~   79 (86)
                      .+...|+.++|.+.+.+..+..  |+.. .+..+...+...|++++|...+++..   .|+ ...+..+-..+...|+.+
T Consensus       381 ~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~  458 (553)
T PRK12370        381 NLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHE  458 (553)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHH
Confidence            3556788888988888887754  4322 23334445666788888988887753   243 334566667788889988


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      +|.+.+
T Consensus       459 eA~~~~  464 (553)
T PRK12370        459 LARKLT  464 (553)
T ss_pred             HHHHHH
Confidence            888765

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

Probab=96.31  E-value=0.0022  Score=33.12  Aligned_cols=54  Identities=7%  Similarity=0.084  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCC---------CCC-hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMP---------VRN-VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~---------~~~-~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+++.+=..|...|++++|.+.|++..         .|+ ..+++.|-..|.+.|+.++|.+.|
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~   69 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYY   69 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            467777788888888888888887642         133 456777778888888888888765

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.30  E-value=0.028  Score=33.37  Aligned_cols=72  Identities=10%  Similarity=0.045  Sum_probs=54.8

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCch--HHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVAN--VYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~   77 (86)
                      +...|++++|...+.+..+..-.+.  ...+..+-..|.+.|++++|...+++...  | +...+..+-..|...|+
T Consensus        45 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~  121 (172)
T PRK02603         45 AQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYHKRGE  121 (172)
T ss_pred             HHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCC
Confidence            4567999999999999987653332  46788888999999999999999987642  4 45566666667777666

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=96.26  E-value=0.026  Score=37.97  Aligned_cols=77  Identities=9%  Similarity=-0.078  Sum_probs=59.1

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHH--HHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGS--SLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~--~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.|+.+.+.+.+..+.+.  .|+.....  .....+...|+.+.|...+++..+  | +......+...|.+.|++++|
T Consensus       129 ~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a  206 (398)
T PRK10747        129 QQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSL  206 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHH
Confidence            4678889999999888763  46654433  335678889999999999988753  4 566778888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+++
T Consensus       207 ~~~l  210 (398)
T PRK10747        207 LDIL  210 (398)
T ss_pred             HHHH
Confidence            8665

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

Probab=96.25  E-value=0.0023  Score=31.88  Aligned_cols=47  Identities=15%  Similarity=0.141  Sum_probs=39.3

Q ss_pred             HHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           39 SFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        39 ~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+.+.|++++|...|++...  | +...|..+-..+.+.|++++|...|
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~   54 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYY   54 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            467889999999999998753  5 5677888889999999999999876

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.24  E-value=0.042  Score=31.33  Aligned_cols=80  Identities=10%  Similarity=0.000  Sum_probs=58.2

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHH--HHHHHHHHHHhcCChHHHHHhhcCCC--CCC---hhh-HHHHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVY--VGSSLISFCGKCGENIDVYKMFEKMP--VRN---VVS-WTAIIAAFAQEWE   77 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~li~~y~~~g~~~~A~~~~~~m~--~~~---~~t-~~~li~~~~~~g~   77 (86)
                      +-..|+.++|..+|......|+.....  .+--+=+.|-.-|++++|..+|++..  .|+   ... ...+-.++...|+
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr   90 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLGR   90 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCCC
Confidence            446799999999999999999876633  34444577778899999999999764  254   222 2223346788899


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      .++|++.+
T Consensus        91 ~~eAl~~~   98 (120)
T PF12688_consen   91 PKEALEWL   98 (120)
T ss_pred             HHHHHHHH
Confidence            99998754

>TIGR00540 hemY_coli hemY protein

Probab=96.18  E-value=0.053  Score=36.55  Aligned_cols=76  Identities=13%  Similarity=0.065  Sum_probs=58.9

Q ss_pred             CCchhHHHHHHHHHHHHcCCchH---HHHHHHHHHHHhcCChHHHHHhhc--CC--CCCChhhHHHHHHHHhhcCChhHh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANV---YVGSSLISFCGKCGENIDVYKMFE--KM--PVRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~---~~~~~li~~y~~~g~~~~A~~~~~--~m--~~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .++.+.+.+..+...+.  .|+.   ....++=..|.+.|++++|++.|+  ..  ..||...+..+-..+.+.|+.++|
T Consensus       312 ~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A  389 (409)
T TIGR00540       312 PEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEA  389 (409)
T ss_pred             CCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            45666777777766654  3433   456677788889999999999999  34  258888888999999999999999


Q ss_pred             hhccC
Q 043594           82 YTFIV   86 (86)
Q Consensus        82 ~~~f~   86 (86)
                      .++|+
T Consensus       390 ~~~~~  394 (409)
T TIGR00540       390 AAMRQ  394 (409)
T ss_pred             HHHHH
Confidence            88763

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=96.17  E-value=0.025  Score=42.45  Aligned_cols=79  Identities=10%  Similarity=-0.008  Sum_probs=54.8

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHhhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +.+.|+.++|.+.+....+.. ..+...+..+.....+.|++++|...|++..  .|+...|..+-..+.+.|+.++|.+
T Consensus       552 ll~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~  630 (987)
T PRK09782        552 AQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVS  630 (987)
T ss_pred             HHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            456677888888887777654 2222233333333445588888888888765  3777788888888999999999887


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      .|
T Consensus       631 ~l  632 (987)
T PRK09782        631 DL  632 (987)
T ss_pred             HH
Confidence            65

>PRK14574 hmsH outer membrane protein; Provisional

Probab=96.16  E-value=0.031  Score=41.22  Aligned_cols=76  Identities=14%  Similarity=0.203  Sum_probs=40.8

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchH--HHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHH---HHHhhcCChhHh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANV--YVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAII---AAFAQEWEVDMC   81 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li---~~~~~~g~~~~a   81 (86)
                      .+.|+.++|...+.+..+..  |+.  .++ .++..+...|+.++|...+++...|+...+..+.   ..|...|++++|
T Consensus        45 ~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         45 ARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            35566666666666665543  332  123 5556666666666666666665555333332222   245555666666


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      +++|
T Consensus       122 iely  125 (822)
T PRK14574        122 LALW  125 (822)
T ss_pred             HHHH
Confidence            6554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.15  E-value=0.072  Score=31.43  Aligned_cols=79  Identities=9%  Similarity=0.037  Sum_probs=57.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCc--hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHh-------
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVA--NVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFA-------   73 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~-------   73 (86)
                      +...|++++|...+....+..-.+  ...++..+=..|.+.|+.++|.+.+++...  | ...+++.+-..|.       
T Consensus        45 ~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~  124 (168)
T CHL00033         45 AQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAI  124 (168)
T ss_pred             HHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHH
Confidence            345789999999999987764222  235788888899999999999999987642  3 4456666666677       


Q ss_pred             hcCChhHhhhc
Q 043594           74 QEWEVDMCYTF   84 (86)
Q Consensus        74 ~~g~~~~a~~~   84 (86)
                      +.|+.++|...
T Consensus       125 ~~g~~~~A~~~  135 (168)
T CHL00033        125 EQGDSEIAEAW  135 (168)
T ss_pred             HcccHHHHHHH
Confidence            77787765543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=96.14  E-value=0.042  Score=39.97  Aligned_cols=78  Identities=8%  Similarity=-0.064  Sum_probs=41.4

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.+.|++++|.+++....+.. +.++..+..+...+...|+.++|...+++..  .| +.. |..+-..+.+.|+.++|+
T Consensus        59 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al  136 (765)
T PRK10049         59 YRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDEL  136 (765)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHH
Confidence            344556666666666555442 1223344455555566666666666666543  23 233 555555566666666665


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      ..|
T Consensus       137 ~~l  139 (765)
T PRK10049        137 RAM  139 (765)
T ss_pred             HHH
Confidence            544

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

Probab=96.13  E-value=0.017  Score=33.27  Aligned_cols=49  Identities=8%  Similarity=0.066  Sum_probs=23.5

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      ..|+++++.++...+.... +.|...|..+|.+|.+.|+...|.++|+++
T Consensus        74 ~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   74 EAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            4455555555555554433 234445555555555555555555555544

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=96.12  E-value=0.018  Score=43.60  Aligned_cols=76  Identities=5%  Similarity=0.028  Sum_probs=62.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|+.++|.+++.     ....++..+..+-..|.+.|+.++|.+.|++..  .| |...+..+...|...|+.++|
T Consensus       582 ~l~~~G~~~eA~~~l~-----~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA  656 (1157)
T PRK11447        582 RLRDSGKEAEAEALLR-----QQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAA  656 (1157)
T ss_pred             HHHHCCCHHHHHHHHH-----hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            4556788888988876     234566677788899999999999999999875  34 678899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       657 ~~~l  660 (1157)
T PRK11447        657 RAQL  660 (1157)
T ss_pred             HHHH
Confidence            9876

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.10  E-value=0.0079  Score=34.99  Aligned_cols=54  Identities=9%  Similarity=-0.077  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      .+-.+-..+...|++++|...|+....  | +...|..+-..+.+.|++++|...|+
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~   82 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYG   82 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            355566777889999999999997653  3 67888999999999999999998763

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.05  E-value=0.021  Score=39.98  Aligned_cols=82  Identities=9%  Similarity=0.035  Sum_probs=60.1

Q ss_pred             cchhcCCchhHHHHHHHHHHHH---cCCchHHHHHH----HHHHHHhcCChHHHHHhhcCCC----------CCC-hhhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRS---GFVANVYVGSS----LISFCGKCGENIDVYKMFEKMP----------VRN-VVSW   65 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~----li~~y~~~g~~~~A~~~~~~m~----------~~~-~~t~   65 (86)
                      ..|...|+++.|.+++++.++.   +.-.+...+..    +=..|...+++.+|..+|+++-          .|. ..++
T Consensus       207 ~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l  286 (508)
T KOG1840|consen  207 EMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATL  286 (508)
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            4677889999999999998765   11133333333    4457888899999999999773          232 3567


Q ss_pred             HHHHHHHhhcCChhHhhhcc
Q 043594           66 TAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        66 ~~li~~~~~~g~~~~a~~~f   85 (86)
                      +.|-..|.+.|++++|...+
T Consensus       287 ~nLa~ly~~~GKf~EA~~~~  306 (508)
T KOG1840|consen  287 NNLAVLYYKQGKFAEAEEYC  306 (508)
T ss_pred             HHHHHHHhccCChHHHHHHH
Confidence            77778899999999998654

>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=95.94  E-value=0.011  Score=34.00  Aligned_cols=54  Identities=7%  Similarity=0.069  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      ....++..+...|++++|..+.+...  .| |...|-.+|.+|.+.|+..+|.++|+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~  120 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYE  120 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            45566677778999999999999875  34 67899999999999999999998763

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

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

Probab=95.81  E-value=0.055  Score=34.89  Aligned_cols=77  Identities=9%  Similarity=0.094  Sum_probs=60.5

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC----hhhHHHHHHHHhhcCChhHh
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN----VVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~----~~t~~~li~~~~~~g~~~~a   81 (86)
                      ..++...|..||+...+. +..+...|..-|+.+.+.++.+.|+.+|++...  |.    -..|...|.-=.+.|+++.+
T Consensus        48 ~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v  126 (280)
T PF05843_consen   48 CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESV  126 (280)
T ss_dssp             TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHH
T ss_pred             hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHH
Confidence            356777799999999876 667888999999999999999999999998653  22    34899999999999998877


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .++.
T Consensus       127 ~~v~  130 (280)
T PF05843_consen  127 RKVE  130 (280)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6653

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.

>TIGR00540 hemY_coli hemY protein

Probab=95.80  E-value=0.044  Score=36.94  Aligned_cols=78  Identities=10%  Similarity=-0.106  Sum_probs=57.4

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHH--HHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVY--VGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~   80 (86)
                      ....|+.+.+.+.+....+.-  |+..  +--.....+...|+.+.|.+.++++.+  | +...+..+...|.+.|++++
T Consensus       128 a~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~  205 (409)
T TIGR00540       128 AQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQA  205 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHH
Confidence            345688888888888876543  4442  333346777788999999998888753  5 55677888889999999998


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |.+++
T Consensus       206 a~~~l  210 (409)
T TIGR00540       206 LDDII  210 (409)
T ss_pred             HHHHH
Confidence            87765

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.

>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=95.78  E-value=0.011  Score=29.70  Aligned_cols=52  Identities=15%  Similarity=0.082  Sum_probs=41.8

Q ss_pred             HHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           34 GSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        34 ~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +..+...+...|++++|...|++...  | +..+|..+-..+...|++++|.+.|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~   57 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDY   57 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566778889999999999997642  3 4467888888899999999998876

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=95.68  E-value=0.055  Score=39.39  Aligned_cols=77  Identities=6%  Similarity=-0.174  Sum_probs=40.8

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      -.|+.++|.+++....... ..+...+..+-..+.+.|++++|.++|++..  .| +...+..+...+.+.|+.++|...
T Consensus        27 ~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~  105 (765)
T PRK10049         27 WAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVK  105 (765)
T ss_pred             HcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4555566665555554421 2333345555556666666666666666532  12 344455555556666666666544


Q ss_pred             c
Q 043594           85 I   85 (86)
Q Consensus        85 f   85 (86)
                      +
T Consensus       106 l  106 (765)
T PRK10049        106 A  106 (765)
T ss_pred             H
Confidence            3

>PRK14574 hmsH outer membrane protein; Provisional

Probab=95.66  E-value=0.048  Score=40.24  Aligned_cols=82  Identities=7%  Similarity=-0.015  Sum_probs=69.0

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---------CChhhHHHHHHHHhh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---------RNVVSWTAIIAAFAQ   74 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---------~~~~t~~~li~~~~~   74 (86)
                      -++.+.++..++.+.+..+...|.+.-..+--++-++|...++.++|..+|++.-.         ++......|.-+|..
T Consensus       300 ~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld  379 (822)
T PRK14574        300 GALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNE  379 (822)
T ss_pred             HHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHh
Confidence            45667788999999999999999776677899999999999999999999998632         134445789999999


Q ss_pred             cCChhHhhhcc
Q 043594           75 EWEVDMCYTFI   85 (86)
Q Consensus        75 ~g~~~~a~~~f   85 (86)
                      .+++++|..++
T Consensus       380 ~e~~~~A~~~l  390 (822)
T PRK14574        380 SEQLDKAYQFA  390 (822)
T ss_pred             cccHHHHHHHH
Confidence            99999998765

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=95.60  E-value=0.058  Score=37.80  Aligned_cols=81  Identities=7%  Similarity=-0.021  Sum_probs=62.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHc----CCch---HHHHHHHHHHHHhcCChHHHHHhhcCCC---------CCCh-hhHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG----FVAN---VYVGSSLISFCGKCGENIDVYKMFEKMP---------VRNV-VSWTA   67 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g----~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~m~---------~~~~-~t~~~   67 (86)
                      .+-+.|.+.+|.++|...+...    .+.+   ....+-|=..|.+.+..++|.++|++-.         .|++ .+|..
T Consensus       376 l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~n  455 (508)
T KOG1840|consen  376 LYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLN  455 (508)
T ss_pred             HHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHH
Confidence            3557899999999999986642    3222   4456666778889999999999998742         3554 67999


Q ss_pred             HHHHHhhcCChhHhhhcc
Q 043594           68 IIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        68 li~~~~~~g~~~~a~~~f   85 (86)
                      |...|-+.|++++|.++-
T Consensus       456 L~~~Y~~~g~~e~a~~~~  473 (508)
T KOG1840|consen  456 LAALYRAQGNYEAAEELE  473 (508)
T ss_pred             HHHHHHHcccHHHHHHHH
Confidence            999999999999998763

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.59  E-value=0.046  Score=27.54  Aligned_cols=54  Identities=6%  Similarity=-0.117  Sum_probs=43.6

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      ..+.+.+++++|.++++.+.+.. +.++..+...=..|.+.|++++|.+.|++..
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            35667889999999999998874 3366677777788899999999999998764

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

Probab=95.56  E-value=0.023  Score=36.80  Aligned_cols=78  Identities=6%  Similarity=0.006  Sum_probs=54.3

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHH-HHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhh
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVY-VGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +..+++.|++..+.|....-.-... .-++.|+...-.+.+.+|.-+|++|.+   |+..+-|.+...+...|++++|..
T Consensus       149 k~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~  228 (299)
T KOG3081|consen  149 KMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAES  228 (299)
T ss_pred             HHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHH
Confidence            4455677777777777654222222 334556655666889999999999986   555666777788888999999987


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      ++
T Consensus       229 lL  230 (299)
T KOG3081|consen  229 LL  230 (299)
T ss_pred             HH
Confidence            64

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.47  E-value=0.15  Score=29.09  Aligned_cols=81  Identities=10%  Similarity=0.059  Sum_probs=54.8

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhc-CCCCCC----------hhhHHHHHH
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFE-KMPVRN----------VVSWTAIIA   70 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~-~m~~~~----------~~t~~~li~   70 (86)
                      ++..+.+.+........++.+.+.+ ..++...|.++..|++.. .++..+.++ ....-|          .--|...+-
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~~~~~yd~~~~~~~c~~~~l~~~~~~   90 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDNKSNHYDIEKVGKLCEKAKLYEEAVE   90 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHhccccCCHHHHHHHHHHcCcHHHHHH
Confidence            4566777788999999999998887 478889999999999874 456666776 322111          112455555


Q ss_pred             HHhhcCChhHhhhc
Q 043594           71 AFAQEWEVDMCYTF   84 (86)
Q Consensus        71 ~~~~~g~~~~a~~~   84 (86)
                      -|.+.|+.++|+++
T Consensus        91 l~~k~~~~~~Al~~  104 (140)
T smart00299       91 LYKKDGNFKDAIVT  104 (140)
T ss_pred             HHHhhcCHHHHHHH
Confidence            56666666665543

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

Probab=95.35  E-value=0.058  Score=35.63  Aligned_cols=51  Identities=6%  Similarity=-0.043  Sum_probs=24.3

Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHh
Q 043594           29 ANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus        29 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ||-.-|-..|.+|+..|++++-.++-.+  .+.++-|--.+..|.+.|...+|
T Consensus       206 ~dkrfw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepFv~~~~~~~~~~eA  256 (319)
T PF04840_consen  206 PDKRFWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPFVEACLKYGNKKEA  256 (319)
T ss_pred             cHHHHHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHHHHHHHHCCCHHHH
Confidence            5555555555666655555555554433  12223334444444444444443

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

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

Probab=95.33  E-value=0.068  Score=34.31  Aligned_cols=79  Identities=8%  Similarity=-0.064  Sum_probs=49.1

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      -.+.|++.+|...+.+..... ++|...||.+=-+|-+.|+.++|+.-|.+-.+   .+....|-|--.|.-.|+.+.|.
T Consensus       110 ~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~  188 (257)
T COG5010         110 QIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAE  188 (257)
T ss_pred             HHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHH
Confidence            345667777777776665543 56667777777777777777777776665432   23444555555566666666665


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      .++
T Consensus       189 ~ll  191 (257)
T COG5010         189 TLL  191 (257)
T ss_pred             HHH
Confidence            543

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=95.31  E-value=0.014  Score=29.20  Aligned_cols=51  Identities=14%  Similarity=0.066  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcC-ChhHhhh
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEW-EVDMCYT   83 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g-~~~~a~~   83 (86)
                      +|..+=..+...|++++|...|++..  .| +...|..+=.+|.+.| ++++|++
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~   59 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIE   59 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHH
Confidence            33333344444455555555444432  12 2334444444444444 3444443

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.17  E-value=0.021  Score=28.83  Aligned_cols=47  Identities=6%  Similarity=0.012  Sum_probs=39.9

Q ss_pred             HHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           39 SFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        39 ~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..|.+.+++++|.++++.+..  | +...|...=..|.+.|++++|.+.|
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l   52 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDL   52 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHH
Confidence            568899999999999998863  5 5667777888899999999999876

>PRK11189 lipoprotein NlpI; Provisional

Probab=95.12  E-value=0.16  Score=32.88  Aligned_cols=79  Identities=5%  Similarity=-0.218  Sum_probs=52.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+....+..  | +...+..+-..|...|++++|.+.|+...  .|+.........-+...++.++|
T Consensus       107 ~~~~~g~~~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A  184 (296)
T PRK11189        107 YLTQAGNFDAAYEAFDSVLELD--PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQA  184 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHH
Confidence            3557789999999988888653  4 35577777778888899999999888754  24332112212223456677887


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       185 ~~~l  188 (296)
T PRK11189        185 KENL  188 (296)
T ss_pred             HHHH
Confidence            7655

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=95.04  E-value=0.07  Score=39.52  Aligned_cols=71  Identities=13%  Similarity=0.104  Sum_probs=43.7

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCC--ChhhHHHHHHHHhhcCChhHhhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVR--NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~--~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      |++.|+++.|+++|.+-         -.++--|+||++.|++++|.++-++.-.|  .++.|-+--.-.-+.|++.+|.+
T Consensus       775 yan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeq  845 (1636)
T KOG3616|consen  775 YANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQ  845 (1636)
T ss_pred             hccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhh
Confidence            55666676666666432         13455677888888888888777766544  33445544455556666666655


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      +|
T Consensus       846 ly  847 (1636)
T KOG3616|consen  846 LY  847 (1636)
T ss_pred             ee
Confidence            54

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.94  E-value=0.093  Score=35.73  Aligned_cols=81  Identities=11%  Similarity=-0.050  Sum_probs=54.4

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHH-HHHHHhcCChHHHHHhhcCCCCC-ChhhHHHHH-HHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSL-ISFCGKCGENIDVYKMFEKMPVR-NVVSWTAII-AAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-i~~y~~~g~~~~A~~~~~~m~~~-~~~t~~~li-~~~~~~g~~~~   80 (86)
                      .+.+..|+..+|+++|-++....++ |..+|-++ -.+|.+++..+-|.++|-.+..| +.++.--+| .-|.+++.+.-
T Consensus       401 QAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyy  479 (557)
T KOG3785|consen  401 QAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYY  479 (557)
T ss_pred             HHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHH
Confidence            4556678888888888666544444 44455444 47888888888888888887765 445555555 55778887776


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |-+.|
T Consensus       480 aaKAF  484 (557)
T KOG3785|consen  480 AAKAF  484 (557)
T ss_pred             HHHhh
Confidence            66554

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

Probab=94.90  E-value=0.28  Score=31.33  Aligned_cols=80  Identities=10%  Similarity=-0.061  Sum_probs=49.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      +|-..|+...|++-++..++.. +.+..+|.++-..|-+.|..+.|.+-|+.-.  .| +.-+-|--=.-+|..|++++|
T Consensus        44 ~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA  122 (250)
T COG3063          44 GYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEA  122 (250)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHH
Confidence            3556777888888777777754 2344477777777888888888888777542  12 333333333334556666666


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      ..-|
T Consensus       123 ~q~F  126 (250)
T COG3063         123 MQQF  126 (250)
T ss_pred             HHHH
Confidence            5544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=94.87  E-value=0.4  Score=28.71  Aligned_cols=80  Identities=8%  Similarity=-0.113  Sum_probs=57.2

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...|++++|+.+|..+...... +..-|=.|=.++-..|++++|.+.|...-  .| |..++=-+=..+...|+.++|.
T Consensus        45 ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~~~A~  123 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACDNVCYAI  123 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHHH
Confidence            34679999999999999887532 33334444455556799999999998643  34 4555556667788899999888


Q ss_pred             hccC
Q 043594           83 TFIV   86 (86)
Q Consensus        83 ~~f~   86 (86)
                      +-|+
T Consensus       124 ~aF~  127 (157)
T PRK15363        124 KALK  127 (157)
T ss_pred             HHHH
Confidence            7763

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

Probab=94.81  E-value=0.37  Score=27.76  Aligned_cols=77  Identities=9%  Similarity=0.023  Sum_probs=55.8

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHH-HHH--HHHHHHhcCChHHHHHhhcCCCC--CCh----hhHHHHHHHHhhcCCh
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYV-GSS--LISFCGKCGENIDVYKMFEKMPV--RNV----VSWTAIIAAFAQEWEV   78 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~-~~~--li~~y~~~g~~~~A~~~~~~m~~--~~~----~t~~~li~~~~~~g~~   78 (86)
                      ..++...+.+.++.+.+.. ..++.. ...  +-..+...|++++|...|+....  ||.    ...-.|-..+...|++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            4688888999999998864 223232 222  33778889999999999998753  332    3445567889999999


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|+..+
T Consensus       102 d~Al~~L  108 (145)
T PF09976_consen  102 DEALATL  108 (145)
T ss_pred             HHHHHHH
Confidence            9998765

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=94.69  E-value=0.28  Score=27.52  Aligned_cols=56  Identities=13%  Similarity=0.048  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHH
Q 043594           14 GGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIA   70 (86)
Q Consensus        14 ~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~   70 (86)
                      +|.-|-+-+...+-. ...+-=+-+++....|++++|..+.+..+.||+..|-.|-.
T Consensus        23 EA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce   78 (115)
T TIGR02508        23 EANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE   78 (115)
T ss_pred             HHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH
Confidence            444444433333322 44444455678889999999999999999999999987744

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

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

Probab=94.66  E-value=0.13  Score=34.08  Aligned_cols=70  Identities=13%  Similarity=-0.039  Sum_probs=56.9

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCCh----------------HHHHHhhcCCC----CCChhhHHHH
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGEN----------------IDVYKMFEKMP----VRNVVSWTAI   68 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~----------------~~A~~~~~~m~----~~~~~t~~~l   68 (86)
                      .+.++--..-++.|...|++-|.-+|+.||+.+-|-.-.                +.+.+++++|.    -||-.+--.|
T Consensus        85 R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~l  164 (406)
T KOG3941|consen   85 RTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDIL  164 (406)
T ss_pred             cchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHH
Confidence            345555666778899999999999999999998875432                56788999996    4899999999


Q ss_pred             HHHHhhcCCh
Q 043594           69 IAAFAQEWEV   78 (86)
Q Consensus        69 i~~~~~~g~~   78 (86)
                      |.+|++.|-.
T Consensus       165 vn~FGr~~~p  174 (406)
T KOG3941|consen  165 VNAFGRWNFP  174 (406)
T ss_pred             HHHhcccccc
Confidence            9999998854

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.61  E-value=0.078  Score=36.62  Aligned_cols=56  Identities=14%  Similarity=-0.051  Sum_probs=36.3

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCCh----hhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNV----VSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~----~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...++.+=..|.+.|++++|...|++-.  .||.    .+|..+-.+|.+.|+.++|++.|
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~L  135 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCL  135 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            34466666667777777777777776643  3542    34777777777777777776544

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

Probab=94.58  E-value=0.057  Score=27.64  Aligned_cols=52  Identities=10%  Similarity=0.055  Sum_probs=40.1

Q ss_pred             chhcCCchhHHHHHHHHHHHHc--CC---ch-HHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG--FV---AN-VYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g--~~---~~-~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      .+...|++++|...+.+..+..  +.   |+ ..+++.+-..|.+.|++++|.+.+++
T Consensus        14 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~   71 (78)
T PF13424_consen   14 VYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQK   71 (78)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4567899999999999987651  22   33 55778888899999999999999875

...

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

Probab=94.44  E-value=0.14  Score=33.29  Aligned_cols=52  Identities=8%  Similarity=-0.049  Sum_probs=38.3

Q ss_pred             HHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           34 GSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        34 ~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...+-..+...|++++|...+++..+  | +...+..+-..|...|++++|.+.+
T Consensus       117 ~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l  171 (355)
T cd05804         117 LGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFM  171 (355)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHH
Confidence            33444567778888888888887653  3 4566777778888899999888765

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.

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

Probab=94.38  E-value=0.059  Score=40.11  Aligned_cols=75  Identities=7%  Similarity=-0.055  Sum_probs=52.8

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC----CCChhhHHHHHHHHhhcCChh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP----VRNVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~t~~~li~~~~~~g~~~   79 (86)
                      .+-.-+|+++.|+.+..+|.+.|+..+..-|-.|+-+   .+....+..+...|.    +||..|+.--+-.+..+|...
T Consensus       212 ~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~  288 (1088)
T KOG4318|consen  212 KRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTK  288 (1088)
T ss_pred             HHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhh
Confidence            3444578888888888888888888777766666655   677777777777775    478888877776666666544


Q ss_pred             Hh
Q 043594           80 MC   81 (86)
Q Consensus        80 ~a   81 (86)
                      .+
T Consensus       289 ~~  290 (1088)
T KOG4318|consen  289 YG  290 (1088)
T ss_pred             hc
Confidence            33

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=94.34  E-value=0.19  Score=36.55  Aligned_cols=79  Identities=9%  Similarity=0.038  Sum_probs=45.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHH-HHHHHHHHHHhcCChHHHHHhhcCCCC--CC-hhhHHHHHHHHhhcCChhH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVY-VGSSLISFCGKCGENIDVYKMFEKMPV--RN-VVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~m~~--~~-~~t~~~li~~~~~~g~~~~   80 (86)
                      .+.+.+.+++|....++.....  ||.. ..+.+=..+.+.|++++|.++|++...  || ..+|.++=..+-..|+.++
T Consensus       129 ~L~~~~~~eeA~~~~~~~l~~~--p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~  206 (694)
T PRK15179        129 GVKRQQGIEAGRAEIELYFSGG--SSSAREILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWR  206 (694)
T ss_pred             HHHHhccHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHH
Confidence            3445566666666666665543  3333 333444555556777777777766542  32 4556666666666677666


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |...|
T Consensus       207 A~~~~  211 (694)
T PRK15179        207 ARDVL  211 (694)
T ss_pred             HHHHH
Confidence            66554

>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=94.30  E-value=0.079  Score=33.40  Aligned_cols=37  Identities=8%  Similarity=0.084  Sum_probs=32.6

Q ss_pred             chhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCCh
Q 043594           11 NIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGEN   47 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~   47 (86)
                      ..+-|.+++++|...|+.||..++..|++.+++.+..
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHH
Confidence            3456889999999999999999999999999887654

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

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

Probab=94.17  E-value=0.27  Score=34.27  Aligned_cols=48  Identities=6%  Similarity=-0.059  Sum_probs=28.9

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      .|..+.|+..+..+.+. .+-|+..+....+.+.+.++.++|.+.++.+
T Consensus       319 ~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~ka  366 (484)
T COG4783         319 AGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKA  366 (484)
T ss_pred             hcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            45566666666665443 2334555555566666666666666666655

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=94.12  E-value=0.2  Score=24.84  Aligned_cols=50  Identities=18%  Similarity=0.046  Sum_probs=42.5

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcC-ChHHHHHhhcC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCG-ENIDVYKMFEK   56 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g-~~~~A~~~~~~   56 (86)
                      +.+.|++++|.+.|...++.. +.++..+..+=.+|.+.| ++++|.+.|++
T Consensus        13 ~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen   13 YFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            456899999999999999975 446778888889999999 79999998875

...

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

Probab=94.11  E-value=0.07  Score=39.82  Aligned_cols=78  Identities=8%  Similarity=-0.072  Sum_probs=62.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC-----CCChhhHHHHHHHHhhcCChhH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP-----VRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~-----~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ++..|+++.|..||..+....- -+.-+|-.+-+.|..+|++..|.++|+..-     +-+...-+.|-.++.++|++.+
T Consensus       656 LA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~e  734 (1018)
T KOG2002|consen  656 LAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQE  734 (1018)
T ss_pred             hhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHH
Confidence            5678999999999999988764 233467778899999999999999999753     2366677888899999999988


Q ss_pred             hhhc
Q 043594           81 CYTF   84 (86)
Q Consensus        81 a~~~   84 (86)
                      |.+.
T Consensus       735 ak~~  738 (1018)
T KOG2002|consen  735 AKEA  738 (1018)
T ss_pred             HHHH
Confidence            8753

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

Probab=94.05  E-value=0.09  Score=36.77  Aligned_cols=78  Identities=12%  Similarity=0.242  Sum_probs=58.4

Q ss_pred             hcCCchhHHHHHHHHHHHHc-CCchHHHHHHHHHHHHhcCChHHHHHhhcC-CC-CCChhhH-HHHHHHHhhcCChhHhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSG-FVANVYVGSSLISFCGKCGENIDVYKMFEK-MP-VRNVVSW-TAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~y~~~g~~~~A~~~~~~-m~-~~~~~t~-~~li~~~~~~g~~~~a~   82 (86)
                      -+..-+..|..+|....+.| ..+++++++++|.-|+. |+..-|..+|+- |. .||+..| +--+.-..+-|+-+.|.
T Consensus       408 ~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~nar  486 (660)
T COG5107         408 LRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENAR  486 (660)
T ss_pred             HHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHH
Confidence            34455778899999999999 78899999999997764 777788888883 33 3666554 45566677777777777


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      .+|
T Consensus       487 aLF  489 (660)
T COG5107         487 ALF  489 (660)
T ss_pred             HHH
Confidence            666

>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=94.00  E-value=0.24  Score=33.74  Aligned_cols=51  Identities=12%  Similarity=0.018  Sum_probs=45.0

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHH-HHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVY-VGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      +-+.++.+.|.++..+.++.  .|+.+ +|..|...|.+.|++++|...++.+|
T Consensus       244 Ll~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  244 LLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            45678889999999998885  47666 99999999999999999999999986

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

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

Probab=93.92  E-value=0.071  Score=29.93  Aligned_cols=54  Identities=15%  Similarity=0.068  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .....+...|.+.|++++|...|+...+  | +...|..+-..|.+.|++++|...|
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~   74 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAY   74 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566677888899999999999987642  4 6678888889999999999998765

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

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=93.83  E-value=0.28  Score=30.21  Aligned_cols=75  Identities=13%  Similarity=0.069  Sum_probs=55.9

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHH-HHH-----------------HHHHHHHhcCChHHHHHhhcCCCC--CC----hhh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVY-VGS-----------------SLISFCGKCGENIDVYKMFEKMPV--RN----VVS   64 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~-~~~-----------------~li~~y~~~g~~~~A~~~~~~m~~--~~----~~t   64 (86)
                      .|+.++|.+.+..+.+..  |+.. .+.                 .+-..|.+.|+.++|...|++...  |+    ...
T Consensus       128 ~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a  205 (235)
T TIGR03302       128 QTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEA  205 (235)
T ss_pred             HHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHH
Confidence            367788888888887753  3321 211                 344668889999999999998642  32    468


Q ss_pred             HHHHHHHHhhcCChhHhhhcc
Q 043594           65 WTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        65 ~~~li~~~~~~g~~~~a~~~f   85 (86)
                      |..+...+.+.|+.++|...+
T Consensus       206 ~~~l~~~~~~lg~~~~A~~~~  226 (235)
T TIGR03302       206 LARLVEAYLKLGLKDLAQDAA  226 (235)
T ss_pred             HHHHHHHHHHcCCHHHHHHHH
Confidence            899999999999999998765

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

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

Probab=93.77  E-value=0.17  Score=35.54  Aligned_cols=54  Identities=15%  Similarity=0.143  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCC--CCCChhhHHHHHHHH-hhcCChhHhhhcc
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKM--PVRNVVSWTAIIAAF-AQEWEVDMCYTFI   85 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m--~~~~~~t~~~li~~~-~~~g~~~~a~~~f   85 (86)
                      .+.-=|-..|..-.-+++|...|+..  .+|+.+-|-.||..| -|.|+..+|+++|
T Consensus       627 e~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~y  683 (840)
T KOG2003|consen  627 ETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLY  683 (840)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            33333334444444455555555543  368999999988665 4578888888876

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.62  E-value=0.062  Score=23.77  Aligned_cols=20  Identities=5%  Similarity=0.152  Sum_probs=8.7

Q ss_pred             HHHHHHHHhhcCChhHhhhc
Q 043594           65 WTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus        65 ~~~li~~~~~~g~~~~a~~~   84 (86)
                      |+.|=..|.+.|++++|+++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~   21 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEY   21 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHH
Confidence            34444444444444444443

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

Probab=93.54  E-value=0.27  Score=33.00  Aligned_cols=80  Identities=8%  Similarity=-0.012  Sum_probs=58.4

Q ss_pred             chhcCCchhHHHHHHHHHHHH-cCCchHHH--HHHHHHHHHhcCChHHHHHhhcCCCC-CC--hhhHHHHHHHHhhcCCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRS-GFVANVYV--GSSLISFCGKCGENIDVYKMFEKMPV-RN--VVSWTAIIAAFAQEWEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~--~~~li~~y~~~g~~~~A~~~~~~m~~-~~--~~t~~~li~~~~~~g~~   78 (86)
                      -|.+.|.+|.|..+|.-+.++ +...+...  .=-|=.=|.+.|.++.|+++|....+ |+  ...---|+.-|-...+|
T Consensus        78 LfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW  157 (389)
T COG2956          78 LFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREW  157 (389)
T ss_pred             HHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHH
Confidence            456778899999999988775 34333332  23344668889999999999998765 32  33456688999999999


Q ss_pred             hHhhhc
Q 043594           79 DMCYTF   84 (86)
Q Consensus        79 ~~a~~~   84 (86)
                      ++|+++
T Consensus       158 ~KAId~  163 (389)
T COG2956         158 EKAIDV  163 (389)
T ss_pred             HHHHHH
Confidence            998864

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.53  E-value=0.11  Score=22.97  Aligned_cols=24  Identities=13%  Similarity=0.164  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcC
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      +++.|=..|.+.|++++|.++|++
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            467788899999999999999986

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

Probab=93.48  E-value=0.23  Score=28.35  Aligned_cols=32  Identities=6%  Similarity=-0.183  Sum_probs=28.4

Q ss_pred             hhHHHHHHHHHHHHcCCchHHHHHHHHHHHHh
Q 043594           12 IRGGTQYQCLAVRSGFVANVYVGSSLISFCGK   43 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~   43 (86)
                      +-+..-++.+|...+++|+.-+|+.+|....+
T Consensus        85 l~~LLtvYqDiL~~~lKP~~etYnivl~~Llk  116 (120)
T PF08579_consen   85 LTNLLTVYQDILSNKLKPNDETYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            45677899999999999999999999998876

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 [, , ].

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

Probab=93.47  E-value=0.27  Score=36.56  Aligned_cols=83  Identities=11%  Similarity=0.086  Sum_probs=67.1

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChh
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~   79 (86)
                      -.++-+.|.+.+|..++..+...-.--+..+|=.+-.+|-..|..+.|.+.|+...  .| ++-.--+|-+-+-+.|+.+
T Consensus       421 a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~E  500 (895)
T KOG2076|consen  421 ADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHE  500 (895)
T ss_pred             HHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHH
Confidence            35677889999999999999887555568899999999999999999999999875  35 3445566667788999999


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      +|.+.+
T Consensus       501 kalEtL  506 (895)
T KOG2076|consen  501 KALETL  506 (895)
T ss_pred             HHHHHH
Confidence            998764

>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=93.47  E-value=0.39  Score=31.28  Aligned_cols=68  Identities=7%  Similarity=-0.062  Sum_probs=51.5

Q ss_pred             CchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCCh
Q 043594           10 RNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEV   78 (86)
Q Consensus        10 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~   78 (86)
                      ..+.+|..+|.++.. .+.+++.+.|.+.-++...|++++|.+++++.-+   .|..|..-+|......|+.
T Consensus       181 e~~~~A~y~f~El~~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  181 EKYQDAFYIFEELSD-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             TCCCHHHHHHHHHHC-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-T
T ss_pred             hhHHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCC
Confidence            468999999999755 4678999999999999999999999999987543   2455666677777777766

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.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=93.30  E-value=0.67  Score=29.84  Aligned_cols=76  Identities=7%  Similarity=-0.095  Sum_probs=56.1

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchH----HHHHHHHHHHHhcCChHHHHHhhcCCCC--CC----hhhHHHHHHHHhhcCC
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANV----YVGSSLISFCGKCGENIDVYKMFEKMPV--RN----VVSWTAIIAAFAQEWE   77 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~----~~t~~~li~~~~~~g~   77 (86)
                      +.|++++|...|..+++.-  |+.    ..+=-+-..|...|++++|...|+.+..  |+    ...+--+...|.+.|+
T Consensus       155 ~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~  232 (263)
T PRK10803        155 DKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGD  232 (263)
T ss_pred             hcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCC
Confidence            4688999999999998763  332    3444566788899999999999998862  43    2334444566778999


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      .++|.++|
T Consensus       233 ~~~A~~~~  240 (263)
T PRK10803        233 TAKAKAVY  240 (263)
T ss_pred             HHHHHHHH
Confidence            99998876

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=93.29  E-value=0.3  Score=30.08  Aligned_cols=79  Identities=6%  Similarity=-0.083  Sum_probs=54.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch----HHHHHHHHHHHHhcCChHHHHHhhcCCCC--CChh----hHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN----VYVGSSLISFCGKCGENIDVYKMFEKMPV--RNVV----SWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~----t~~~li~~~~~   74 (86)
                      .+-+.|++++|...+.++.+..  |+    ...+-.+-..|.+.|++++|...|++..+  |+..    ++..+-..+.+
T Consensus        42 ~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~  119 (235)
T TIGR03302        42 EALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYN  119 (235)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHH
Confidence            4557899999999999987753  32    23566777889999999999999998752  4221    34433344444


Q ss_pred             c--------CChhHhhhcc
Q 043594           75 E--------WEVDMCYTFI   85 (86)
Q Consensus        75 ~--------g~~~~a~~~f   85 (86)
                      .        |+.++|.+.|
T Consensus       120 ~~~~~~~~~~~~~~A~~~~  138 (235)
T TIGR03302       120 QIDRVDRDQTAAREAFEAF  138 (235)
T ss_pred             hcccccCCHHHHHHHHHHH
Confidence            3        6677777655

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).

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

Probab=93.23  E-value=0.82  Score=29.50  Aligned_cols=79  Identities=5%  Similarity=-0.096  Sum_probs=63.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      +|.+.|++++|..-|.+..+.- .-++...|.|--.|.-.|+.++|+.++.+-.   ..|...-.-|.-.-+..|++++|
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHH
Confidence            4668999999999999888763 2356677778778888999999999998653   23777777788888899999998


Q ss_pred             hhc
Q 043594           82 YTF   84 (86)
Q Consensus        82 ~~~   84 (86)
                      .++
T Consensus       222 ~~i  224 (257)
T COG5010         222 EDI  224 (257)
T ss_pred             Hhh
Confidence            765

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.20  E-value=0.11  Score=23.85  Aligned_cols=36  Identities=11%  Similarity=0.231  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHH
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAI   68 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~l   68 (86)
                      ++..+-..|.+.|++++|.++|++..+  | |...|..|
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHh
Confidence            455666778888888888888887753  4 34444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=93.07  E-value=0.44  Score=33.53  Aligned_cols=59  Identities=7%  Similarity=-0.014  Sum_probs=46.9

Q ss_pred             CCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           27 FVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        27 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...++..+-++--.+...|++++|...+++..  .|+...|..+-..|...|+.++|.+.|
T Consensus       416 ~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~  476 (517)
T PRK10153        416 LNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAY  476 (517)
T ss_pred             CcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            34455677777666667899999999999875  477788888889999999999998765

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

Probab=93.03  E-value=0.55  Score=32.02  Aligned_cols=76  Identities=9%  Similarity=-0.115  Sum_probs=54.7

Q ss_pred             cCCchhHHHHHHHHHHH-HcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVR-SGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      +.++...-.+..++..+ .+-  ++-.+.+|=.-|.+.+.+.+|.+.|+.-.  .|+..+|+-+-.+|-+-|+..+|.++
T Consensus       306 ~~~d~~~l~k~~e~~l~~h~~--~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~  383 (400)
T COG3071         306 RPGDPEPLIKAAEKWLKQHPE--DPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQV  383 (400)
T ss_pred             CCCCchHHHHHHHHHHHhCCC--ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHH
Confidence            34444444444444433 222  34667777778889999999999999653  48999999999999999999998876


Q ss_pred             c
Q 043594           85 I   85 (86)
Q Consensus        85 f   85 (86)
                      +
T Consensus       384 r  384 (400)
T COG3071         384 R  384 (400)
T ss_pred             H
Confidence            5

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

Probab=92.79  E-value=0.81  Score=30.31  Aligned_cols=69  Identities=7%  Similarity=0.071  Sum_probs=49.0

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhh
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      |.++++.++|++-.++-..      +-.+.-|-.+++.+.+.|...+|......      +++..-+..|.++|++.+|.
T Consensus       215 i~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~~yI~k------~~~~~rv~~y~~~~~~~~A~  282 (319)
T PF04840_consen  215 IKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEASKYIPK------IPDEERVEMYLKCGDYKEAA  282 (319)
T ss_pred             HHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHHHHHHh------CChHHHHHHHHHCCCHHHHH
Confidence            5677788888776664321      23457777788888888888888888876      33355677888888888876


Q ss_pred             h
Q 043594           83 T   83 (86)
Q Consensus        83 ~   83 (86)
                      +
T Consensus       283 ~  283 (319)
T PF04840_consen  283 Q  283 (319)
T ss_pred             H
Confidence            4

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=92.54  E-value=0.86  Score=26.96  Aligned_cols=55  Identities=13%  Similarity=0.046  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC----hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           31 VYVGSSLISFCGKCGENIDVYKMFEKMPV--RN----VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        31 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~----~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...+..+-..|...|++++|...|++...  |+    ...|..+-..|.+.|+.++|.+.+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~   95 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYY   95 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            34566677788889999999999997642  32    357888889999999999998765

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

Probab=92.53  E-value=0.91  Score=27.82  Aligned_cols=74  Identities=11%  Similarity=-0.010  Sum_probs=51.4

Q ss_pred             chhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHH-HhhcCC--hhHhhhc
Q 043594           11 NIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAA-FAQEWE--VDMCYTF   84 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~-~~~~g~--~~~a~~~   84 (86)
                      +.+++...+....+.. ..|...|..+-..|...|++++|...|++...  | |...|..+-.. |.+.|+  .++|.++
T Consensus        54 ~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~  132 (198)
T PRK10370         54 TPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREM  132 (198)
T ss_pred             hHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHH
Confidence            3344444444444433 44667888888999999999999999997652  4 66777777776 467776  4788776


Q ss_pred             c
Q 043594           85 I   85 (86)
Q Consensus        85 f   85 (86)
                      +
T Consensus       133 l  133 (198)
T PRK10370        133 I  133 (198)
T ss_pred             H
Confidence            5

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=92.41  E-value=0.87  Score=33.30  Aligned_cols=78  Identities=3%  Similarity=-0.209  Sum_probs=61.4

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHH-HHHHHHHHHHhcCChHHHHHhhcCCC--CCCh-hhHHHHHHHHhhcCChhHhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVY-VGSSLISFCGKCGENIDVYKMFEKMP--VRNV-VSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~-~t~~~li~~~~~~g~~~~a~   82 (86)
                      ...|..++|..++......  .||.. ....+...+.+.+++++|...+++.-  .||. ...+.+-..+.+.|+.++|.
T Consensus        97 ~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~~~A~  174 (694)
T PRK15179         97 EAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQSEQAD  174 (694)
T ss_pred             HHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcchHHHH
Confidence            4578899999999988875  46544 66777788899999999999999875  3544 44566667899999999999


Q ss_pred             hccC
Q 043594           83 TFIV   86 (86)
Q Consensus        83 ~~f~   86 (86)
                      ++|+
T Consensus       175 ~~y~  178 (694)
T PRK15179        175 ACFE  178 (694)
T ss_pred             HHHH
Confidence            8874

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

Probab=92.37  E-value=0.25  Score=32.25  Aligned_cols=55  Identities=11%  Similarity=0.120  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           31 VYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        31 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..++..++..+..+|+.+.+...+++..+  | |...|.-||.+|.+.|+...|++.|
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y  210 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAY  210 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHH
Confidence            44777888899999999999988887653  3 7788999999999999999988765

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

Probab=92.21  E-value=0.49  Score=34.57  Aligned_cols=47  Identities=11%  Similarity=-0.024  Sum_probs=20.8

Q ss_pred             cCCchhHHHHHHHHHHHHcCCch-HHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            8 STRNIRGGTQYQCLAVRSGFVAN-VYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      ..|.++.|...+++....  +|+ +-.||.|-.++-..|++.+|++.+++
T Consensus       298 eqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnk  345 (966)
T KOG4626|consen  298 EQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNK  345 (966)
T ss_pred             ccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHH
Confidence            344444444444444332  222 22444444444444555555544443

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

Probab=92.17  E-value=0.15  Score=26.60  Aligned_cols=51  Identities=14%  Similarity=-0.007  Sum_probs=35.1

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      .++-+.|++++|.+++.. .+.+.. +....-.+-.+|.+.|++++|.++|++
T Consensus        33 ~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   33 QCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence            456688999999999988 333221 222333445778899999999999864

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=92.14  E-value=0.71  Score=24.83  Aligned_cols=56  Identities=5%  Similarity=-0.132  Sum_probs=44.1

Q ss_pred             cchhcCCchhHHHHHHHHHHHHc--CCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSG--FVANVYVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      ..+.+.|++++|.+.+..+.+..  ......++..+-..|.+.|+.++|...+++..+
T Consensus        47 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        47 EAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            45667899999999999998753  222355677777888999999999999998753

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.

>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=92.10  E-value=0.51  Score=27.90  Aligned_cols=56  Identities=5%  Similarity=-0.117  Sum_probs=34.3

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      |+...+.|.-++..++...+.+ +-++++...-.+-++|.+-|...+|.+++.+.++
T Consensus        93 Ld~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   93 LDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             HHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            4455566777777777777776 3466777777777888888888888777765443

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

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.05  E-value=0.27  Score=21.68  Aligned_cols=26  Identities=12%  Similarity=0.116  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      .+++.|-..|...|++++|..++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHH
Confidence            46788888899999999999888764

>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=91.89  E-value=0.84  Score=32.26  Aligned_cols=50  Identities=12%  Similarity=0.126  Sum_probs=28.3

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      +.|++.+|-+..+...... .-|-++-+..+..+.++|++++|.+++....
T Consensus       240 h~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ft  289 (517)
T PF12569_consen  240 HAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFT  289 (517)
T ss_pred             HCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhc
Confidence            4566666655555554443 2355566666666666666666666555443

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 [], [].

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=91.56  E-value=0.44  Score=19.39  Aligned_cols=20  Identities=10%  Similarity=0.097  Sum_probs=12.5

Q ss_pred             HHHHHHHhcCChHHHHHhhc
Q 043594           36 SLISFCGKCGENIDVYKMFE   55 (86)
Q Consensus        36 ~li~~y~~~g~~~~A~~~~~   55 (86)
                      .+-..+...|++++|+.+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34455666677777766655

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.43  E-value=0.86  Score=31.27  Aligned_cols=49  Identities=8%  Similarity=0.278  Sum_probs=39.9

Q ss_pred             HHHHHHhcCChHHHHHhhcCCCCC---ChhhHHHHH-HHHhhcCChhHhhhcc
Q 043594           37 LISFCGKCGENIDVYKMFEKMPVR---NVVSWTAII-AAFAQEWEVDMCYTFI   85 (86)
Q Consensus        37 li~~y~~~g~~~~A~~~~~~m~~~---~~~t~~~li-~~~~~~g~~~~a~~~f   85 (86)
                      +-.+++.-|...+|+++|=.+..|   |-.+|-+++ ..|.++|++.-|.++|
T Consensus       399 ~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~  451 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMM  451 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHH
Confidence            455667779999999999988764   677887776 6799999999998765

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

Probab=91.41  E-value=1.6  Score=30.55  Aligned_cols=76  Identities=11%  Similarity=0.059  Sum_probs=61.3

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCch-HHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVAN-VYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      +.+.++..+|.+.++.++..  .|+ ..++-.+=.+|.+.|+..+|...++.-.  .| |...|..|-.+|...|+..++
T Consensus       350 ~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a  427 (484)
T COG4783         350 LLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEA  427 (484)
T ss_pred             HHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHH
Confidence            34678888998888888775  466 5566667789999999999999998764  34 788999999999999998887


Q ss_pred             hh
Q 043594           82 YT   83 (86)
Q Consensus        82 ~~   83 (86)
                      ..
T Consensus       428 ~~  429 (484)
T COG4783         428 LL  429 (484)
T ss_pred             HH
Confidence            54

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=91.39  E-value=0.56  Score=27.59  Aligned_cols=73  Identities=5%  Similarity=-0.141  Sum_probs=52.4

Q ss_pred             hHHHHHHHHHH-HHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC----hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           13 RGGTQYQCLAV-RSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN----VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        13 ~~a~~~~~~m~-~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~----~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .++...+..+. ..+-.--...+..+...+...|++++|...|++..  .|+    ..+|..+=..|.+.|+.++|.+.|
T Consensus        16 ~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~   95 (168)
T CHL00033         16 TIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYY   95 (168)
T ss_pred             ccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            33444445553 33333346677788888888999999999999763  232    347888889999999999999875

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

Probab=91.34  E-value=0.066  Score=39.97  Aligned_cols=75  Identities=9%  Similarity=0.174  Sum_probs=59.3

Q ss_pred             CchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCC---ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           10 RNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVR---NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        10 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +..+.|.++|..+.+.. +.|.+.-|=+=-.++.+|++.+|.++|.+..+.   +.-+|--+-..|...|++..|++.|
T Consensus       626 k~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmY  703 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHH
Confidence            45678889998888753 335556665666678899999999999998753   4567888889999999999999877

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

Probab=91.00  E-value=1  Score=29.71  Aligned_cols=79  Identities=11%  Similarity=-0.020  Sum_probs=62.0

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      .+.+++.+|.+.|.+.++.. .-|++-|.----+|++-|.++.|.+=-+.-..  | ..-+|..|=.+|.-.|++++|.+
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHH
Confidence            45688889999999888753 34677788888999999999999886665443  3 35678888899999999999988


Q ss_pred             ccC
Q 043594           84 FIV   86 (86)
Q Consensus        84 ~f~   86 (86)
                      .|+
T Consensus       171 ayk  173 (304)
T KOG0553|consen  171 AYK  173 (304)
T ss_pred             HHH
Confidence            753

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

Probab=90.78  E-value=1.2  Score=29.77  Aligned_cols=65  Identities=14%  Similarity=-0.028  Sum_probs=48.9

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAII   69 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li   69 (86)
                      .++.+.|++++|...+.+.++.. ..+...|..+-..|...|++++|...|++..  .|+......++
T Consensus        44 ~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         44 QANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            35667899999999999998864 2356678888889999999999999999875  35433333333

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

Probab=90.69  E-value=1  Score=31.95  Aligned_cols=77  Identities=12%  Similarity=0.015  Sum_probs=54.0

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC--CCCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM--PVRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m--~~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...+..|..+|++.+..==+ -.-.|=.-+.|=-.-|++..|+++|+.=  .+||...|++.|.-=.|.+.++.|..++
T Consensus       119 knk~vNhARNv~dRAvt~lPR-VdqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IY  197 (677)
T KOG1915|consen  119 KNKQVNHARNVWDRAVTILPR-VDQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIY  197 (677)
T ss_pred             hhhhHhHHHHHHHHHHHhcch-HHHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            345566777777766654211 2224444444555568888888888863  2799999999999999999999998776

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=90.28  E-value=0.79  Score=21.76  Aligned_cols=34  Identities=9%  Similarity=-0.049  Sum_probs=28.8

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHH
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISF   40 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   40 (86)
                      -+.|.+++++.+++.|.+.|+..++.++..++.-
T Consensus        13 k~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen   13 KRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            3568888999999999999999999988887753

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

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

Probab=90.04  E-value=0.97  Score=32.33  Aligned_cols=78  Identities=9%  Similarity=0.008  Sum_probs=56.9

Q ss_pred             CCchhHHHHHHHHHHHH--cCCc----hHHHHHHHHHHHHhcCChHHHHHhhcCC---CCCChhhHHHHHHHHhhcCChh
Q 043594            9 TRNIRGGTQYQCLAVRS--GFVA----NVYVGSSLISFCGKCGENIDVYKMFEKM---PVRNVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~--g~~~----~~~~~~~li~~y~~~g~~~~A~~~~~~m---~~~~~~t~~~li~~~~~~g~~~   79 (86)
                      .+.+.+|..+|...+..  ..-+    -..+++.|=..|-++++.++|...|++-   ...|..+++++=-.|...|+++
T Consensus       427 ~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld  506 (611)
T KOG1173|consen  427 YEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLD  506 (611)
T ss_pred             HhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChH
Confidence            45677777777666511  1111    2346777778888999999999999863   4568888888888899999999


Q ss_pred             HhhhccC
Q 043594           80 MCYTFIV   86 (86)
Q Consensus        80 ~a~~~f~   86 (86)
                      .|++.|+
T Consensus       507 ~Aid~fh  513 (611)
T KOG1173|consen  507 KAIDHFH  513 (611)
T ss_pred             HHHHHHH
Confidence            9988763

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

Probab=89.97  E-value=1.2  Score=31.95  Aligned_cols=47  Identities=13%  Similarity=0.307  Sum_probs=37.2

Q ss_pred             cCCchhHHHHHHHHHHHHcCCc-hHHHHHHHHHHHHhcCChHHHHHhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVA-NVYVGSSLISFCGKCGENIDVYKMFE   55 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~   55 (86)
                      +..-+..|+.+|....+.+-.+ ++++.+++|..||. ++..-|.++|+
T Consensus       378 R~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  378 RAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             HhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            4455778889999999888777 88999999998775 56667777776

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=89.81  E-value=1.2  Score=33.49  Aligned_cols=75  Identities=8%  Similarity=0.021  Sum_probs=56.0

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhh
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      |..|.++|.+.+|.++-.+..  |=+....+|-+--.-.-+.|++.+|+++|-.+.+||..     |..|-+.|..+..+
T Consensus       798 i~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~a-----iqmydk~~~~ddmi  870 (1636)
T KOG3616|consen  798 IDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDKA-----IQMYDKHGLDDDMI  870 (1636)
T ss_pred             HHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchHH-----HHHHHhhCcchHHH
Confidence            567889999999887765442  33344556666666677889999999999999889876     77888888777766


Q ss_pred             hc
Q 043594           83 TF   84 (86)
Q Consensus        83 ~~   84 (86)
                      ++
T Consensus       871 rl  872 (1636)
T KOG3616|consen  871 RL  872 (1636)
T ss_pred             HH
Confidence            54

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

Probab=89.78  E-value=1.1  Score=28.67  Aligned_cols=80  Identities=10%  Similarity=-0.039  Sum_probs=56.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC-CCC----hhhHHHHHHHHhhcCChh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP-VRN----VVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~-~~~----~~t~~~li~~~~~~g~~~   79 (86)
                      .|.+.|..+.|.+-|....+.. +-+--+.|..=-.+|..|++++|...|++-. .|+    ..||.-+--...+.|+.+
T Consensus        78 ~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~  156 (250)
T COG3063          78 YYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFD  156 (250)
T ss_pred             HHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCch
Confidence            3556788888888888776643 1234466666667888899999999888654 343    346766666777888888


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      .|.+.|
T Consensus       157 ~A~~~l  162 (250)
T COG3063         157 QAEEYL  162 (250)
T ss_pred             hHHHHH
Confidence            887765

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

Probab=89.57  E-value=0.79  Score=34.31  Aligned_cols=68  Identities=7%  Similarity=-0.063  Sum_probs=29.4

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CChhhHHHHHHHHhhcCC
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RNVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~t~~~li~~~~~~g~   77 (86)
                      .|..++|..+++.....+.. |..|..++...|-..|+.++|..+|+...+  |+..--..+..+|.|-++
T Consensus        56 ~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~P~eell~~lFmayvR~~~  125 (932)
T KOG2053|consen   56 LGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQKYPSEELLYHLFMAYVREKS  125 (932)
T ss_pred             hcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhhCCcHHHHHHHHHHHHHHHH
Confidence            34444444444433333322 444444555555555555555555544432  333333334444444443

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

Probab=89.51  E-value=0.76  Score=36.20  Aligned_cols=71  Identities=11%  Similarity=0.080  Sum_probs=42.2

Q ss_pred             chhHHHHHHHHHHHHcCCchH-HHHHHHHHHHHhcCChHHHHHhhcCCCCC---ChhhHHHHHHHHhhcCChhHhhhc
Q 043594           11 NIRGGTQYQCLAVRSGFVANV-YVGSSLISFCGKCGENIDVYKMFEKMPVR---NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      .-+...++|++..+..   |+ .+|..|...|-+.++.++|-++++.|-++   ...+|...+....+.++-++|.++
T Consensus      1512 ~eesl~kVFeRAcqyc---d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~l 1586 (1710)
T KOG1070|consen 1512 TEESLKKVFERACQYC---DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAAREL 1586 (1710)
T ss_pred             cHHHHHHHHHHHHHhc---chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHH
Confidence            3444555555555543   22 35666667777777777777777776532   345666666666666665555444

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

Probab=89.02  E-value=1.6  Score=32.12  Aligned_cols=81  Identities=9%  Similarity=0.055  Sum_probs=63.4

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC-hhhHHHHHHHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN-VVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~-~~t~~~li~~~~~~g~~~~   80 (86)
                      .++-..|++.+|.+.+.......- -..-..+.|-..|...|.+++|..+|...-+  |+ ...+|-|-+-|-+.|++++
T Consensus       328 nALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~  406 (966)
T KOG4626|consen  328 NALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDD  406 (966)
T ss_pred             HHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHH
Confidence            455677999999999988877642 2344778888899999999999999987653  44 3568888899999999999


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |+..+
T Consensus       407 Ai~~Y  411 (966)
T KOG4626|consen  407 AIMCY  411 (966)
T ss_pred             HHHHH
Confidence            98654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.61  E-value=1.2  Score=29.31  Aligned_cols=66  Identities=11%  Similarity=0.102  Sum_probs=46.8

Q ss_pred             hhHHHHHHHHHHHHcCCchHHHHHHHHHHHHh--c----CChHHHHHhhcCCCC-------CChhhHHHHHHHHhhcCCh
Q 043594           12 IRGGTQYQCLAVRSGFVANVYVGSSLISFCGK--C----GENIDVYKMFEKMPV-------RNVVSWTAIIAAFAQEWEV   78 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~--~----g~~~~A~~~~~~m~~-------~~~~t~~~li~~~~~~g~~   78 (86)
                      +++...++..|.+.||.-+.++|-+-......  .    -...+|..+|+.|.+       ++-+++.+|+.+  +.+++
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            66778899999999999998887764333333  2    345788899999963       466777777766  44444


Q ss_pred             h
Q 043594           79 D   79 (86)
Q Consensus        79 ~   79 (86)
                      +
T Consensus       156 e  156 (297)
T PF13170_consen  156 E  156 (297)
T ss_pred             H
Confidence            3

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.53  E-value=0.74  Score=33.94  Aligned_cols=70  Identities=10%  Similarity=0.073  Sum_probs=48.2

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhhh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      .+++..+++++-+++-+.+.      .+.-|-.++..+.+.|+.++|.+.+.....  ..   -...+|.+.|++.+|.+
T Consensus       723 ~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~~--l~---ekv~ay~~~~~~~eAad  791 (829)
T KOG2280|consen  723 TALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVGG--LQ---EKVKAYLRVGDVKEAAD  791 (829)
T ss_pred             HHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccCC--hH---HHHHHHHHhccHHHHHH
Confidence            45566666666655544332      245566678888999999999998886543  11   56788999999988875


Q ss_pred             c
Q 043594           84 F   84 (86)
Q Consensus        84 ~   84 (86)
                      +
T Consensus       792 ~  792 (829)
T KOG2280|consen  792 L  792 (829)
T ss_pred             H
Confidence            3

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=88.27  E-value=2.5  Score=24.00  Aligned_cols=69  Identities=7%  Similarity=-0.017  Sum_probs=47.5

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCch----HHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVAN----VYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQ   74 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~   74 (86)
                      +.+...|+.++|..++......-  |+    ..+...+-..+...|+.++|...+-+..-++...|.--|..|..
T Consensus        46 stlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l~~la~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   46 STLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALYNLGRPKEALEWLLEALAETLPRYRRAIRFYAD  118 (120)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45667899999999999887652  33    22222333466778999999998876544555567666666653

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=88.16  E-value=4  Score=24.69  Aligned_cols=52  Identities=10%  Similarity=-0.035  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCCCCC------hhhHHHHHHHHhhcCChhHhhh
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMPVRN------VVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~~~~------~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      ..+..+-+-|++.|+.++|.+.|.++.+..      +..+-.+|......|++..+..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~   94 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEK   94 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            478888899999999999999999987542      3345667777777778776654

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

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

Probab=87.99  E-value=1.2  Score=31.29  Aligned_cols=59  Identities=5%  Similarity=0.052  Sum_probs=49.0

Q ss_pred             CCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           27 FVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        27 ~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++| |++.|.+|=+.|.+-+++++|.++|.....   .+...+..|-..|=+-++..+|...|
T Consensus       427 ~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~y  489 (559)
T KOG1155|consen  427 LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYY  489 (559)
T ss_pred             cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHH
Confidence            445 788999999999999999999999997653   34477888888899988888887655

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=87.96  E-value=0.84  Score=19.87  Aligned_cols=22  Identities=5%  Similarity=0.188  Sum_probs=13.1

Q ss_pred             ChhhHHHHHHHHhhcCChhHhh
Q 043594           61 NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus        61 ~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      |..+|+-|=..|.+.|+.++|.
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            4555666666666666666654

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

Probab=87.87  E-value=2.3  Score=32.05  Aligned_cols=76  Identities=8%  Similarity=0.033  Sum_probs=57.6

Q ss_pred             cCCchhHHHHHHHHHHHH-cCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhh
Q 043594            8 STRNIRGGTQYQCLAVRS-GFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      ..+++.+|.+..+.+.+. +-.+-..++.+++  ..|.|+.++|..+++....   -|..|-.++-..|-+.|+.++|..
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHH
Confidence            457788888888777554 4444444444443  3578999999999998754   278899999999999999999998


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      +|
T Consensus        99 ~Y  100 (932)
T KOG2053|consen   99 LY  100 (932)
T ss_pred             HH
Confidence            76

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

Probab=87.52  E-value=0.65  Score=33.90  Aligned_cols=43  Identities=23%  Similarity=0.309  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCCC--CChhhHHHHHHHHhh
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMPV--RNVVSWTAIIAAFAQ   74 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~t~~~li~~~~~   74 (86)
                      +.|++|-+.|.+.|++++|+++|++-..  -.+--|+.+.++|++
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~  293 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQ  293 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHH
Confidence            4888888888888888888888886432  233345556666654

>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=87.28  E-value=3.3  Score=29.38  Aligned_cols=78  Identities=5%  Similarity=-0.032  Sum_probs=59.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCch-HHHHHHHHHHHHhcCChHHHHHhhcCCCCC---ChhhHHHHHHHHhhcCChhHh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVAN-VYVGSSLISFCGKCGENIDVYKMFEKMPVR---NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~t~~~li~~~~~~g~~~~a   81 (86)
                      +...|+.++|.+..+..+..  .|+ +-.|-.--..|-+.|++++|.+.+++-..-   |-..=|-...-+.|+|++++|
T Consensus       204 yd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A  281 (517)
T PF12569_consen  204 YDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEA  281 (517)
T ss_pred             HHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHH
Confidence            45678899998888877775  465 346777777888999999999999876653   444556677888999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+++
T Consensus       282 ~~~~  285 (517)
T PF12569_consen  282 EKTA  285 (517)
T ss_pred             HHHH
Confidence            8754

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 [], [].

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

Probab=87.14  E-value=1.5  Score=30.01  Aligned_cols=50  Identities=8%  Similarity=-0.047  Sum_probs=43.4

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      |-+.+.+.+|...++.-.  ..+|+..+|+-+-+.|-+.|+.++|.+++++-
T Consensus       338 ~~k~~~w~kA~~~leaAl--~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~  387 (400)
T COG3071         338 ALKNKLWGKASEALEAAL--KLRPSASDYAELADALDQLGEPEEAEQVRREA  387 (400)
T ss_pred             HHHhhHHHHHHHHHHHHH--hcCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Confidence            557788999999999444  46799999999999999999999999998863

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=87.01  E-value=2.6  Score=29.45  Aligned_cols=71  Identities=8%  Similarity=-0.078  Sum_probs=54.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchH----HHHHHHHHHHHhcCChHHHHHhhcCCCC------------CCh------
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANV----YVGSSLISFCGKCGENIDVYKMFEKMPV------------RNV------   62 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~y~~~g~~~~A~~~~~~m~~------------~~~------   62 (86)
                      ++.+.|++++|...++..++..  |+.    ..|..+-.+|.+.|++++|.+.+++..+            ||.      
T Consensus        84 AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~~f~~i~~DpdL~plR~~  161 (453)
T PLN03098         84 SLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNLKFSTILNDPDLAPFRAS  161 (453)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcchhHHHHHhCcchhhhccc
Confidence            5667899999999999988864  653    4689999999999999999998886532            222      


Q ss_pred             hhHHHHHHHHhhcCC
Q 043594           63 VSWTAIIAAFAQEWE   77 (86)
Q Consensus        63 ~t~~~li~~~~~~g~   77 (86)
                      ..|..++.+..+.|.
T Consensus       162 pef~eLlee~rk~G~  176 (453)
T PLN03098        162 PEFKELQEEARKGGE  176 (453)
T ss_pred             HHHHHHHHHHHHhCC
Confidence            245667777766665

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion)

Probab=86.86  E-value=4  Score=23.14  Aligned_cols=67  Identities=10%  Similarity=-0.020  Sum_probs=43.0

Q ss_pred             hhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHh
Q 043594           12 IRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      -++|.-|.+-+...+- ....+-=+-+..+.+.|++++|...=...+.||+..|-+|-.  .|.|.-+++
T Consensus        22 H~EA~tIa~wL~~~~~-~~E~v~lIr~~sLmNrG~Yq~ALl~~~~~~~pdL~p~~AL~a--~klGL~~~~   88 (116)
T PF09477_consen   22 HQEANTIADWLEQEGE-MEEVVALIRLSSLMNRGDYQEALLLPQCHCYPDLEPWAALCA--WKLGLASAL   88 (116)
T ss_dssp             HHHHHHHHHHHHHTTT-THHHHHHHHHHHHHHTT-HHHHHHHHTTS--GGGHHHHHHHH--HHCT-HHHH
T ss_pred             HHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHhhHHHHHHHHhcccCCCccHHHHHHHHH--HhhccHHHH
Confidence            4677778777777664 344444455677889999999966666667799999987643  344544443

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=86.23  E-value=2.3  Score=30.08  Aligned_cols=48  Identities=10%  Similarity=-0.110  Sum_probs=42.9

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      ..|++++|.+.+++....+  |+...|..+-..|...|+.++|.+.|++-
T Consensus       432 ~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        432 VKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             hcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3589999999999988876  68889999999999999999999999874

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

Probab=86.21  E-value=1.9  Score=31.25  Aligned_cols=42  Identities=7%  Similarity=0.126  Sum_probs=21.2

Q ss_pred             HhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhh
Q 043594           42 GKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus        42 ~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      ...++.++|...+++.++  | +...|-.+-..|-+-|+-+.|+.
T Consensus       568 ~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~  612 (638)
T KOG1126|consen  568 FSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALL  612 (638)
T ss_pred             HhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHH
Confidence            334455555555554432  3 33445555555666666555553

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=85.93  E-value=2.2  Score=30.34  Aligned_cols=69  Identities=13%  Similarity=0.004  Sum_probs=51.3

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~   79 (86)
                      +-+.|++..|...+.++++.. +-|...|+..--+|.+.|.+..|..--+...+.|.    ..+.||.|.|-..
T Consensus       368 ~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p----~~~kgy~RKg~al  436 (539)
T KOG0548|consen  368 AFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDP----NFIKAYLRKGAAL  436 (539)
T ss_pred             HHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc----hHHHHHHHHHHHH
Confidence            456799999999999999887 66888999999999999999988886554443222    1245555555433

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

Probab=85.87  E-value=5.6  Score=24.90  Aligned_cols=69  Identities=4%  Similarity=-0.001  Sum_probs=53.8

Q ss_pred             hHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC-------CCCChhhHHHHHHHHhhcCChhHhh
Q 043594           13 RGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM-------PVRNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus        13 ~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m-------~~~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      ++|.+.|-.+...+---|+...-+|-..|. ..+.++|..++.+.       ..+|...+.+|.+.|-+.|+.+.|.
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            467777777888776677778878777776 56777777766644       2468889999999999999999885

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=85.69  E-value=3.1  Score=25.15  Aligned_cols=49  Identities=10%  Similarity=-0.071  Sum_probs=34.4

Q ss_pred             CchhHHHHHHHHHHH-HcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594           10 RNIRGGTQYQCLAVR-SGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus        10 ~~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .+.+......+-..+ ....|++.++..++..+...|+.++|.+..+++.
T Consensus       122 ~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~  171 (193)
T PF11846_consen  122 PDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARAR  171 (193)
T ss_pred             CCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            333344444444433 3467888888888888899999999988888775

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

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

Probab=85.60  E-value=3.3  Score=32.98  Aligned_cols=84  Identities=8%  Similarity=0.055  Sum_probs=56.0

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhc--------------------------
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFE--------------------------   55 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~--------------------------   55 (86)
                      |+.-|.+....++|-++++.|.+. +.-...+|....+...+..+-+.|..++.                          
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~G 1614 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYG 1614 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcC
Confidence            344566778888999999999663 22455566666666666655444444444                          


Q ss_pred             ----------CCC--CC-ChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           56 ----------KMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        56 ----------~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                                ...  .| -.-.|+..|+.=.++|+.+.+.++|+
T Consensus      1615 DaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfe 1658 (1710)
T KOG1070|consen 1615 DAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFE 1658 (1710)
T ss_pred             CchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHH
Confidence                      322  11 34568999999999999888888874

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

Probab=85.49  E-value=2.3  Score=27.85  Aligned_cols=68  Identities=3%  Similarity=-0.162  Sum_probs=51.9

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---------CCChhhHHHHHHH
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---------VRNVVSWTAIIAA   71 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---------~~~~~t~~~li~~   71 (86)
                      +.++...|+++.+...+.++.... .-|...|-.+|.+|.+.|+...|...|+++.         +|-..++......
T Consensus       160 ae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~~~  236 (280)
T COG3629         160 AEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYEEI  236 (280)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHHHH
Confidence            345556677888888888887754 4578899999999999999999999999874         3555555555444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.24  E-value=1.6  Score=29.44  Aligned_cols=46  Identities=9%  Similarity=0.018  Sum_probs=33.9

Q ss_pred             hhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594           12 IRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      ..++.-+...-+.-|+-||.++++.+|+.+.+.+.+.+|-.+.-.|
T Consensus       116 pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  116 PQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             hHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHH
Confidence            3445555555567788888888888888888888888877766554

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

Probab=84.74  E-value=4.4  Score=27.70  Aligned_cols=80  Identities=4%  Similarity=-0.180  Sum_probs=50.9

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CChhhHH-HHHHHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RNVVSWT-AIIAAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~t~~-~li~~~~~~g~~~~   80 (86)
                      +++-+.|...+|++-+..-.+.-  |.+-||--|-+.|-+-.+.+.|..+|.+-.+  |..+||- .+-..+-..++.++
T Consensus       231 kCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~  308 (478)
T KOG1129|consen  231 KCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQED  308 (478)
T ss_pred             HHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHH
Confidence            34556778888887777666553  4455666677888888888888888876542  5444443 23344555556666


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |.+++
T Consensus       309 a~~lY  313 (478)
T KOG1129|consen  309 ALQLY  313 (478)
T ss_pred             HHHHH
Confidence            65554

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=84.73  E-value=2.1  Score=31.71  Aligned_cols=66  Identities=11%  Similarity=0.122  Sum_probs=53.2

Q ss_pred             HHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           20 CLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        20 ~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .++....++.|+.+|..|.-+..++|+++.+-+.|++...   .....|+.+-..|.-+|.-..|..+.
T Consensus       312 ~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll  380 (799)
T KOG4162|consen  312 RKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLL  380 (799)
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHH
Confidence            3444456888999999999999999999999999997542   34567888888888888877777654

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

Probab=84.68  E-value=1.6  Score=31.05  Aligned_cols=80  Identities=10%  Similarity=0.007  Sum_probs=56.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcC-------CchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhc
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGF-------VANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQE   75 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~-------~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~   75 (86)
                      +.+.+++++|.+-|+...+.-=       .+-+.+--+++-.--+ +++..|.+++++-.+   +....|-+|-..-.+.
T Consensus       472 LtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~  550 (606)
T KOG0547|consen  472 LTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQAYETLAQFELQR  550 (606)
T ss_pred             HhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHH
Confidence            4566788899888888766421       1223333333332233 889999999987765   3567899999999999


Q ss_pred             CChhHhhhccC
Q 043594           76 WEVDMCYTFIV   86 (86)
Q Consensus        76 g~~~~a~~~f~   86 (86)
                      |++++|+++|+
T Consensus       551 ~~i~eAielFE  561 (606)
T KOG0547|consen  551 GKIDEAIELFE  561 (606)
T ss_pred             hhHHHHHHHHH
Confidence            99999999984

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

Probab=84.10  E-value=2.7  Score=30.48  Aligned_cols=80  Identities=8%  Similarity=-0.105  Sum_probs=58.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.|.+.++.|+-.|...+..+ .-+.++...+-..+-+.|+.++|.++|++..   ..|+.+-=-...-+...++.++|
T Consensus       498 vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~ea  576 (638)
T KOG1126|consen  498 VYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEA  576 (638)
T ss_pred             heeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHH
Confidence            3567788888888888777655 3356677777788889999999999999764   34665544556666777888888


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      +..+
T Consensus       577 l~~L  580 (638)
T KOG1126|consen  577 LQEL  580 (638)
T ss_pred             HHHH
Confidence            7665

>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=83.67  E-value=5.2  Score=22.28  Aligned_cols=50  Identities=2%  Similarity=-0.048  Sum_probs=31.8

Q ss_pred             HHHHHHHHhcCChHHHHHhhcCC--CCC--------ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           35 SSLISFCGKCGENIDVYKMFEKM--PVR--------NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        35 ~~li~~y~~~g~~~~A~~~~~~m--~~~--------~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++|+.+|... +......+++.=  +.+        ...-|..|+.-|...|..++|++++
T Consensus         3 TaLlk~Yl~~-~~~~l~~llr~~N~C~~~~~e~~L~~~~~~~eL~~lY~~kg~h~~AL~ll   62 (108)
T PF10366_consen    3 TALLKCYLET-NPSLLGPLLRLPNYCDLEEVEEVLKEHGKYQELVDLYQGKGLHRKALELL   62 (108)
T ss_pred             HHHHHHHHHh-CHHHHHHHHccCCcCCHHHHHHHHHHcCCHHHHHHHHHccCccHHHHHHH
Confidence            4556666665 444444444421  111        2335889999999999999998876

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.

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

Probab=83.66  E-value=1.3  Score=33.41  Aligned_cols=50  Identities=18%  Similarity=0.230  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhh
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      ..-.+-.+|-+.|+.++|..++++..+  | |..+-|-+--.|... ++++|.+
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~  170 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAIT  170 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHH
Confidence            444444445555555555555554432  1 333444444444444 4444443

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

Probab=83.62  E-value=2.6  Score=30.21  Aligned_cols=78  Identities=15%  Similarity=0.068  Sum_probs=52.2

Q ss_pred             cCCchhHHHHHHHHHHH-HcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhh
Q 043594            8 STRNIRGGTQYQCLAVR-SGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +...+....++|-++.. .+-.+|+-+.+.|==-|--.|.+++|.++|+...  +| |...||-|=...+...+-++|+.
T Consensus       406 ~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIs  485 (579)
T KOG1125|consen  406 DSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAIS  485 (579)
T ss_pred             CHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHH
Confidence            33445566666666644 4544566666666556677888999999888653  35 56778887777777777777765


Q ss_pred             cc
Q 043594           84 FI   85 (86)
Q Consensus        84 ~f   85 (86)
                      -|
T Consensus       486 AY  487 (579)
T KOG1125|consen  486 AY  487 (579)
T ss_pred             HH
Confidence            44

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=83.51  E-value=1.8  Score=27.93  Aligned_cols=55  Identities=7%  Similarity=-0.091  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHhhcCCC--CCCh----hhHHHHHHHHhhcCChhHhhhcc
Q 043594           31 VYVGSSLISFCGKCGENIDVYKMFEKMP--VRNV----VSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        31 ~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~----~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...|..-+.-+.+.|++++|...|+.+.  .|+.    ..+--+-..|...|+.++|...|
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f  203 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYF  203 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3457777776677899999999999886  3543    35556668899999999999876

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=83.08  E-value=2.4  Score=17.77  Aligned_cols=26  Identities=8%  Similarity=0.036  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      .+|..+=..|...|++++|.+.|++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~a   27 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRA   27 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHH
Confidence            35566667777778888887777654

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

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

Probab=82.91  E-value=6.5  Score=26.69  Aligned_cols=48  Identities=6%  Similarity=-0.025  Sum_probs=25.2

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      .|++..|.+.++.+.+.+-..-+.+...|..+|...|+.++....+.+
T Consensus       227 ~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~  274 (389)
T COG2956         227 KGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRR  274 (389)
T ss_pred             ccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            355555555555555555444444555555555555555555554443

>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=82.44  E-value=2.6  Score=23.54  Aligned_cols=48  Identities=10%  Similarity=0.043  Sum_probs=33.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      +.+..+...-.++-..+.+.+      -|..|+..|-..|..++|.+++.+..+
T Consensus        20 llr~~N~C~~~~~e~~L~~~~------~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   20 LLRLPNYCDLEEVEEVLKEHG------KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             HHccCCcCCHHHHHHHHHHcC------CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            333334444444545555554      589999999999999999999987654

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.38  E-value=2.9  Score=25.00  Aligned_cols=64  Identities=5%  Similarity=-0.023  Sum_probs=41.0

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHH---HHHHHHHHHHhcCChHHHHHhhcCCCCCC-hhhHHHHHHHHhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVY---VGSSLISFCGKCGENIDVYKMFEKMPVRN-VVSWTAIIAAFAQE   75 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~---~~~~li~~y~~~g~~~~A~~~~~~m~~~~-~~t~~~li~~~~~~   75 (86)
                      ..++.++++.++..|...  +|+..   ++...+  +...|++.+|..+|++..+.. ...|..-+.++|-.
T Consensus        22 ~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~   89 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVL--RPNLKELDMFDGWL--LIARGNYDEAARILRELLSSAGAPPYGKALLALCLN   89 (153)
T ss_pred             hcCCHHHHHHHHHHHHHh--CCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHH
Confidence            356777888888877553  34433   444333  467889999999999887643 44566655555543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=82.12  E-value=3.9  Score=24.62  Aligned_cols=65  Identities=8%  Similarity=-0.071  Sum_probs=42.3

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHH---HHHHHHHHHHhcCChHHHHHhhcCCCCC--ChhhHHHHHHHHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVY---VGSSLISFCGKCGENIDVYKMFEKMPVR--NVVSWTAIIAAFAQ   74 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~---~~~~li~~y~~~g~~~~A~~~~~~m~~~--~~~t~~~li~~~~~   74 (86)
                      -.+.++.+.++.++..+...  +|...   ++...+  +.+.|++.+|..+|+++.+.  ....-..|+.-|.+
T Consensus        20 al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~   89 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWL--HIVRGDWDDALRLLRELEERAPGFPYAKALLALCLY   89 (160)
T ss_pred             HHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHH--HHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHH
Confidence            34567888898888888664  34433   444443  47889999999999998753  33333445544443

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=82.03  E-value=6.9  Score=22.32  Aligned_cols=37  Identities=5%  Similarity=0.040  Sum_probs=16.8

Q ss_pred             HHHHhhcCCCCC-----ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           49 DVYKMFEKMPVR-----NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        49 ~A~~~~~~m~~~-----~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++.++|+.|...     -..-|...-.-+-+.|++.+|.++|
T Consensus        81 ~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~  122 (126)
T PF08311_consen   81 DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIY  122 (126)
T ss_dssp             HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            555555554321     2223444444455555555555544

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

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

Probab=81.79  E-value=2.8  Score=28.03  Aligned_cols=33  Identities=9%  Similarity=0.062  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHcCCchHHHHHHHHHHHHhcCCh
Q 043594           15 GTQYQCLAVRSGFVANVYVGSSLISFCGKCGEN   47 (86)
Q Consensus        15 a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~   47 (86)
                      +..++++|...|+.||-.+-..||..+++.+..
T Consensus       142 ~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  142 AIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            568999999999999999999999999998754

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=81.06  E-value=4.7  Score=24.17  Aligned_cols=51  Identities=8%  Similarity=0.010  Sum_probs=41.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      |...|++.+|.+.|........ -|+..+=.+=.+|.+.|+.+.|++.|+..
T Consensus        79 ~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A~~aF~~A  129 (157)
T PRK15363         79 CQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYAIKALKAV  129 (157)
T ss_pred             HHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3457899999999999988773 56666666777899999999999999964

>PRK15331 chaperone protein SicA; Provisional

Probab=81.05  E-value=9.9  Score=23.03  Aligned_cols=77  Identities=5%  Similarity=-0.057  Sum_probs=45.7

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC---CCCChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM---PVRNVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m---~~~~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      ..|++++|+.+|..+...++. |..-|-.|=..|=..+.+++|...|.-.   ..-|....=-+=..|..-|+.++|.+.
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~~  127 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQC  127 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHH
Confidence            568888888888888776532 2333445555555568888888877632   111222222223456666777777665


Q ss_pred             c
Q 043594           85 I   85 (86)
Q Consensus        85 f   85 (86)
                      |
T Consensus       128 f  128 (165)
T PRK15331        128 F  128 (165)
T ss_pred             H
Confidence            4

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=81.05  E-value=9  Score=22.59  Aligned_cols=69  Identities=7%  Similarity=-0.091  Sum_probs=47.4

Q ss_pred             cCCchhHHHHHHHHHHHHc--CCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC--hhhHHHHHHHHhhcC
Q 043594            8 STRNIRGGTQYQCLAVRSG--FVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN--VVSWTAIIAAFAQEW   76 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~--~~t~~~li~~~~~~g   76 (86)
                      +.|++++|.+.|+.+..+=  -+-....-=-|+.+|.+.|++++|...+++...  |+  -+-|--.+.|++.-.
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            5689999999999887751  122334555688999999999999999998752  32  134555555544433

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=80.72  E-value=6.7  Score=20.88  Aligned_cols=45  Identities=13%  Similarity=-0.047  Sum_probs=30.5

Q ss_pred             cCCchhHHHHHHHHHHHHcCCc-hH-HHHHHHHHHHHhcCChHHHHH
Q 043594            8 STRNIRGGTQYQCLAVRSGFVA-NV-YVGSSLISFCGKCGENIDVYK   52 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~-~~-~~~~~li~~y~~~g~~~~A~~   52 (86)
                      ....-.+|...|....+.-..| +- .+...++.+|+.-|+++++.+
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556677777777776654433 32 277778888888888877765

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=80.37  E-value=3.3  Score=27.29  Aligned_cols=73  Identities=8%  Similarity=0.097  Sum_probs=56.3

Q ss_pred             hhHHHHHHHHHHH-HcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC-----CCChhhHHHHHHHHhhcCChhHhhhc
Q 043594           12 IRGGTQYQCLAVR-SGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP-----VRNVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus        12 ~~~a~~~~~~m~~-~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~-----~~~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      ...-.++...+.. .|-.++..+.-.+|..+++.+++.+-.++++.-.     ..|.-.|...|..-...||..-...+
T Consensus       182 l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~ki  260 (292)
T PF13929_consen  182 LNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKI  260 (292)
T ss_pred             hhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHH
Confidence            3444556666654 3567888899999999999999999999988653     24788999999999999998655443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=80.13  E-value=6.7  Score=30.38  Aligned_cols=49  Identities=18%  Similarity=0.142  Sum_probs=33.4

Q ss_pred             CCchhHHHHHHHHHHHHcCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594            9 TRNIRGGTQYQCLAVRSGFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      +++..++..-|....+  ..| |...|..+..+|.++|++..|.++|++...
T Consensus       575 a~n~h~aV~~fQsALR--~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~  624 (1238)
T KOG1127|consen  575 AHNLHGAVCEFQSALR--TDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL  624 (1238)
T ss_pred             ccchhhHHHHHHHHhc--CCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh
Confidence            3444444443333333  334 566889999999999999999999987764

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	86
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.87
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.67
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.16
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.11
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.44
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.41
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.41
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.38
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.33
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.3
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.25
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.22
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.18
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.16
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.15
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.13
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.11
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.08
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.08
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.06
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.06
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.06
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.06
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.06
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.06
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.04
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.03
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.03
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.03
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.01
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	97.99
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	97.99
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.99
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.97
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.96
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	97.96
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	97.96
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.95
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.95
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	97.95
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	97.95
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	97.94
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.93
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	97.91
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.91
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	97.89
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.8
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.8
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	97.78
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	97.78
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.76
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.74
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.74
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	97.73
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.73
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	97.72
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.7
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.67
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.65
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	97.65
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	97.64
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	97.63
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	97.61
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.6
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	97.59
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.57
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	97.57
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	97.56
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.55
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.53
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	97.52
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	97.51
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.51
2gw1_A	514	Mitochondrial precursor proteins import receptor;	97.49
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.49
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	97.47
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.46
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.45
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	97.42
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.38
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.37
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.33
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	97.31
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.28
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.27
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.27
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.23
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.2
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.2
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.14
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.12
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.11
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.09
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.08
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.07
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.02
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.0
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.99
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	96.93
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.92
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	96.9
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	96.9
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	96.89
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	96.87
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	96.86
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	96.85
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	96.85
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	96.83
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	96.75
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.73
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	96.72
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	96.7
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	96.66
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	96.62
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.62
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	96.62
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	96.6
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	96.6
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.59
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	96.54
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	96.52
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	96.51
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	96.48
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	96.47
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.46
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	96.45
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	96.43
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	96.38
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	96.31
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	96.31
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	96.3
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	96.29
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	96.29
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	96.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	96.22
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	96.2
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	96.2
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	96.16
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	96.15
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	96.09
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.07
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	96.05
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	96.03
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.0
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	95.96
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.93
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.92
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	95.91
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	95.9
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	95.89
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	95.87
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	95.85
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	95.82
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	95.81
3k9i_A	117	BH0479 protein; putative protein binding protein,	95.76
2p58_C	116	Putative type III secretion protein YSCG; type III	95.73
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	95.68
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	95.64
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	95.63
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	95.52
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	95.49
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	95.44
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	95.36
2kat_A	115	Uncharacterized protein; NESG, structure, structur	95.32
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	95.3
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	95.13
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	95.13
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	94.89
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	94.81
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	94.81
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	94.74
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	94.73
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.6
4g1t_A	472	Interferon-induced protein with tetratricopeptide	94.52
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	94.46
1klx_A	138	Cysteine rich protein B; structural genomics, heli	94.45
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	94.45
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	94.31
1klx_A	138	Cysteine rich protein B; structural genomics, heli	94.21
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	94.06
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	94.01
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	93.86
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	93.83
4g1t_A	472	Interferon-induced protein with tetratricopeptide	93.8
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	93.65
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	93.37
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.15
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	93.1
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	93.09
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	92.67
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	92.16
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	91.81
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	91.7
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	91.55
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	91.46
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.27
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	90.84
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	90.32
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	90.24
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	90.12
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	89.89
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	89.88
1pc2_A	152	Mitochondria fission protein; unknown function; NM	89.8
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	88.89
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.8
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	88.76
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	88.45
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	87.88
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	86.66
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	86.44
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	86.06
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	85.29
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	83.07
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	81.22

>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=99.87  E-value=7.5e-23  Score=137.64  Aligned_cols=86  Identities=9%  Similarity=-0.010  Sum_probs=81.2

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC----CCChhhHHHHHHHHhhcC
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP----VRNVVSWTAIIAAFAQEW   76 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~t~~~li~~~~~~g   76 (86)
                      +||++|++.|++++|.++|++|.+.|+.||..+||+||.+|++.|++++|.++|++|.    .||..|||+||.+|++.|
T Consensus       110 ~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g  189 (501)
T 4g26_A          110 NGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTK  189 (501)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCC
Confidence            4789999999999999999999999999999999999999999999999999999996    589999999999999999


Q ss_pred             ChhHhhhccC
Q 043594           77 EVDMCYTFIV   86 (86)
Q Consensus        77 ~~~~a~~~f~   86 (86)
                      ++++|.++|+
T Consensus       190 ~~d~A~~ll~  199 (501)
T 4g26_A          190 NADKVYKTLQ  199 (501)
T ss_dssp             CHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999998873

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

Probab=99.85  E-value=3.3e-22  Score=142.42  Aligned_cols=85  Identities=6%  Similarity=0.037  Sum_probs=78.7

Q ss_pred             ChhcchhcCCchhHHHHHHHHHH---HHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC----CCChhhHHHHHHHHh
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAV---RSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP----VRNVVSWTAIIAAFA   73 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~---~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~t~~~li~~~~   73 (86)
                      ++|++||+.|++++|.++|.+|.   +.|+.||++|||+||++||+.|++++|.++|++|.    .||++|||+||++++
T Consensus       132 aLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glc  211 (1134)
T 3spa_A          132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMG  211 (1134)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHH
Confidence            47899999999999999998875   56999999999999999999999999999999996    599999999999999


Q ss_pred             hcCCh-hHhhhcc
Q 043594           74 QEWEV-DMCYTFI   85 (86)
Q Consensus        74 ~~g~~-~~a~~~f   85 (86)
                      +.|+. ++|.++|
T Consensus       212 K~G~~~e~A~~Ll  224 (1134)
T 3spa_A          212 RQDQDAGTIERCL  224 (1134)
T ss_dssp             HHTCCHHHHHHHH
T ss_pred             hCCCcHHHHHHHH
Confidence            99985 7787776

>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=99.85  E-value=9.4e-22  Score=132.32  Aligned_cols=83  Identities=16%  Similarity=0.243  Sum_probs=43.1

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCC---------hHHHHHhhcCCC----CCChhhHHHHH
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGE---------NIDVYKMFEKMP----VRNVVSWTAII   69 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~---------~~~A~~~~~~m~----~~~~~t~~~li   69 (86)
                      |++|++.|++++|.++|++|.+.|++||.++||+||++|++++.         +++|.++|++|.    .||.+|||+||
T Consensus        33 id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI  112 (501)
T 4g26_A           33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGA  112 (501)
T ss_dssp             HHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            45555555555555555555555555555555555555554433         344555555543    24555555555


Q ss_pred             HHHhhcCChhHhhhcc
Q 043594           70 AAFAQEWEVDMCYTFI   85 (86)
Q Consensus        70 ~~~~~~g~~~~a~~~f   85 (86)
                      .+|++.|++++|.++|
T Consensus       113 ~~~~~~g~~~~A~~l~  128 (501)
T 4g26_A          113 RLAVAKDDPEMAFDMV  128 (501)
T ss_dssp             HHHHHHTCHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHH
Confidence            5555555555554443

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

Probab=99.67  E-value=5.3e-18  Score=121.16  Aligned_cols=84  Identities=5%  Similarity=0.056  Sum_probs=77.3

Q ss_pred             ChhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCCh-HHHHHhhcCCC----CCChhhHHHHHHHHhhc
Q 043594            1 MPVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGEN-IDVYKMFEKMP----VRNVVSWTAIIAAFAQE   75 (86)
Q Consensus         1 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~-~~A~~~~~~m~----~~~~~t~~~li~~~~~~   75 (86)
                      +||++||+.|++++|.++|.+|.+.|+.||.+|||+||+++|+.|+. ++|.++|++|.    .||.+|||++|+++.+.
T Consensus       170 tLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          170 AVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            48999999999999999999999999999999999999999999985 78999999996    59999999999999998


Q ss_pred             CChhHhhhc
Q 043594           76 WEVDMCYTF   84 (86)
Q Consensus        76 g~~~~a~~~   84 (86)
                      +-++...++
T Consensus       250 ~vL~~Vrkv  258 (1134)
T 3spa_A          250 TVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHGGG
T ss_pred             HHHHHHHHh
Confidence            877666554

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

Probab=99.16  E-value=6.3e-11  Score=79.02  Aligned_cols=83  Identities=6%  Similarity=-0.074  Sum_probs=75.9

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChh
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~   79 (86)
                      ++.++.+.|++++|.+++.+|.+  ..||..++..+..+|.+.|++++|..+|+++.  .+|..+|+.++.+|.+.|+++
T Consensus        90 ~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  167 (597)
T 2xpi_A           90 WRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQ  167 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHH
Confidence            46778899999999999999985  45888999999999999999999999999994  579999999999999999999


Q ss_pred             HhhhccC
Q 043594           80 MCYTFIV   86 (86)
Q Consensus        80 ~a~~~f~   86 (86)
                      +|.++|+
T Consensus       168 ~A~~~~~  174 (597)
T 2xpi_A          168 GALNLLG  174 (597)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHh
Confidence            9999874

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

Probab=99.11  E-value=1.6e-10  Score=77.03  Aligned_cols=83  Identities=5%  Similarity=-0.183  Sum_probs=72.8

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC-CC------------------Ch
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP-VR------------------NV   62 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~-~~------------------~~   62 (86)
                      +..+|.+.|++++|.++|..+...  .+++.+++.++.+|.++|++++|.++|+++. ..                  +.
T Consensus       123 l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (597)
T 2xpi_A          123 LAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEA  200 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHH
T ss_pred             HHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhH
Confidence            456788999999999999988643  6889999999999999999999999999643 32                  48


Q ss_pred             hhHHHHHHHHhhcCChhHhhhccC
Q 043594           63 VSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        63 ~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      .+|+.++.+|.+.|++++|.++|+
T Consensus       201 ~~~~~l~~~~~~~g~~~~A~~~~~  224 (597)
T 2xpi_A          201 SMCYLRGQVYTNLSNFDRAKECYK  224 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHH
Confidence            899999999999999999998873

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.44  E-value=2.7e-08  Score=66.57  Aligned_cols=79  Identities=15%  Similarity=0.113  Sum_probs=18.0

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHh
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      +++++...|++++|...+....+.  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+-..|...|++++|
T Consensus        67 V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA  141 (449)
T 1b89_A           67 VVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAA  141 (449)
T ss_dssp             --------------------------------------------CHHHHTTTTTC---C----------------CTTTH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHH
Confidence            356777889999999977766664  56688999999999999999999999975   7778999999999999999888


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      ..+|
T Consensus       142 ~~~Y  145 (449)
T 1b89_A          142 KLLY  145 (449)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8776

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=9.2e-07  Score=47.16  Aligned_cols=81  Identities=14%  Similarity=0.124  Sum_probs=69.2

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ..+...|++++|.+++..+.+.. ..+..++..+...|.+.|++++|...|+++.   ..+..+|..+...|.+.|++++
T Consensus        17 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~   95 (125)
T 1na0_A           17 NAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDE   95 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHH
Confidence            34567899999999999998864 3457788899999999999999999999875   2467889999999999999999


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |.+.|
T Consensus        96 A~~~~  100 (125)
T 1na0_A           96 AIEYY  100 (125)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98876

>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=98.41  E-value=6.6e-07  Score=57.00  Aligned_cols=80  Identities=8%  Similarity=0.053  Sum_probs=50.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+..+.+.. +.+..+++.+...|.+.|++++|.+.|+++.+  | +..+|..+...|.+.|++++|
T Consensus       280 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  358 (388)
T 1w3b_A          280 ALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEA  358 (388)
T ss_dssp             HHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHH
Confidence            3445566666666666666542 34555666666666666777777766666543  3 345666777777777777777


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       359 ~~~~  362 (388)
T 1w3b_A          359 LMHY  362 (388)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=98.41  E-value=8.3e-07  Score=47.71  Aligned_cols=77  Identities=13%  Similarity=0.135  Sum_probs=38.2

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      ..|++++|.+++..+.+.+ +.+...+..+...|.+.|++++|.+.|+++..   .+..+|..+...|.+.|+.++|.+.
T Consensus        47 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  125 (136)
T 2fo7_A           47 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEY  125 (136)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHH
Confidence            3445555555555554433 22334444555555555555555555554421   2344455555555555555555544


Q ss_pred             c
Q 043594           85 I   85 (86)
Q Consensus        85 f   85 (86)
                      |
T Consensus       126 ~  126 (136)
T 2fo7_A          126 Y  126 (136)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.38  E-value=9.4e-07  Score=47.49  Aligned_cols=81  Identities=12%  Similarity=0.117  Sum_probs=68.4

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ..+...|++++|.+++..+.+.. +.+...+..+...|...|++++|...|+++.   ..+...|..+...|.+.|++++
T Consensus         9 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   87 (136)
T 2fo7_A            9 NAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDE   87 (136)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcCHHH
Confidence            44567899999999999998865 3457788889999999999999999999874   2356788999999999999999


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |.+.|
T Consensus        88 A~~~~   92 (136)
T 2fo7_A           88 AIEYY   92 (136)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98876

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

Probab=98.33  E-value=3.4e-06  Score=52.81  Aligned_cols=80  Identities=4%  Similarity=-0.162  Sum_probs=66.1

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchH-HHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANV-YVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      ..+...++.++|.+.++.+.+.+..|+. ..+..+-..|.+.|++++|.+.+++  ..+...+..+...|.+.|+.++|.
T Consensus        73 ~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~  150 (291)
T 3mkr_A           73 EYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLAR  150 (291)
T ss_dssp             HHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            4566778899999999999988766654 4555555889999999999999998  457788999999999999999998


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       151 ~~l  153 (291)
T 3mkr_A          151 KEL  153 (291)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>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=98.30  E-value=1.5e-06  Score=55.32  Aligned_cols=81  Identities=6%  Similarity=-0.097  Sum_probs=58.6

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ..+.+.|++++|.+.+..+.+.. +.++.++..+...|.+.|++++|.+.|+++.   .++..+|+.+...|.+.|++++
T Consensus       245 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  323 (388)
T 1w3b_A          245 CVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEE  323 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHH
Confidence            34556777888888887777653 2245577777788888888888888887764   2366778888888888888888


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |.+.|
T Consensus       324 A~~~~  328 (388)
T 1w3b_A          324 AVRLY  328 (388)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87665

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.25  E-value=2.3e-06  Score=55.71  Aligned_cols=79  Identities=11%  Similarity=-0.064  Sum_probs=71.1

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+..+.+..  ||+.++..+...|.+.|++++|...|++..  .| +..+|..+...|.+.|++++|
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A   92 (514)
T 2gw1_A           15 QFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADA   92 (514)
T ss_dssp             HHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHH
Confidence            4567899999999999999987  899999999999999999999999999875  34 567899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        93 ~~~~   96 (514)
T 2gw1_A           93 MFDL   96 (514)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

>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=98.22  E-value=3.7e-06  Score=54.14  Aligned_cols=81  Identities=7%  Similarity=-0.111  Sum_probs=70.7

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~   80 (86)
                      ..+.+.|++++|.+++..+.+.. +.+..++..+...|.+.|++++|...|+++.+  | +..+|..+...|.+.|++++
T Consensus        34 ~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  112 (450)
T 2y4t_A           34 KKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDE  112 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHH
Confidence            45678899999999999998763 44688999999999999999999999998753  4 57889999999999999999


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |.+.|
T Consensus       113 A~~~~  117 (450)
T 2y4t_A          113 AEDDF  117 (450)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99876

>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=98.18  E-value=2.7e-06  Score=54.77  Aligned_cols=79  Identities=9%  Similarity=0.003  Sum_probs=70.1

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.+.|++++|.+.+..+.+.. +.+..++..+...|.+.|++++|.+.|+++.+   .+..+|+.+...|.+.|++++|.
T Consensus       153 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  231 (450)
T 2y4t_A          153 AFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSL  231 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            667899999999999998864 44678899999999999999999999998753   46889999999999999999999


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       232 ~~~  234 (450)
T 2y4t_A          232 SEV  234 (450)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            876

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.16  E-value=7.5e-06  Score=47.06  Aligned_cols=80  Identities=5%  Similarity=-0.163  Sum_probs=68.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.|....+.. +.++..|..+=..|.+.|++++|.+.|++..  .| +...|..+=..|.+.|+.++|
T Consensus        45 ~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~~eA  123 (151)
T 3gyz_A           45 DFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAPLKA  123 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHH
Confidence            3557899999999999998874 3467788899999999999999999999874  35 577899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       124 ~~~~  127 (151)
T 3gyz_A          124 KECF  127 (151)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.15  E-value=8.8e-06  Score=45.04  Aligned_cols=80  Identities=10%  Similarity=-0.075  Sum_probs=68.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+-+.|++++|.+.|...++.. +.++.+|..+-..|.+.|++++|.+.|++..   ..+...|..+-..|.+.|++++|
T Consensus        22 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A  100 (126)
T 4gco_A           22 EYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMREWSKA  100 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHHH
Confidence            3567899999999999998864 3467788889999999999999999999764   24678899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       101 ~~~~  104 (126)
T 4gco_A          101 QRAY  104 (126)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

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

Probab=98.13  E-value=5.3e-06  Score=52.31  Aligned_cols=82  Identities=12%  Similarity=0.020  Sum_probs=54.6

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCC-chHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFV-ANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~   79 (86)
                      ..+.+.|++++|.+++..+.+..-. +++.++..+-..|.+.|++++|.+.|++..   ..+..+|+.+...|.+.|+++
T Consensus       185 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  264 (365)
T 4eqf_A          185 KSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSE  264 (365)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            3455677777777777777776421 146677777777777777777777777653   235667777777777777777


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      +|.+.|
T Consensus       265 ~A~~~~  270 (365)
T 4eqf_A          265 EAVEAY  270 (365)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777655

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=98.11  E-value=3.8e-06  Score=56.32  Aligned_cols=70  Identities=13%  Similarity=0.037  Sum_probs=48.0

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhhh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      ..|.+.|.+++|...|..+         ..|..+.+.+.+.|++++|.+.+.++.  ++.+|..++.+|...|+++.|..
T Consensus       130 d~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA~--~~~~Wk~v~~aCv~~~ef~lA~~  198 (449)
T 1b89_A          130 DRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACVDGKEFRLAQM  198 (449)
T ss_dssp             -------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHcC--CchhHHHHHHHHHHcCcHHHHHH
Confidence            4566777777777777755         367777777888888888888777763  67888888888888888887754


Q ss_pred             c
Q 043594           84 F   84 (86)
Q Consensus        84 ~   84 (86)
                      .
T Consensus       199 ~  199 (449)
T 1b89_A          199 C  199 (449)
T ss_dssp             T
T ss_pred             H
Confidence            3

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=98.08  E-value=6.7e-06  Score=49.19  Aligned_cols=77  Identities=9%  Similarity=-0.054  Sum_probs=33.7

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC----C-ChhhHHHHHHHHhhcCChhHh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV----R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.|++++|.+.+....+.. ..+..++..+...|.+.|++++|.+.|++...    | +...|..+...|.+.|++++|
T Consensus        82 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  160 (252)
T 2ho1_A           82 QTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQA  160 (252)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHH
Confidence            34444455555444444432 12333444444444445555555544444322    2 223344444444444444444


Q ss_pred             hhc
Q 043594           82 YTF   84 (86)
Q Consensus        82 ~~~   84 (86)
                      .+.
T Consensus       161 ~~~  163 (252)
T 2ho1_A          161 KEY  163 (252)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

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

Probab=98.08  E-value=8.7e-06  Score=47.49  Aligned_cols=79  Identities=5%  Similarity=-0.122  Sum_probs=40.4

Q ss_pred             hcC-CchhHHHHHHHHHHHHcCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            7 GST-RNIRGGTQYQCLAVRSGFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         7 ~~~-~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ... |++++|.+.+..+.+.+..| +...+..+...|.+.|++++|...|++..+  | +...|..+...|.+.|++++|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  166 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDA  166 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHH
Confidence            344 55555555555555422222 234555555555555555555555554431  2 344555555555555555555


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       167 ~~~~  170 (225)
T 2vq2_A          167 DYYF  170 (225)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>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=98.06  E-value=1.4e-05  Score=45.06  Aligned_cols=76  Identities=14%  Similarity=-0.015  Sum_probs=34.5

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      ..|++++|.+.+....+.. +.+..++..+...|...|++++|.+.|++..   ..+...|..+...|.+.|++++|.+.
T Consensus        54 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~  132 (186)
T 3as5_A           54 KTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDS  132 (186)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHH
Confidence            4445555555555544432 2233444444445555555555555554432   12334444444444444544444443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.06  E-value=9.3e-06  Score=48.50  Aligned_cols=80  Identities=8%  Similarity=-0.064  Sum_probs=58.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+....+..  .++..+..+-..|...|++++|...|++..  .| +...|..+-..+.+.|+.++|
T Consensus       127 ~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A  204 (217)
T 2pl2_A          127 VYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEA  204 (217)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC-------
T ss_pred             HHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHH
Confidence            4557899999999999999888  778888999999999999999999999764  34 567888889999999999999


Q ss_pred             hhccC
Q 043594           82 YTFIV   86 (86)
Q Consensus        82 ~~~f~   86 (86)
                      .+.|+
T Consensus       205 ~~~~~  209 (217)
T 2pl2_A          205 ARAAA  209 (217)
T ss_dssp             -----
T ss_pred             HHHHH
Confidence            88764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.06  E-value=1.4e-05  Score=48.08  Aligned_cols=79  Identities=10%  Similarity=-0.126  Sum_probs=49.3

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...|++++|.+.+....+.. +.+..++..+-..|...|++++|.+.|++..+  | +..+|..+-..|.+.|++++|.
T Consensus        53 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~  131 (275)
T 1xnf_A           53 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQ  131 (275)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHH
Confidence            445566666666666666653 22455666666666667777777766665532  3 4556666666677777777766


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       132 ~~~  134 (275)
T 1xnf_A          132 DDL  134 (275)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=98.06  E-value=1.2e-05  Score=45.35  Aligned_cols=80  Identities=10%  Similarity=-0.048  Sum_probs=68.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+....+.. +.+...+..+...|.+.|++++|.+.|++..+   .+..+|..+...|.+.|+.++|
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHH
Confidence            4556799999999999998874 44677888899999999999999999998642   3668899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       164 ~~~~  167 (186)
T 3as5_A          164 LPHF  167 (186)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

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

Probab=98.06  E-value=9.5e-06  Score=51.14  Aligned_cols=80  Identities=5%  Similarity=-0.064  Sum_probs=69.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+++..+.+.. +.+..++..+-..|.+.|++++|.+.|++..+  | +..+|..+...|.+.|++++|
T Consensus        74 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  152 (365)
T 4eqf_A           74 KRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDA  152 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHH
Confidence            4557799999999999998875 44678999999999999999999999998752  4 578999999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       153 ~~~~  156 (365)
T 4eqf_A          153 CEAL  156 (365)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.06  E-value=2e-05  Score=41.15  Aligned_cols=80  Identities=8%  Similarity=-0.157  Sum_probs=67.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC---ChhhHHHHHHHHhhc-CCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR---NVVSWTAIIAAFAQE-WEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~---~~~t~~~li~~~~~~-g~~   78 (86)
                      .+.+.|++++|...+....+.. ..+...+..+-..|.+.|++++|.+.|++..  .|   +...|..+-..|.+. |+.
T Consensus        15 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~~~~~~~   93 (112)
T 2kck_A           15 LQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADALRYIEGKE   93 (112)
T ss_dssp             HHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHHTTCSSCS
T ss_pred             HHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHHHHHhCCH
Confidence            4567899999999999998874 3456788888899999999999999999764  23   577899999999999 999


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|.+.|
T Consensus        94 ~~A~~~~  100 (112)
T 2kck_A           94 VEAEIAE  100 (112)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999876

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.04  E-value=2.4e-06  Score=46.33  Aligned_cols=78  Identities=10%  Similarity=-0.115  Sum_probs=60.3

Q ss_pred             cCCchhHHHHHHHHHHHHc--CCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            8 STRNIRGGTQYQCLAVRSG--FVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      ..|++++|...+.+..+.+  -+.+...+..+-..|.+.|++++|...|++..  .| +..+|..+-..|.+.|+.++|.
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            4578899999999988764  23356688888899999999999999999875  24 5677888889999999999998


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus        82 ~~~   84 (117)
T 3k9i_A           82 ELL   84 (117)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            865

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.03  E-value=2.1e-05  Score=43.87  Aligned_cols=80  Identities=5%  Similarity=-0.235  Sum_probs=67.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|...+....+.. +.+...|..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|++++|
T Consensus        27 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A  105 (142)
T 2xcb_A           27 NQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGDLDGA  105 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHH
Confidence            3557899999999999998864 3366788888899999999999999999764  24 567788888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       106 ~~~~  109 (142)
T 2xcb_A          106 ESGF  109 (142)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

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

Probab=98.03  E-value=5.5e-06  Score=49.31  Aligned_cols=79  Identities=10%  Similarity=-0.005  Sum_probs=69.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC--------hhhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN--------VVSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~--------~~t~~~li~~~~~   74 (86)
                      .+.+.|++++|.+.+....+..  .+...+..+-..|...|++++|.+.|++..+  |+        ..+|..+-..|.+
T Consensus        14 ~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~   91 (258)
T 3uq3_A           14 KFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHK   91 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHH
Confidence            4567899999999999999988  8889999999999999999999999998753  22        5788999999999


Q ss_pred             cCChhHhhhcc
Q 043594           75 EWEVDMCYTFI   85 (86)
Q Consensus        75 ~g~~~~a~~~f   85 (86)
                      .|++++|.+.|
T Consensus        92 ~~~~~~A~~~~  102 (258)
T 3uq3_A           92 LGDLKKTIEYY  102 (258)
T ss_dssp             TTCHHHHHHHH
T ss_pred             cccHHHHHHHH
Confidence            99999999876

>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=98.03  E-value=1.9e-05  Score=47.19  Aligned_cols=78  Identities=13%  Similarity=-0.026  Sum_probs=36.1

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      ...|++++|.+++..+.+.+..| +...+..+...|.+.|++++|.+.|++..+  | +..+|..+...|.+.|+.++|.
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHH
Confidence            34455555555555544422222 333444444555555555555555554321  2 3444445555555555555554


Q ss_pred             hc
Q 043594           83 TF   84 (86)
Q Consensus        83 ~~   84 (86)
                      +.
T Consensus       196 ~~  197 (252)
T 2ho1_A          196 QY  197 (252)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.01  E-value=2.3e-05  Score=44.40  Aligned_cols=80  Identities=5%  Similarity=-0.231  Sum_probs=67.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|...+....+.. +.++..|..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|+.++|
T Consensus        30 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~~A  108 (148)
T 2vgx_A           30 NQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQXGELAEA  108 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHH
Confidence            3557899999999999998864 3367788888889999999999999999864  34 667888888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       109 ~~~~  112 (148)
T 2vgx_A          109 ESGL  112 (148)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

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

Probab=97.99  E-value=2.5e-05  Score=45.51  Aligned_cols=77  Identities=6%  Similarity=-0.053  Sum_probs=34.7

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhc-CChHHHHHhhcCCCC----C-ChhhHHHHHHHHhhcCChhH
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKC-GENIDVYKMFEKMPV----R-NVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~-g~~~~A~~~~~~m~~----~-~~~t~~~li~~~~~~g~~~~   80 (86)
                      ...|++++|.+.+....+.. +.+..++..+...|... |++++|...|++..+    | +...|..+...|.+.|++++
T Consensus        53 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  131 (225)
T 2vq2_A           53 QYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGL  131 (225)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHH
Confidence            34444555555555444432 12333444444455555 555555555444322    1 12344444445555555555


Q ss_pred             hhhc
Q 043594           81 CYTF   84 (86)
Q Consensus        81 a~~~   84 (86)
                      |.+.
T Consensus       132 A~~~  135 (225)
T 2vq2_A          132 AEAY  135 (225)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

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

Probab=97.99  E-value=1e-05  Score=50.61  Aligned_cols=79  Identities=8%  Similarity=0.033  Sum_probs=42.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHH---HHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYV---GSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~---~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~   78 (86)
                      .+.+.|+.++|.+.+..+.+..  |+...   ..+.+..+...|++++|..+|+++.+   .+...|+.+-..|.+.|++
T Consensus       139 ~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~  216 (291)
T 3mkr_A          139 ILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRW  216 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCH
Confidence            3445566666666666665553  43321   12233333344666666666665531   2455566666666666666


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|.+.|
T Consensus       217 ~eA~~~l  223 (291)
T 3mkr_A          217 EAAEGVL  223 (291)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666544

>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=97.99  E-value=2.9e-05  Score=42.13  Aligned_cols=80  Identities=8%  Similarity=-0.130  Sum_probs=68.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+....+.. +.+...+..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|+.++|
T Consensus        13 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A   91 (126)
T 3upv_A           13 EYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASA   91 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhCHHHH
Confidence            3557899999999999998864 3467789999999999999999999999764  24 577888899999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        92 ~~~~   95 (126)
T 3upv_A           92 LETL   95 (126)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=97.97  E-value=1.1e-05  Score=43.15  Aligned_cols=80  Identities=13%  Similarity=0.048  Sum_probs=67.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-C-------hhhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-N-------VVSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~-------~~t~~~li~~~~~   74 (86)
                      .+...|++++|...+....+.. +.+...+..+-..|...|++++|...|++...  | +       ..+|..+-..|.+
T Consensus        13 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~   91 (131)
T 1elr_A           13 DAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFK   91 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHH
Confidence            4567899999999999998875 34677888899999999999999999997642  2 2       6678888899999


Q ss_pred             cCChhHhhhcc
Q 043594           75 EWEVDMCYTFI   85 (86)
Q Consensus        75 ~g~~~~a~~~f   85 (86)
                      .|++++|.+.|
T Consensus        92 ~~~~~~A~~~~  102 (131)
T 1elr_A           92 EEKYKDAIHFY  102 (131)
T ss_dssp             TTCHHHHHHHH
T ss_pred             hccHHHHHHHH
Confidence            99999998876

>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=97.96  E-value=3.5e-05  Score=40.47  Aligned_cols=80  Identities=16%  Similarity=-0.026  Sum_probs=67.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+....+.. +.+...+..+-..|.+.|++++|...+++..  .| +...|..+-..|.+.|+.++|
T Consensus        13 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A   91 (118)
T 1elw_A           13 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEA   91 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHH
Confidence            4557899999999999998864 3367788888899999999999999998764  24 577888899999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        92 ~~~~   95 (118)
T 1elw_A           92 KRTY   95 (118)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>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=97.96  E-value=3.1e-05  Score=47.53  Aligned_cols=77  Identities=8%  Similarity=0.003  Sum_probs=33.7

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      .+.|++++|.+.+....+.. +.+..++..+...|.+.|++++|.+.|++..+  | +..+|..+...|.+.|++++|.+
T Consensus       183 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  261 (327)
T 3cv0_A          183 NLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAK  261 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHH
Confidence            34444455555444444432 12233444444444444555555444444321  1 23344444444444444444443


Q ss_pred             c
Q 043594           84 F   84 (86)
Q Consensus        84 ~   84 (86)
                      .
T Consensus       262 ~  262 (327)
T 3cv0_A          262 Q  262 (327)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.96  E-value=2.7e-05  Score=47.81  Aligned_cols=79  Identities=9%  Similarity=0.023  Sum_probs=68.8

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...|++++|.+++..+.+.. +.+..++..+...|.+.|++++|.+.|++..  .| +..+|..+...|.+.|++++|.
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            567889999999999998875 3467899999999999999999999999864  23 5788999999999999999999


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       227 ~~~  229 (327)
T 3cv0_A          227 DAY  229 (327)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            876

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.95  E-value=2.1e-05  Score=42.38  Aligned_cols=80  Identities=13%  Similarity=-0.015  Sum_probs=66.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+....+.. ..+..++..+-..|...|++++|...|++..+  | +...|..+-..|.+.|++++|
T Consensus        25 ~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A  103 (133)
T 2lni_A           25 ECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKA  103 (133)
T ss_dssp             HHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhHHHH
Confidence            4567899999999999988753 23677888888999999999999999987642  3 567888888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       104 ~~~~  107 (133)
T 2lni_A          104 MDVY  107 (133)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.95  E-value=3.5e-05  Score=43.77  Aligned_cols=80  Identities=10%  Similarity=-0.044  Sum_probs=68.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+....+.. ..+...+..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|++++|
T Consensus        20 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A   98 (164)
T 3sz7_A           20 AAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFDMADYKGA   98 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccCHHHH
Confidence            4567899999999999998875 3367788999999999999999999999764  24 578899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        99 ~~~~  102 (164)
T 3sz7_A           99 KEAY  102 (164)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

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

Probab=97.95  E-value=2.2e-05  Score=46.39  Aligned_cols=9  Identities=0%  Similarity=-0.289  Sum_probs=3.2

Q ss_pred             cCChHHHHH
Q 043594           44 CGENIDVYK   52 (86)
Q Consensus        44 ~g~~~~A~~   52 (86)
                      .|++++|.+
T Consensus       104 ~~~~~~A~~  112 (243)
T 2q7f_A          104 KEMYKEAKD  112 (243)
T ss_dssp             TTCHHHHHH
T ss_pred             hccHHHHHH
Confidence            333333333

>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=97.95  E-value=2.4e-05  Score=49.06  Aligned_cols=79  Identities=4%  Similarity=-0.090  Sum_probs=40.5

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.+.|++++|.+.+....+.. +.+..++..+...|.+.|++++|...|++..  .| +..+|..+-..|.+.|++++|.
T Consensus       227 ~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~  305 (368)
T 1fch_A          227 FNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAV  305 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            334555555555555555442 2234455555555555555555555555442  12 3445555555555555555555


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       306 ~~~  308 (368)
T 1fch_A          306 EHF  308 (368)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

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

Probab=97.94  E-value=3.3e-05  Score=45.64  Aligned_cols=80  Identities=11%  Similarity=-0.034  Sum_probs=61.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+..+.+.. +.+..++..+...|.+.|++++|...+++..   ..+...|..+...|.+.|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            4556788888888888887764 3456677788888888888888888888764   23567788888888888888888


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       179 ~~~~  182 (243)
T 2q7f_A          179 LSQF  182 (243)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.93  E-value=4.7e-05  Score=40.59  Aligned_cols=80  Identities=10%  Similarity=-0.011  Sum_probs=66.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+....+.. ..+...+..+-..|...|++++|.+.+++..  .| +...|..+-..|.+.|++++|
T Consensus        21 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A   99 (131)
T 2vyi_A           21 EQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALSSLNKHVEA   99 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHHHhCCHHHH
Confidence            4557899999999999998764 3467788888899999999999999998764  24 567888888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       100 ~~~~  103 (131)
T 2vyi_A          100 VAYY  103 (131)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>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=97.91  E-value=2.9e-05  Score=48.66  Aligned_cols=80  Identities=9%  Similarity=-0.003  Sum_probs=69.1

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+..+.+.. +.+..++..+-..|.+.|++++|.+.|++..   ..+..+|..+...|.+.|+.++|
T Consensus        73 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A  151 (368)
T 1fch_A           73 RRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQA  151 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            4567899999999999998864 4467789999999999999999999999764   24678899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       152 ~~~~  155 (368)
T 1fch_A          152 CEIL  155 (368)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>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=97.91  E-value=5.1e-05  Score=41.37  Aligned_cols=80  Identities=6%  Similarity=-0.175  Sum_probs=68.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|...+....+.. +.+...+..+-..|...|++++|...|++..  .| +...|..+-..|.+.|++++|
T Consensus        18 ~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A   96 (137)
T 3q49_B           18 RLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEA   96 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHHhhHHHH
Confidence            4567899999999999998875 3357788899999999999999999999764  24 577899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        97 ~~~~  100 (137)
T 3q49_B           97 IANL  100 (137)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

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

Probab=97.89  E-value=4.6e-05  Score=45.24  Aligned_cols=80  Identities=8%  Similarity=-0.130  Sum_probs=63.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+....+.. +.+..++..+-..|.+.|++++|...|++..  .| +..+|..+-..|.+.|+.++|
T Consensus       148 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A  226 (258)
T 3uq3_A          148 EYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASA  226 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHH
Confidence            4556788999999998888764 3356788888888999999999999888764  23 567788888889999999988


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       227 ~~~~  230 (258)
T 3uq3_A          227 LETL  230 (258)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.80  E-value=6.3e-05  Score=40.56  Aligned_cols=80  Identities=6%  Similarity=-0.221  Sum_probs=63.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchH---HHHHHHHHHHHhcCChHHHHHhhcCCC--CCC----hhhHHHHHHHHhhc
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANV---YVGSSLISFCGKCGENIDVYKMFEKMP--VRN----VVSWTAIIAAFAQE   75 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~---~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~----~~t~~~li~~~~~~   75 (86)
                      .+.+.|++++|...+....+..= .+.   ..+..+-..|.+.|++++|...|++..  .|+    ..++..+-..|.+.
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~   89 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGE   89 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHc
Confidence            34578999999999999988641 122   467777788999999999999999864  243    45577788889999


Q ss_pred             CChhHhhhcc
Q 043594           76 WEVDMCYTFI   85 (86)
Q Consensus        76 g~~~~a~~~f   85 (86)
                      |+.++|.+.|
T Consensus        90 g~~~~A~~~~   99 (129)
T 2xev_A           90 GKNTEAQQTL   99 (129)
T ss_dssp             TCHHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            9999999876

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.80  E-value=7.3e-05  Score=40.96  Aligned_cols=79  Identities=10%  Similarity=-0.115  Sum_probs=66.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch----HHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN----VYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~   77 (86)
                      .+.+.|++++|.+.+....+.  .|+    ...+..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|+
T Consensus        37 ~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  114 (148)
T 2dba_A           37 ELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQALEKLGR  114 (148)
T ss_dssp             HHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHHHHHHcCC
Confidence            456789999999999998875  355    6788888899999999999999998764  24 66788888899999999


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      .++|.+.|
T Consensus       115 ~~~A~~~~  122 (148)
T 2dba_A          115 LDQAVLDL  122 (148)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998876

>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=97.78  E-value=5.2e-05  Score=46.54  Aligned_cols=79  Identities=11%  Similarity=-0.014  Sum_probs=46.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC------------CCChhhHHHHHHHHh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP------------VRNVVSWTAIIAAFA   73 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~------------~~~~~t~~~li~~~~   73 (86)
                      +...|++++|.+.+....+.. +.+..++..+...|.+.|++++|...|++..            ..+..+|..+-..|.
T Consensus       169 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~  247 (330)
T 3hym_B          169 YGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCR  247 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHH
Confidence            445566666666666665543 2345566666666666666666666665442            112346666666666


Q ss_pred             hcCChhHhhhcc
Q 043594           74 QEWEVDMCYTFI   85 (86)
Q Consensus        74 ~~g~~~~a~~~f   85 (86)
                      +.|++++|.+.|
T Consensus       248 ~~g~~~~A~~~~  259 (330)
T 3hym_B          248 KLKKYAEALDYH  259 (330)
T ss_dssp             HTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHH
Confidence            666666666554

>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=97.78  E-value=4.4e-05  Score=46.89  Aligned_cols=82  Identities=9%  Similarity=0.005  Sum_probs=66.5

Q ss_pred             cchhcCCchhHHHHHHHHHHHHc--------CCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSG--------FVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAF   72 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g--------~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~   72 (86)
                      ..+.+.|++++|.+.+....+..        ...+..++..+-..|.+.|++++|...|++..   ..+..+|..+-..|
T Consensus       201 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~  280 (330)
T 3hym_B          201 VVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIH  280 (330)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHH
Confidence            34567899999999999987753        13345688899999999999999999999764   23677889999999


Q ss_pred             hhcCChhHhhhcc
Q 043594           73 AQEWEVDMCYTFI   85 (86)
Q Consensus        73 ~~~g~~~~a~~~f   85 (86)
                      .+.|+.++|.+.|
T Consensus       281 ~~~g~~~~A~~~~  293 (330)
T 3hym_B          281 SLMGNFENAVDYF  293 (330)
T ss_dssp             HHHTCHHHHHHHH
T ss_pred             HHhccHHHHHHHH
Confidence            9999999998876

>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=97.76  E-value=4.4e-05  Score=44.62  Aligned_cols=77  Identities=8%  Similarity=-0.002  Sum_probs=66.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|.+.+...    +.|+...+..+-..|.+.|++++|.+.|++..   ..+...|..+-..|.+.|+.++|
T Consensus        15 ~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A   90 (213)
T 1hh8_A           15 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLA   90 (213)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccHHHH
Confidence            345679999999988876    47788999999999999999999999999764   23667899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        91 ~~~~   94 (213)
T 1hh8_A           91 IKDL   94 (213)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.74  E-value=5.2e-05  Score=41.50  Aligned_cols=80  Identities=8%  Similarity=-0.070  Sum_probs=67.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|...+...++.. +.+...|..+=..|.+.|++++|...|++..  .| +...|..+-..|.+.|+.++|
T Consensus        26 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~~~~A  104 (121)
T 1hxi_A           26 SMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAA  104 (121)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            4557899999999999998864 2366778888889999999999999999765  34 567888999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       105 ~~~~  108 (121)
T 1hxi_A          105 LASL  108 (121)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8776

>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=97.74  E-value=0.00013  Score=40.70  Aligned_cols=79  Identities=4%  Similarity=-0.156  Sum_probs=55.4

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...|++++|...+....+.. +.+..++..+-..|...|++++|...|++..  .| +..+|..+-..|.+.|+.++|.
T Consensus        23 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~  101 (166)
T 1a17_A           23 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAAL  101 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhccHHHHH
Confidence            445677888888887777653 2346677777777778888888888777653  23 4566777777778888888877


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       102 ~~~  104 (166)
T 1a17_A          102 RDY  104 (166)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            665

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=97.73  E-value=5.7e-05  Score=45.39  Aligned_cols=80  Identities=9%  Similarity=-0.140  Sum_probs=67.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcC---CchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGF---VANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVD   79 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~   79 (86)
                      ....|++++|.+.+..+.+..-   ..+..++..+-..|...|++++|...|++..  .| +..+|..+-..|.+.|+++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHH
Confidence            4466889999999999988642   1256788899999999999999999999875  24 6789999999999999999


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      +|.+.|
T Consensus        95 ~A~~~~  100 (275)
T 1xnf_A           95 AAYEAF  100 (275)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999876

>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=97.73  E-value=8.6e-05  Score=41.98  Aligned_cols=79  Identities=6%  Similarity=-0.063  Sum_probs=63.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+...++.. +-++..|..+-..|.+.|++++|...|++..  .| +..+|..+-..|.+.|+.++|
T Consensus        40 ~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a  118 (150)
T 4ga2_A           40 LYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGR  118 (150)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHH
Confidence            4567899999999999988864 3356788888899999999999999998765  35 567888888889999988776


Q ss_pred             hhc
Q 043594           82 YTF   84 (86)
Q Consensus        82 ~~~   84 (86)
                      .+.
T Consensus       119 a~~  121 (150)
T 4ga2_A          119 AKY  121 (150)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=97.72  E-value=0.00014  Score=41.59  Aligned_cols=79  Identities=11%  Similarity=-0.008  Sum_probs=61.4

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...++.+.+.+.+....+.. +.+...+..+-..|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|+.++|+
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHH
Confidence            345677888888888777653 3356677788888889999999999998764  24 5678888889999999999998


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       162 ~~~  164 (184)
T 3vtx_A          162 KYF  164 (184)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            776

>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=97.70  E-value=0.00011  Score=43.50  Aligned_cols=80  Identities=5%  Similarity=-0.102  Sum_probs=67.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.+.|++++|.+.+....+..-.++...+..+-..|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|+.++|.
T Consensus        17 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~   96 (228)
T 4i17_A           17 ALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNNQEYI   96 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccHHHHH
Confidence            45689999999999999987744667777778899999999999999999764  34 5678888999999999999999


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus        97 ~~~   99 (228)
T 4i17_A           97 ATL   99 (228)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            876

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=97.67  E-value=7.6e-05  Score=41.13  Aligned_cols=80  Identities=9%  Similarity=0.052  Sum_probs=63.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC--------hhhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN--------VVSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~--------~~t~~~li~~~~~   74 (86)
                      .+-+.|++++|.+.|...++.. +-+...|+.+=..|.+.|++++|.+.|++..+  |+        ..+|..+=..|..
T Consensus        17 ~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~   95 (127)
T 4gcn_A           17 AAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGNAFQK   95 (127)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHH
Confidence            4567899999999999998864 33567888899999999999999999987642  21        1256666677888


Q ss_pred             cCChhHhhhcc
Q 043594           75 EWEVDMCYTFI   85 (86)
Q Consensus        75 ~g~~~~a~~~f   85 (86)
                      .|++++|++.|
T Consensus        96 ~~~~~~A~~~~  106 (127)
T 4gcn_A           96 QNDLSLAVQWF  106 (127)
T ss_dssp             TTCHHHHHHHH
T ss_pred             cCCHHHHHHHH
Confidence            99999998876

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.65  E-value=8.2e-05  Score=44.78  Aligned_cols=79  Identities=5%  Similarity=-0.114  Sum_probs=36.1

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCch--HHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVAN--VYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ...|++++|.+.+....+..-.|+  ...+..+-..|.+.|++++|.+.|++..+  | +..+|..+-..|.+.|++++|
T Consensus        48 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A  127 (272)
T 3u4t_A           48 YELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLA  127 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHH
Confidence            344555555555555544221111  11244444555555555555555554321  2 334455555555555555555


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       128 ~~~~  131 (272)
T 3u4t_A          128 IQYM  131 (272)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5443

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=97.65  E-value=6.7e-05  Score=44.95  Aligned_cols=82  Identities=9%  Similarity=0.043  Sum_probs=66.6

Q ss_pred             cchhcCCchhHHHHHHHHHHHHc-------CCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC----------C-ChhhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSG-------FVANVYVGSSLISFCGKCGENIDVYKMFEKMPV----------R-NVVSW   65 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g-------~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----------~-~~~t~   65 (86)
                      ..+...|++++|.+.+....+..       -.....++..+-..|...|++++|...|++...          | ...+|
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            35667899999999999987762       133466888899999999999999999987631          2 35678


Q ss_pred             HHHHHHHhhcCChhHhhhcc
Q 043594           66 TAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        66 ~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+-..|.+.|++++|.+.|
T Consensus       173 ~~la~~~~~~g~~~~A~~~~  192 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLY  192 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHH
Confidence            88999999999999999876

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=97.64  E-value=0.00014  Score=44.90  Aligned_cols=81  Identities=9%  Similarity=-0.009  Sum_probs=69.4

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~   80 (86)
                      ..+...|++++|.+++..+.+.. +.++.++..+-..|.+.|++++|...|++..+   .+..+|..+...|.+.|++++
T Consensus       128 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  206 (359)
T 3ieg_A          128 LDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHEL  206 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            34567899999999999998864 34677889999999999999999999997643   367889999999999999999


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |.+.|
T Consensus       207 A~~~~  211 (359)
T 3ieg_A          207 SLSEV  211 (359)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98876

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=97.63  E-value=6.7e-05  Score=45.70  Aligned_cols=82  Identities=11%  Similarity=0.040  Sum_probs=66.2

Q ss_pred             cchhcCCchhHHHHHHHHHHHH------cCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----------------
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRS------GFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV-----------------   59 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----------------   59 (86)
                      ..+...|++++|.+++....+.      +-.| ...++..+-..|.+.|++++|.+.|++..+                 
T Consensus       161 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  240 (311)
T 3nf1_A          161 LLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPI  240 (311)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHH
Confidence            3466789999999999999876      3233 455788899999999999999999876531                 


Q ss_pred             ----------------------------------C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           60 ----------------------------------R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        60 ----------------------------------~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                                                        | +..+|..+-..|.+.|+.++|.+.|
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  301 (311)
T 3nf1_A          241 WMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLE  301 (311)
T ss_dssp             HHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                                              2 3457888999999999999999876

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=97.61  E-value=6.8e-05  Score=45.66  Aligned_cols=82  Identities=5%  Similarity=-0.043  Sum_probs=67.4

Q ss_pred             cchhcCCchhHHHHHHHHHHHH-------cCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC----------C-ChhhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRS-------GFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV----------R-NVVSW   65 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~-------g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----------~-~~~t~   65 (86)
                      ..+...|++++|..++..+.+.       .......++..+-..|...|++++|...|++...          | ...+|
T Consensus        35 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  114 (311)
T 3nf1_A           35 IQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATL  114 (311)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            3456789999999999999875       3444567888999999999999999999987631          2 35678


Q ss_pred             HHHHHHHhhcCChhHhhhcc
Q 043594           66 TAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        66 ~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+-..|...|++++|.+.|
T Consensus       115 ~~l~~~~~~~g~~~~A~~~~  134 (311)
T 3nf1_A          115 NNLAVLYGKRGKYKEAEPLC  134 (311)
T ss_dssp             HHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCcHHHHHHHH
Confidence            88999999999999999876

>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=97.60  E-value=0.0003  Score=43.63  Aligned_cols=80  Identities=6%  Similarity=-0.171  Sum_probs=68.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|...+....+.. ..+...+..+-..|.+.|++++|...+++..+  | +...|..+-..|.+.|++++|
T Consensus        13 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A   91 (281)
T 2c2l_A           13 RLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEA   91 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            4557899999999999998864 23677888999999999999999999997653  4 567888899999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        92 ~~~~   95 (281)
T 2c2l_A           92 IANL   95 (281)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=97.59  E-value=0.00017  Score=44.55  Aligned_cols=80  Identities=8%  Similarity=-0.113  Sum_probs=68.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|...+..+.+.. +.++.++..+-..|...|++++|...|++..  .| +...|..+-..|.+.|+.++|
T Consensus        12 ~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A   90 (359)
T 3ieg_A           12 KLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEA   90 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHH
Confidence            4567899999999999998864 3457788899999999999999999999875  34 667899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        91 ~~~~   94 (359)
T 3ieg_A           91 EDDF   94 (359)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

>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=97.57  E-value=0.00021  Score=41.67  Aligned_cols=80  Identities=9%  Similarity=-0.086  Sum_probs=66.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-Ch----------------hhH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NV----------------VSW   65 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~----------------~t~   65 (86)
                      .+.+.|++++|.+.+....+.. +.+...+..+-..|.+.|++++|.+.|++..+  | +.                ..|
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (213)
T 1hh8_A           46 MYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVL  124 (213)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHH
Confidence            4567899999999999998875 34667888999999999999999999987642  2 22                678


Q ss_pred             HHHHHHHhhcCChhHhhhcc
Q 043594           66 TAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        66 ~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+-..|.+.|+.++|.+.|
T Consensus       125 ~~l~~~~~~~g~~~~A~~~~  144 (213)
T 1hh8_A          125 YNIAFMYAKKEEWKKAEEQL  144 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHH
Confidence            88889999999999998876

>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=97.57  E-value=0.00012  Score=47.93  Aligned_cols=80  Identities=10%  Similarity=-0.040  Sum_probs=68.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+..+.+.. +.++..+..+-..|.+.|++++|.+.|++..  .| +..+|..+...|.+.|++++|
T Consensus        34 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A  112 (537)
T 3fp2_A           34 HFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDA  112 (537)
T ss_dssp             HHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHH
Confidence            4567899999999999999875 4467899999999999999999999999875  24 678899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       113 ~~~~  116 (537)
T 3fp2_A          113 MFDL  116 (537)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=97.56  E-value=0.00011  Score=45.90  Aligned_cols=73  Identities=4%  Similarity=-0.030  Sum_probs=52.2

Q ss_pred             hHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC-hh-hHHHHHHHHhhcCChhHhhhcc
Q 043594           13 RGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN-VV-SWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        13 ~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~-~~-t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++|..++.+.++.--+-+...|..+...+.+.|++++|.++|++..+  |+ .. .|..+...+.+.|++++|.++|
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~  157 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHH
Confidence            77888887777632222455788888888888888888888886542  43 33 6888888888888888887765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.55  E-value=0.00019  Score=42.49  Aligned_cols=78  Identities=9%  Similarity=-0.048  Sum_probs=60.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCch-HHHHHH----------------HHHHHHhcCChHHHHHhhcCCC--CC-ChhhH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVAN-VYVGSS----------------LISFCGKCGENIDVYKMFEKMP--VR-NVVSW   65 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~----------------li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~   65 (86)
                      +.+.|++++|.+.+....+..  |+ +..+..                +-..|.+.|++++|...|++..  .| +...|
T Consensus        14 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~   91 (208)
T 3urz_A           14 AIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPNNVDCL   91 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHH
Confidence            446788999999999887753  43 334444                7778888999999999998764  34 66788


Q ss_pred             HHHHHHHhhcCChhHhhhcc
Q 043594           66 TAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        66 ~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+-..|.+.|+.++|.+.|
T Consensus        92 ~~lg~~~~~~g~~~~A~~~~  111 (208)
T 3urz_A           92 EACAEMQVCRGQEKDALRMY  111 (208)
T ss_dssp             HHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHH
Confidence            88888899999999998776

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.53  E-value=0.00019  Score=47.74  Aligned_cols=78  Identities=10%  Similarity=-0.025  Sum_probs=63.2

Q ss_pred             cCCchhHHHHHHHHHHHH---cCC---ch-HHHHHHHHHHHHhcCChHHHHHhhcCCC----------CCCh-hhHHHHH
Q 043594            8 STRNIRGGTQYQCLAVRS---GFV---AN-VYVGSSLISFCGKCGENIDVYKMFEKMP----------VRNV-VSWTAII   69 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~---g~~---~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~----------~~~~-~t~~~li   69 (86)
                      +.|++++|..++.+..+.   -+.   |+ ..+++.|-..|...|++++|..++++..          +|++ .+++.|=
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            457889999999888664   122   33 4589999999999999999999999763          3554 6799999


Q ss_pred             HHHhhcCChhHhhhcc
Q 043594           70 AAFAQEWEVDMCYTFI   85 (86)
Q Consensus        70 ~~~~~~g~~~~a~~~f   85 (86)
                      ..|...|+.++|..+|
T Consensus       390 ~~~~~qg~~~eA~~~~  405 (433)
T 3qww_A          390 RLYMGLENKAAGEKAL  405 (433)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHH
Confidence            9999999999999876

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.53  E-value=0.00022  Score=37.32  Aligned_cols=80  Identities=13%  Similarity=-0.116  Sum_probs=61.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC-------hhhHHHHHHHHhhc
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN-------VVSWTAIIAAFAQE   75 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~-------~~t~~~li~~~~~~   75 (86)
                      .+.+.|++++|.+.+....+.. +.+...+..+-..|.+.|++++|.+.|++..  .|+       ...+..+-..+...
T Consensus        13 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~   91 (111)
T 2l6j_A           13 SLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQYRLELAQGAV   91 (111)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999998864 3367788888899999999999999999764  244       44556666677777


Q ss_pred             CChhHhhhcc
Q 043594           76 WEVDMCYTFI   85 (86)
Q Consensus        76 g~~~~a~~~f   85 (86)
                      |+.++|.+.|
T Consensus        92 ~~~~~a~~~~  101 (111)
T 2l6j_A           92 GSVQIPVVEV  101 (111)
T ss_dssp             HCCCCCSSSS
T ss_pred             HhHhhhHhHH
Confidence            7777776654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=97.52  E-value=0.0004  Score=39.66  Aligned_cols=51  Identities=14%  Similarity=0.038  Sum_probs=35.0

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      +.+.|++++|.+.+....+.. +-++..+..+-..|.+.|++++|...++..
T Consensus        15 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~   65 (184)
T 3vtx_A           15 KRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKF   65 (184)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            445677788888877777653 224556777777777777777777776654

>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=97.51  E-value=0.00032  Score=45.98  Aligned_cols=76  Identities=11%  Similarity=-0.041  Sum_probs=33.7

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      +.|++++|.+.+....+.. +.+..++..+-..|...|++++|.+.|++..  .| +..+|..+-..|.+.|++++|.+.
T Consensus       288 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  366 (537)
T 3fp2_A          288 DKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAF  366 (537)
T ss_dssp             CSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            4444455555444444432 1223344444444445555555555444432  12 233444444444444444444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.51  E-value=0.00017  Score=43.31  Aligned_cols=80  Identities=5%  Similarity=-0.151  Sum_probs=64.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CCh----hhHHHHHHHHhhcCCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RNV----VSWTAIIAAFAQEWEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~----~t~~~li~~~~~~g~~   78 (86)
                      .+...|++++|.+.+....+.. +.+...+..+-..|.+.|++++|.+.|++..+  ++.    .+|..+-..|.+.|++
T Consensus        12 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~   90 (272)
T 3u4t_A           12 FLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQD   90 (272)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccH
Confidence            4567899999999999998764 22444788888899999999999999987643  222    2488889999999999


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|.+.|
T Consensus        91 ~~A~~~~   97 (272)
T 3u4t_A           91 SLAIQQY   97 (272)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999876

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=97.49  E-value=0.00012  Score=47.61  Aligned_cols=78  Identities=10%  Similarity=-0.091  Sum_probs=45.2

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...|++++|.+++..+.+..  |+..++..+...|...|++++|...|++...   .+..+|..+...|.+.|++++|.
T Consensus       247 ~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  324 (514)
T 2gw1_A          247 KFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAG  324 (514)
T ss_dssp             HHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHH
Confidence            445566666666666666554  2255566666666666666666666665421   24455556666666666666665


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       325 ~~~  327 (514)
T 2gw1_A          325 KDF  327 (514)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.49  E-value=0.00023  Score=48.06  Aligned_cols=80  Identities=6%  Similarity=-0.114  Sum_probs=64.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHc---C---Cc-hHHHHHHHHHHHHhcCChHHHHHhhcCCC----------CCCh-hhHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSG---F---VA-NVYVGSSLISFCGKCGENIDVYKMFEKMP----------VRNV-VSWTA   67 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g---~---~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~----------~~~~-~t~~~   67 (86)
                      +...|++++|..++.+..+..   +   .| ...+++.|-..|...|++++|..++++..          +|++ .+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            446799999999998886642   2   23 34589999999999999999999998752          3544 67899


Q ss_pred             HHHHHhhcCChhHhhhcc
Q 043594           68 IIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        68 li~~~~~~g~~~~a~~~f   85 (86)
                      |-..|...|++++|..+|
T Consensus       399 La~~~~~~G~~~eA~~~~  416 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMI  416 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHH
Confidence            999999999999999876

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=97.47  E-value=0.0002  Score=42.67  Aligned_cols=76  Identities=8%  Similarity=-0.197  Sum_probs=34.7

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhc-----------CChHHHHHhhcCCC--CC-ChhhHHHHHHHHh
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKC-----------GENIDVYKMFEKMP--VR-NVVSWTAIIAAFA   73 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~-----------g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~   73 (86)
                      +.|++++|.+.+....+.. +.+...+..+-..|.+.           |++++|...|++..  .| +...|..+=..|.
T Consensus        51 ~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~  129 (217)
T 2pl2_A           51 KLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYA  129 (217)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3455555555555544432 11233444444444444           55555555554432  12 2344444444455


Q ss_pred             hcCChhHhhhc
Q 043594           74 QEWEVDMCYTF   84 (86)
Q Consensus        74 ~~g~~~~a~~~   84 (86)
                      +.|++++|++.
T Consensus       130 ~~g~~~~A~~~  140 (217)
T 2pl2_A          130 LLGERDKAEAS  140 (217)
T ss_dssp             HTTCHHHHHHH
T ss_pred             HcCChHHHHHH
Confidence            55555555443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.46  E-value=0.00032  Score=39.59  Aligned_cols=81  Identities=9%  Similarity=-0.038  Sum_probs=66.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHc-----------------CCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-Chhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG-----------------FVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVS   64 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g-----------------~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t   64 (86)
                      .+.+.|++++|...|...++.-                 -+.+..++..+-.+|.+.|++++|...+++..  .| +...
T Consensus        20 ~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a   99 (162)
T 3rkv_A           20 ELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKA   99 (162)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHH
Confidence            3557899999999999987751                 12244688888899999999999999998764  24 6778


Q ss_pred             HHHHHHHHhhcCChhHhhhcc
Q 043594           65 WTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        65 ~~~li~~~~~~g~~~~a~~~f   85 (86)
                      |..+-.+|...|++++|.+.|
T Consensus       100 ~~~~g~~~~~~g~~~~A~~~~  120 (162)
T 3rkv_A          100 LFRRAKARIAAWKLDEAEEDL  120 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcHHHHHHHH
Confidence            899999999999999998765

>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=97.45  E-value=0.00041  Score=39.53  Aligned_cols=80  Identities=6%  Similarity=-0.051  Sum_probs=57.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHH-HHhcCCh--HHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISF-CGKCGEN--IDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-y~~~g~~--~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~   78 (86)
                      .+...|++++|.+.+....+.. ..+...+..+-.. |...|++  ++|...|++..  .| +...|..+-..|.+.|+.
T Consensus        53 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~  131 (177)
T 2e2e_A           53 YYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITALMLLASDAFMQANY  131 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccH
Confidence            3456788888888888887754 2245566666666 6678887  88888888764  24 456777777888888888


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|.+.|
T Consensus       132 ~~A~~~~  138 (177)
T 2e2e_A          132 AQAIELW  138 (177)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887765

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=97.42  E-value=0.00014  Score=43.49  Aligned_cols=82  Identities=6%  Similarity=-0.032  Sum_probs=66.7

Q ss_pred             cchhcCCchhHHHHHHHHHHHH------cCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC----------C-ChhhH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRS------GFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV----------R-NVVSW   65 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----------~-~~~t~   65 (86)
                      ..+...|++++|.+.+....+.      +-.| ...++..+-..|...|++++|.+.|++...          | ...+|
T Consensus        51 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  130 (283)
T 3edt_B           51 LVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQL  130 (283)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHH
Confidence            3456789999999999998776      3233 466889999999999999999999987631          2 35678


Q ss_pred             HHHHHHHhhcCChhHhhhcc
Q 043594           66 TAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        66 ~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+-..|.+.|++++|.+.|
T Consensus       131 ~~la~~~~~~g~~~~A~~~~  150 (283)
T 3edt_B          131 NNLALLCQNQGKAEEVEYYY  150 (283)
T ss_dssp             HHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHH
Confidence            88999999999999999876

>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=97.38  E-value=0.00044  Score=44.00  Aligned_cols=81  Identities=7%  Similarity=-0.200  Sum_probs=64.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch--------------HHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN--------------VYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTA   67 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~--------------~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~   67 (86)
                      .+.+.|++++|.+.+....+..-...              ..++..+-..|.+.|++++|...|++..  .| +...|..
T Consensus       156 ~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~  235 (336)
T 1p5q_A          156 VYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSR  235 (336)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            34567889999999998887652221              4788888899999999999999998764  23 6778888


Q ss_pred             HHHHHhhcCChhHhhhcc
Q 043594           68 IIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        68 li~~~~~~g~~~~a~~~f   85 (86)
                      +-.+|.+.|++++|.+.|
T Consensus       236 lg~~~~~~g~~~~A~~~~  253 (336)
T 1p5q_A          236 RGEAHLAVNDFELARADF  253 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHH
Confidence            889999999999998766

>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=97.37  E-value=0.00061  Score=39.64  Aligned_cols=81  Identities=10%  Similarity=-0.101  Sum_probs=64.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcC-Cc--------------hHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGF-VA--------------NVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWT   66 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~-~~--------------~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~   66 (86)
                      .+.+.|++++|.+.+....+..- .|              ...++..+-..|.+.|++++|...+++..   ..+...|.
T Consensus        47 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  126 (198)
T 2fbn_A           47 EFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALY  126 (198)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHH
Confidence            34567999999999999887431 12              12678888888999999999999998764   23667888


Q ss_pred             HHHHHHhhcCChhHhhhcc
Q 043594           67 AIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        67 ~li~~~~~~g~~~~a~~~f   85 (86)
                      .+-..|.+.|++++|.+.|
T Consensus       127 ~lg~~~~~~~~~~~A~~~~  145 (198)
T 2fbn_A          127 KLGVANMYFGFLEEAKENL  145 (198)
T ss_dssp             HHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHH
Confidence            8889999999999998876

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.34  E-value=0.0013  Score=43.89  Aligned_cols=80  Identities=4%  Similarity=-0.152  Sum_probs=64.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+.+..+.. ..+..++..+-..|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|+.++|
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            4557789999999999888863 2347788888899999999999999988754  23 567888888889999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        94 ~~~~   97 (477)
T 1wao_1           94 LRDY   97 (477)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.33  E-value=0.00051  Score=44.06  Aligned_cols=81  Identities=5%  Similarity=0.001  Sum_probs=57.9

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCc-----hHHHHHHHHHHHH--hcC--ChHHHHHhhcCCCC--CChhhHHHHHHH
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVA-----NVYVGSSLISFCG--KCG--ENIDVYKMFEKMPV--RNVVSWTAIIAA   71 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~-----~~~~~~~li~~y~--~~g--~~~~A~~~~~~m~~--~~~~t~~~li~~   71 (86)
                      +..+.+.|+.+.|.++++.|.+.  .|     +..+..-|..++.  ..|  +.++|..+|+++.+  |+..+-..++.+
T Consensus       143 vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~  220 (310)
T 3mv2_B          143 IEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNL  220 (310)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHH
Confidence            34566788999999999999775  46     3555566665533  234  89999999998864  443344556668


Q ss_pred             HhhcCChhHhhhcc
Q 043594           72 FAQEWEVDMCYTFI   85 (86)
Q Consensus        72 ~~~~g~~~~a~~~f   85 (86)
                      +.+.|++++|.+.+
T Consensus       221 ~~~~g~~~eAe~~L  234 (310)
T 3mv2_B          221 HLQQRNIAEAQGIV  234 (310)
T ss_dssp             HHHHTCHHHHHHHH
T ss_pred             HHHcCCHHHHHHHH
Confidence            89999999998765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.32  E-value=0.00033  Score=46.52  Aligned_cols=80  Identities=16%  Similarity=0.003  Sum_probs=66.9

Q ss_pred             chhcCCch-hHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhc------
Q 043594            5 SCGSTRNI-RGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQE------   75 (86)
Q Consensus         5 ~~~~~~~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~------   75 (86)
                      .+...|++ ++|.+.+....+.. +.+...|..+-..|.+.|++++|.+.|++..  .|+..+|..+-..|.+.      
T Consensus       111 ~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~~~~~~~~~  189 (474)
T 4abn_A          111 ALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLRQLQTDSGD  189 (474)
T ss_dssp             HHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCCSCHH
T ss_pred             HHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhccCChh
Confidence            45577899 99999999998864 2346788999999999999999999999764  47778888888999998      


Q ss_pred             ---CChhHhhhcc
Q 043594           76 ---WEVDMCYTFI   85 (86)
Q Consensus        76 ---g~~~~a~~~f   85 (86)
                         |++++|.+.|
T Consensus       190 ~~~g~~~~A~~~~  202 (474)
T 4abn_A          190 EHSRHVMDSVRQA  202 (474)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHH
Confidence               9999998776

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=97.31  E-value=0.00043  Score=43.13  Aligned_cols=76  Identities=9%  Similarity=0.045  Sum_probs=59.1

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----C--ChhhHHHHHHHHhhcCChhHh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----R--NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~--~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .|+.++|.++|....+.. .-++..|..++..+.+.|++++|..+|++...     |  ....|..++..+.+.|+.++|
T Consensus       182 ~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a  260 (308)
T 2ond_A          182 SKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  260 (308)
T ss_dssp             SCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            588888888888887753 23567888888888889999999998886532     2  345788888888888998888


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      ..++
T Consensus       261 ~~~~  264 (308)
T 2ond_A          261 LKVE  264 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7664

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.28  E-value=0.00029  Score=46.76  Aligned_cols=81  Identities=6%  Similarity=-0.129  Sum_probs=64.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHc---CCc----hHHHHHHHHHHHHhcCChHHHHHhhcCCC----------CCCh-hhHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG---FVA----NVYVGSSLISFCGKCGENIDVYKMFEKMP----------VRNV-VSWT   66 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g---~~~----~~~~~~~li~~y~~~g~~~~A~~~~~~m~----------~~~~-~t~~   66 (86)
                      .+.+.|++++|..++.+..+..   +.|    ...+++.|...|...|++++|..++++..          .|++ .+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            4556788999999999887541   222    24588999999999999999999999763          3443 6789


Q ss_pred             HHHHHHhhcCChhHhhhcc
Q 043594           67 AIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        67 ~li~~~~~~g~~~~a~~~f   85 (86)
                      .|-..|...|+.++|..++
T Consensus       376 nLa~~~~~~g~~~eA~~~~  394 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNL  394 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHH
Confidence            9999999999999999875

>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=97.27  E-value=0.00055  Score=48.16  Aligned_cols=76  Identities=11%  Similarity=0.019  Sum_probs=34.3

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhc
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      +.|++++|.+.|.+.++.. .-+...++.+=..|.+.|++++|.+.|++..  .| +..+|+.+=..|.+.|+.++|++.
T Consensus        21 ~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l~~~g~~~~A~~~   99 (723)
T 4gyw_A           21 EQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQDVQGALQC   99 (723)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            4455555555555544432 1123344444455555555555555554432  12 233444444444444444444443

>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=97.27  E-value=0.00055  Score=48.19  Aligned_cols=80  Identities=4%  Similarity=-0.094  Sum_probs=54.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.+.+.++.. .-+...|..+=..|.+.|++++|.+.|++..  .| +..+|+.+-..|.+.|++++|
T Consensus        52 ~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eA  130 (723)
T 4gyw_A           52 VLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEA  130 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            3456677777777777776653 1235567777777777777777777777653  23 456677777777777777777


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      ++.|
T Consensus       131 i~~~  134 (723)
T 4gyw_A          131 IASY  134 (723)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7655

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.23  E-value=0.00057  Score=36.38  Aligned_cols=71  Identities=8%  Similarity=-0.043  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           14 GGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        14 ~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++.+.+....+.. +.+...+..+-..|.+.|++++|...|++..  .| +..+|..+-..|.+.|+.++|.+.|
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~   76 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAW   76 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3445555554432 2345677777777888888888888887654  23 4567777777888888888887665

>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=97.20  E-value=0.00088  Score=37.17  Aligned_cols=80  Identities=5%  Similarity=-0.185  Sum_probs=62.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHH--HHHHHhhcCChh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTA--IIAAFAQEWEVD   79 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~--li~~~~~~g~~~   79 (86)
                      .+...|++++|.+.+....+.. +.+...+..+-..|.+.|++++|...|++..+  | +...+..  +...+.+.|+++
T Consensus        56 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~  134 (166)
T 1a17_A           56 AYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFE  134 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999998874 34567888888999999999999999998642  3 4445533  344478889999


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      +|++.+
T Consensus       135 ~A~~~~  140 (166)
T 1a17_A          135 RAIAGD  140 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHcc
Confidence            998765

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.20  E-value=0.0051  Score=38.10  Aligned_cols=80  Identities=11%  Similarity=0.014  Sum_probs=60.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-------------------------
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-------------------------   59 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-------------------------   59 (86)
                      .+...|++++|.+++.+..+.. +-+...+..+-..|.+.|++++|...+++...                         
T Consensus       126 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~~~~~~a  204 (287)
T 3qou_A          126 QLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQAADTPE  204 (287)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHHHTSCHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhhcccCcc
Confidence            3456899999999999998764 23556788888999999999999999998742                         


Q ss_pred             -----------C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           60 -----------R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        60 -----------~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                                 | +...+..+-..|.+.|+.++|.+.|
T Consensus       205 ~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l  242 (287)
T 3qou_A          205 IQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELL  242 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHH
Confidence                       2 3445666667777777777777654

>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=97.14  E-value=0.0018  Score=38.20  Aligned_cols=80  Identities=8%  Similarity=0.025  Sum_probs=64.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC-h-------hhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN-V-------VSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~-~-------~t~~~li~~~~~   74 (86)
                      .+.+.|++++|.+.+....+.. +.+...+..+-..|.+.|++++|.+.|++..  .|+ .       .+|..+=..+.+
T Consensus        51 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~  129 (228)
T 4i17_A           51 CADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQ  129 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHH
Confidence            4557899999999999998754 2366788889999999999999999999764  243 3       346777778899


Q ss_pred             cCChhHhhhcc
Q 043594           75 EWEVDMCYTFI   85 (86)
Q Consensus        75 ~g~~~~a~~~f   85 (86)
                      .|++++|.+.|
T Consensus       130 ~~~~~~A~~~~  140 (228)
T 4i17_A          130 AGNIEKAEENY  140 (228)
T ss_dssp             TTCHHHHHHHH
T ss_pred             hccHHHHHHHH
Confidence            99999999876

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.12  E-value=0.0007  Score=35.53  Aligned_cols=56  Identities=14%  Similarity=0.152  Sum_probs=48.1

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...+..+...|.+.|++++|.+.|+++..  | +..+|..+...|.+.|++++|...|
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~   66 (125)
T 1na0_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYY   66 (125)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            356788888999999999999999998752  3 6778999999999999999998876

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.11  E-value=0.0018  Score=41.28  Aligned_cols=79  Identities=10%  Similarity=-0.097  Sum_probs=64.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHH------------------HHHHHHHHHHhcCChHHHHHhhcCCC--CC-Chh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVY------------------VGSSLISFCGKCGENIDVYKMFEKMP--VR-NVV   63 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~------------------~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~   63 (86)
                      .+.+.|++++|.+.|....+..  |+..                  .|..+-..|.+.|++++|...|++..  .| +..
T Consensus       188 ~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~  265 (338)
T 2if4_A          188 SLFKEEKLEEAMQQYEMAIAYM--GDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEEEKNPK  265 (338)
T ss_dssp             HTCSSSCCHHHHHHHHHHHHHS--CHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHh--ccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence            3557889999999999887753  4433                  78888889999999999999998764  24 677


Q ss_pred             hHHHHHHHHhhcCChhHhhhcc
Q 043594           64 SWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        64 t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .|..+-.+|.+.|++++|.+.|
T Consensus       266 a~~~lg~a~~~~g~~~~A~~~l  287 (338)
T 2if4_A          266 ALFRRGKAKAELGQMDSARDDF  287 (338)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHH
Confidence            8899999999999999998766

>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=97.09  E-value=0.00017  Score=40.74  Aligned_cols=77  Identities=8%  Similarity=-0.123  Sum_probs=58.7

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCch-HHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVAN-VYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      ...|++++|.+.+.....  ..|+ +..+-.+=..|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|++++|.
T Consensus         8 ~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~   85 (150)
T 4ga2_A            8 RSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDKAV   85 (150)
T ss_dssp             CCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHH
Confidence            345677777776665543  2343 3345566788999999999999999864  34 6788999999999999999999


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      ..|
T Consensus        86 ~~~   88 (150)
T 4ga2_A           86 ECY   88 (150)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            876

>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=97.08  E-value=0.00067  Score=38.62  Aligned_cols=80  Identities=13%  Similarity=0.021  Sum_probs=60.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHH-HhhcCCh--
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAA-FAQEWEV--   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~-~~~~g~~--   78 (86)
                      .+...|++++|...+....+.. +.+...+..+-..|...|++++|...|++..+  | +...|..+-.. |.+.|+.  
T Consensus        19 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           19 QFASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CCC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            3556788999999999888764 34667888999999999999999999998653  3 56677777778 7789998  


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|.+.|
T Consensus        98 ~~A~~~~  104 (177)
T 2e2e_A           98 AQTRAMI  104 (177)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.07  E-value=0.00099  Score=40.50  Aligned_cols=81  Identities=10%  Similarity=-0.062  Sum_probs=64.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch---HHHHHHHHHHHHhcCChHHHHHhhcCCCC--------C-ChhhHHHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN---VYVGSSLISFCGKCGENIDVYKMFEKMPV--------R-NVVSWTAIIAAF   72 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~m~~--------~-~~~t~~~li~~~   72 (86)
                      .+...|++++|...+....+..-...   ..++..+-..|...|++++|.+.+++..+        | ...+|..+-..|
T Consensus        14 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~   93 (338)
T 3ro2_A           14 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   93 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence            34578999999999999988742211   46788888999999999999999987531        1 356788888999


Q ss_pred             hhcCChhHhhhcc
Q 043594           73 AQEWEVDMCYTFI   85 (86)
Q Consensus        73 ~~~g~~~~a~~~f   85 (86)
                      ...|++++|.+.|
T Consensus        94 ~~~g~~~~A~~~~  106 (338)
T 3ro2_A           94 KVLGNFDEAIVCC  106 (338)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             HHccCHHHHHHHH
Confidence            9999999998765

>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=97.03  E-value=0.0011  Score=44.64  Aligned_cols=75  Identities=4%  Similarity=-0.129  Sum_probs=32.7

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhc
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      .|++++|.+.+.+..+.. ..+...+..+-..|.+.|++++|.+.|++..  .| +...|..+-..|.+.|+.++|.+.
T Consensus        36 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~  113 (568)
T 2vsy_A           36 MGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAA  113 (568)
T ss_dssp             HTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            344445544444444332 1123344444444444555555555444332  12 233444444444444444444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.02  E-value=0.00091  Score=35.09  Aligned_cols=51  Identities=10%  Similarity=-0.089  Sum_probs=27.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      +.+.|++++|.+.+....+.. +.+...|..+-..|.+.|++++|.+.|++.
T Consensus        17 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A           17 HLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            334556666666666665543 113345555555666666666666666543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.00  E-value=0.0033  Score=40.65  Aligned_cols=81  Identities=7%  Similarity=-0.113  Sum_probs=65.2

Q ss_pred             chhcCCchhHHHHHHHHHHHH--------------cCC-chHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRS--------------GFV-ANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWT   66 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~--------------g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~   66 (86)
                      .+.+.|++++|.+.+....+.              ... .+..+|..+-..|.+.|++++|.+.+++..+  | +...|.
T Consensus       232 ~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~  311 (370)
T 1ihg_A          232 TFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALY  311 (370)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHH
Confidence            355789999999999988762              022 2456888888999999999999999987643  4 567888


Q ss_pred             HHHHHHhhcCChhHhhhcc
Q 043594           67 AIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        67 ~li~~~~~~g~~~~a~~~f   85 (86)
                      .+-.+|.+.|+.++|.+.|
T Consensus       312 ~lg~~~~~~g~~~eA~~~l  330 (370)
T 1ihg_A          312 RRAQGWQGLKEYDQALADL  330 (370)
T ss_dssp             HHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHH
Confidence            8889999999999998765

>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=96.99  E-value=0.002  Score=42.63  Aligned_cols=81  Identities=10%  Similarity=-0.237  Sum_probs=65.1

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch--------------HHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN--------------VYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTA   67 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~--------------~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~   67 (86)
                      .+.+.|++++|...|...++..-...              ...|..+-.+|.+.|++++|...|++..+  | +...|..
T Consensus       277 ~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~  356 (457)
T 1kt0_A          277 VYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYR  356 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHH
Confidence            35578899999999999887532111              57888888999999999999999997642  3 6778888


Q ss_pred             HHHHHhhcCChhHhhhcc
Q 043594           68 IIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        68 li~~~~~~g~~~~a~~~f   85 (86)
                      +-.+|.+.|++++|...|
T Consensus       357 ~g~a~~~~g~~~~A~~~~  374 (457)
T 1kt0_A          357 RGEAQLLMNEFESAKGDF  374 (457)
T ss_dssp             HHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHH
Confidence            889999999999998766

>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=96.93  E-value=0.0022  Score=38.84  Aligned_cols=17  Identities=12%  Similarity=0.274  Sum_probs=6.9

Q ss_pred             CCchhHHHHHHHHHHHH
Q 043594            9 TRNIRGGTQYQCLAVRS   25 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~   25 (86)
                      .+++++|.+.+....+.
T Consensus        55 ~~~~~~A~~~~~~a~~~   71 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDL   71 (273)
T ss_dssp             CCCHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHC
Confidence            33444444444444333

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.92  E-value=0.00057  Score=37.36  Aligned_cols=81  Identities=10%  Similarity=-0.026  Sum_probs=58.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCC-ch----HHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC----hhhHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFV-AN----VYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN----VVSWTAIIA   70 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~t~~~li~   70 (86)
                      .+...|++++|.+.+....+..-. ++    ..++..+-..|...|++++|.+.|++..+     ++    ..++..+-.
T Consensus        18 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~   97 (164)
T 3ro3_A           18 THYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGN   97 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            345678899999988887654211 11    24777788888899999999998887531     11    446777778


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .|...|++++|.+.|
T Consensus        98 ~~~~~~~~~~A~~~~  112 (164)
T 3ro3_A           98 TYTLLQDYEKAIDYH  112 (164)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHH
Confidence            888999999988765

>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=96.90  E-value=0.0026  Score=38.47  Aligned_cols=77  Identities=5%  Similarity=-0.084  Sum_probs=63.0

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHh----cCChHHHHHhhcCCCC-CChhhHHHHHHHHhh----cC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGK----CGENIDVYKMFEKMPV-RNVVSWTAIIAAFAQ----EW   76 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~m~~-~~~~t~~~li~~~~~----~g   76 (86)
                      +...|++++|.+.+....+.+   ++..+..+-..|..    .|++++|.+.|++..+ .+..++..+-..|.+    .|
T Consensus        16 ~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~   92 (273)
T 1ouv_A           16 SYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQ   92 (273)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCC
T ss_pred             HHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCccc
Confidence            456789999999999998843   45677778888888    9999999999997643 366778888888888    99


Q ss_pred             ChhHhhhcc
Q 043594           77 EVDMCYTFI   85 (86)
Q Consensus        77 ~~~~a~~~f   85 (86)
                      +.++|++.|
T Consensus        93 ~~~~A~~~~  101 (273)
T 1ouv_A           93 NTNKALQYY  101 (273)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            999998776

>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=96.90  E-value=0.0029  Score=42.51  Aligned_cols=80  Identities=5%  Similarity=-0.084  Sum_probs=67.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhc---CCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQE---WEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~---g~~   78 (86)
                      .+...|++++|.+.+.+..+.. ..+...+..+-..|.+.|++++|.+.|++..  .| +...|..+...|.+.   |+.
T Consensus        66 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~  144 (568)
T 2vsy_A           66 VRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRAL  144 (568)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccH
Confidence            4567899999999999998874 3356788899999999999999999999864  24 567888899999999   999


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|.+.|
T Consensus       145 ~~A~~~~  151 (568)
T 2vsy_A          145 DVLSAQV  151 (568)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998765

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=96.89  E-value=0.0022  Score=39.54  Aligned_cols=79  Identities=8%  Similarity=0.016  Sum_probs=57.6

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCc-h----HHHHHHHHHHHHhcCChHHHHHhhcCCC-------C--C-ChhhHHHHHHH
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVA-N----VYVGSSLISFCGKCGENIDVYKMFEKMP-------V--R-NVVSWTAIIAA   71 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~-~----~~~~~~li~~y~~~g~~~~A~~~~~~m~-------~--~-~~~t~~~li~~   71 (86)
                      ...+++++|.+.+....+..... |    ..+++.+-..|...|++++|...|++..       .  + ...+|+.+-..
T Consensus       126 ~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~  205 (293)
T 3u3w_A          126 LKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKA  205 (293)
T ss_dssp             TTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHH
T ss_pred             HcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHH
Confidence            45568888888888887743222 2    2368888888888999998888888654       1  1 12367788888


Q ss_pred             HhhcCChhHhhhcc
Q 043594           72 FAQEWEVDMCYTFI   85 (86)
Q Consensus        72 ~~~~g~~~~a~~~f   85 (86)
                      |.+.|+.++|.+.|
T Consensus       206 y~~~~~y~~A~~~~  219 (293)
T 3u3w_A          206 LYLDSRYEESLYQV  219 (293)
T ss_dssp             HHHTTCHHHHHHHH
T ss_pred             HHHHhHHHHHHHHH
Confidence            99999999988765

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=96.87  E-value=0.0009  Score=44.55  Aligned_cols=72  Identities=4%  Similarity=-0.030  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC-h-hhHHHHHHHHhhcCChhHhhhcc
Q 043594           14 GGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN-V-VSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        14 ~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~-~-~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +|.+++.+..+.-.+.+...|..+...+.+.|++++|..+|++..  .|+ . ..|..+...+.+.|+.++|.++|
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~  379 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  379 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHH
Confidence            556666555542122245566666666666666666666666543  232 1 35666666555666666665554

>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=96.86  E-value=0.002  Score=42.02  Aligned_cols=78  Identities=10%  Similarity=-0.042  Sum_probs=45.8

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCC-hHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGE-NIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~-~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      .+.|+.++|.+.+...++.. .-+...|+.+-..|.+.|+ +++|...|++...  | +...|+.+-..|.+.|++++|+
T Consensus       108 ~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~~~eAl  186 (382)
T 2h6f_A          108 QRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQEL  186 (382)
T ss_dssp             HHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHH
T ss_pred             HHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccCHHHHH
Confidence            34566666776666666543 2234566666666666665 7777666665532  2 4455666666666666666665


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      ..|
T Consensus       187 ~~~  189 (382)
T 2h6f_A          187 EFI  189 (382)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=96.85  E-value=0.0045  Score=32.54  Aligned_cols=73  Identities=12%  Similarity=-0.036  Sum_probs=58.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEV   78 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~   78 (86)
                      .+...|++++|.+.+....+.. ..+...+..+-..|.+.|++++|...|++..  .| +...|..+...+.+.|+.
T Consensus        55 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           55 AYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            4567899999999999998864 3356788888899999999999999999764  24 567788787888777764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=96.85  E-value=0.0017  Score=41.26  Aligned_cols=81  Identities=11%  Similarity=-0.029  Sum_probs=64.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch---HHHHHHHHHHHHhcCChHHHHHhhcCCCC--------C-ChhhHHHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN---VYVGSSLISFCGKCGENIDVYKMFEKMPV--------R-NVVSWTAIIAAF   72 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~m~~--------~-~~~t~~~li~~~   72 (86)
                      .+...|++++|.+.+....+..-...   ..++..+-..|...|++++|...|++..+        | ...+|..+-..|
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  136 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTL  136 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHH
Confidence            34578999999999999988742211   24788888999999999999999887531        2 356788888999


Q ss_pred             hhcCChhHhhhcc
Q 043594           73 AQEWEVDMCYTFI   85 (86)
Q Consensus        73 ~~~g~~~~a~~~f   85 (86)
                      ...|++++|.+.|
T Consensus       137 ~~~g~~~~A~~~~  149 (411)
T 4a1s_A          137 KVMGRFDEAAICC  149 (411)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             HHCCCHHHHHHHH
Confidence            9999999998876

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=96.83  E-value=0.0012  Score=43.89  Aligned_cols=75  Identities=12%  Similarity=-0.081  Sum_probs=53.5

Q ss_pred             CchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhc--------CChHHHHHhhcCCC--CC----ChhhHHHHHHHHhhc
Q 043594           10 RNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKC--------GENIDVYKMFEKMP--VR----NVVSWTAIIAAFAQE   75 (86)
Q Consensus        10 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~--------g~~~~A~~~~~~m~--~~----~~~t~~~li~~~~~~   75 (86)
                      |++++|.+.+.+..+.. ..+...|..+-..|...        |++++|.+.|++..  .|    +...|..+-..|.+.
T Consensus       193 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~  271 (474)
T 4abn_A          193 RHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYE  271 (474)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHc
Confidence            77778888887777754 23456777777777777        77888888777653  24    566777777778888


Q ss_pred             CChhHhhhcc
Q 043594           76 WEVDMCYTFI   85 (86)
Q Consensus        76 g~~~~a~~~f   85 (86)
                      |++++|.+.|
T Consensus       272 g~~~~A~~~~  281 (474)
T 4abn_A          272 ESYGEALEGF  281 (474)
T ss_dssp             TCHHHHHHHH
T ss_pred             CCHHHHHHHH
Confidence            8888877655

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=96.75  E-value=0.0026  Score=39.94  Aligned_cols=81  Identities=10%  Similarity=-0.047  Sum_probs=64.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCc-h--HHHHHHHHHHHHhcCChHHHHHhhcCCCC--------C-ChhhHHHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVA-N--VYVGSSLISFCGKCGENIDVYKMFEKMPV--------R-NVVSWTAIIAAF   72 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~-~--~~~~~~li~~y~~~g~~~~A~~~~~~m~~--------~-~~~t~~~li~~~   72 (86)
                      .+.+.|++++|...+....+..-.. .  ..++..+-..|...|++++|...|++...        | ...+|..+-..|
T Consensus        18 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~   97 (406)
T 3sf4_A           18 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   97 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            3557899999999999998874221 1  35788888999999999999999886521        1 245788888999


Q ss_pred             hhcCChhHhhhcc
Q 043594           73 AQEWEVDMCYTFI   85 (86)
Q Consensus        73 ~~~g~~~~a~~~f   85 (86)
                      ...|++++|.+.|
T Consensus        98 ~~~g~~~~A~~~~  110 (406)
T 3sf4_A           98 KVLGNFDEAIVCC  110 (406)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             HHcCCHHHHHHHH
Confidence            9999999998765

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.73  E-value=0.0024  Score=33.10  Aligned_cols=57  Identities=11%  Similarity=-0.003  Sum_probs=47.7

Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           29 ANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        29 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++...+..+-..|.+.|++++|.+.|++..  .| +...|..+-..|.+.|++++|.+.|
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   61 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMC   61 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            355677778888999999999999999764  24 6778888889999999999998765

>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=96.72  E-value=0.002  Score=41.98  Aligned_cols=79  Identities=9%  Similarity=0.023  Sum_probs=57.8

Q ss_pred             hhcCCc-hhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHh
Q 043594            6 CGSTRN-IRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         6 ~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a   81 (86)
                      +.+.|+ +++|.+.+...++.. .-+...|+.+-..|.+.|++++|...|++...   .+...|..+-..+.+.|++++|
T Consensus       141 l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eA  219 (382)
T 2h6f_A          141 LKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNE  219 (382)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTH
T ss_pred             HHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHH
Confidence            345675 888888888887764 22456777777788888888888888887642   3667787777888888888887


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      ++.|
T Consensus       220 l~~~  223 (382)
T 2h6f_A          220 LQYV  223 (382)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7655

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=96.70  E-value=0.0015  Score=37.46  Aligned_cols=81  Identities=10%  Similarity=-0.061  Sum_probs=60.7

Q ss_pred             chhcCCchhHHHHHHHHHHHH----cCC--chHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC----hhhHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRS----GFV--ANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN----VVSWTAII   69 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~----g~~--~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~t~~~li   69 (86)
                      .+...|++++|.+.+.+..+.    +-.  .....+..+-..|...|++++|...+++...     ++    ..++..+-
T Consensus        75 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  154 (203)
T 3gw4_A           75 VERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLG  154 (203)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHH
Confidence            455789999999999887664    212  2345677888899999999999999887531     12    23457777


Q ss_pred             HHHhhcCChhHhhhcc
Q 043594           70 AAFAQEWEVDMCYTFI   85 (86)
Q Consensus        70 ~~~~~~g~~~~a~~~f   85 (86)
                      ..|.+.|++++|.+.|
T Consensus       155 ~~~~~~g~~~~A~~~~  170 (203)
T 3gw4_A          155 DLAQQEKNLLEAQQHW  170 (203)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHH
Confidence            8899999999998765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=96.66  E-value=0.0019  Score=39.26  Aligned_cols=80  Identities=10%  Similarity=-0.054  Sum_probs=51.4

Q ss_pred             hhcCCchhHHHHHHHHHHHHc--C--Cc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC----hhhHHHHHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSG--F--VA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN----VVSWTAIIAA   71 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g--~--~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~t~~~li~~   71 (86)
                      +...|++++|.+.+....+..  .  .+ ...++..+-..|...|++++|...+++..+     ++    ..+|..+-..
T Consensus       233 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~  312 (338)
T 3ro2_A          233 YIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNA  312 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence            445677777777777665432  1  11 144666667777778888888777776531     11    3456677777


Q ss_pred             HhhcCChhHhhhcc
Q 043594           72 FAQEWEVDMCYTFI   85 (86)
Q Consensus        72 ~~~~g~~~~a~~~f   85 (86)
                      |.+.|++++|.+.|
T Consensus       313 ~~~~g~~~~A~~~~  326 (338)
T 3ro2_A          313 YTALGNHDQAMHFA  326 (338)
T ss_dssp             HHHHTCHHHHHHHH
T ss_pred             HHHcCChHHHHHHH
Confidence            88888888877665

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=96.62  E-value=0.0031  Score=40.00  Aligned_cols=81  Identities=6%  Similarity=-0.145  Sum_probs=57.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcC--C---chHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----C----ChhhHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGF--V---ANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----R----NVVSWTAIIA   70 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~--~---~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~----~~~t~~~li~   70 (86)
                      .+...|++++|.+.+....+..-  .   ....++..+-..|.+.|++++|...|++..+     +    ...+|..+-.
T Consensus       272 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  351 (411)
T 4a1s_A          272 SHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGN  351 (411)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            45677888888888887765421  1   1245777778888888888888888886532     1    1346777788


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .|.+.|+.++|.+.|
T Consensus       352 ~~~~~g~~~~A~~~~  366 (411)
T 4a1s_A          352 AHSAIGGHERALKYA  366 (411)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHhccHHHHHHHH
Confidence            888888888888765

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.62  E-value=0.011  Score=29.35  Aligned_cols=68  Identities=13%  Similarity=-0.010  Sum_probs=44.5

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQ   74 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~   74 (86)
                      +.+.|++++|.+.+....+.. +.+..++..+-..|.+.|++++|...|++..  .| +...+..+-..+.+
T Consensus        19 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           19 YYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            446678888888888777654 2345667777777888888888888877653  23 34455554444433

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=96.62  E-value=0.0041  Score=38.32  Aligned_cols=80  Identities=8%  Similarity=0.007  Sum_probs=59.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcC---Cch--HHHHHHHHHHHHhcCChHHHHHhhcCCC-----CCC-----hhhHHHHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGF---VAN--VYVGSSLISFCGKCGENIDVYKMFEKMP-----VRN-----VVSWTAIIA   70 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~---~~~--~~~~~~li~~y~~~g~~~~A~~~~~~m~-----~~~-----~~t~~~li~   70 (86)
                      +...|++++|.+.+....+...   .+.  ..+++.+-..|...|++++|...|++..     .|+     ..+|+.+-.
T Consensus       125 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~  204 (293)
T 2qfc_A          125 VLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAK  204 (293)
T ss_dssp             HHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHH
Confidence            3466788899888888765321   111  4588888899999999999999888753     122     257888888


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .|.+.|++++|.+.|
T Consensus       205 ~y~~~~~y~~Al~~~  219 (293)
T 2qfc_A          205 ALYLDSRYEESLYQV  219 (293)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHH
Confidence            999999999998776

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.61  E-value=0.0035  Score=31.34  Aligned_cols=56  Identities=14%  Similarity=0.146  Sum_probs=46.8

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...+..+-..|.+.|++++|...|++..  .| +..+|..+-..|.+.|++++|.+.|
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~   66 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYY   66 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            45577778888999999999999999764  23 5678888999999999999998865

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=96.60  E-value=0.0031  Score=33.51  Aligned_cols=58  Identities=9%  Similarity=0.046  Sum_probs=49.5

Q ss_pred             CchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           28 VANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        28 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+...+..+-..|.+.|++++|...|++...  | +..+|..+-..|.+.|++++|.+.|
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~   73 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDC   73 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHH
Confidence            45677888888999999999999999997542  3 6788999999999999999998876

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=96.60  E-value=0.0032  Score=36.01  Aligned_cols=78  Identities=4%  Similarity=-0.187  Sum_probs=57.0

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC---------CChhhHHHHHHHHhhcCC
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV---------RNVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---------~~~~t~~~li~~~~~~g~   77 (86)
                      ...|++++|.+++..+.. .-.....++..+-..|...|++++|...|++...         ....+++.+-..|...|+
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            357899999995554432 2224677888888999999999999998886532         134577888889999999


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      +++|.+.|
T Consensus        82 ~~~A~~~~   89 (203)
T 3gw4_A           82 WDAARRCF   89 (203)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998765

>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=96.59  E-value=0.007  Score=35.27  Aligned_cols=80  Identities=6%  Similarity=-0.095  Sum_probs=63.8

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCc-----------hHHHHHHHHHHHHhcCChHHHHHhhcCCC---------CC-Chhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVA-----------NVYVGSSLISFCGKCGENIDVYKMFEKMP---------VR-NVVS   64 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~-----------~~~~~~~li~~y~~~g~~~~A~~~~~~m~---------~~-~~~t   64 (86)
                      +.+.|++++|.+.|....+..=..           +...|+.+=.++.+.|++++|...|++..         .| +...
T Consensus        21 l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A  100 (159)
T 2hr2_A           21 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL  100 (159)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHH
Confidence            446799999999999998764220           23388999999999999999999988653         44 4567


Q ss_pred             H----HHHHHHHhhcCChhHhhhcc
Q 043594           65 W----TAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        65 ~----~~li~~~~~~g~~~~a~~~f   85 (86)
                      |    ...=.++...|+.++|++.|
T Consensus       101 ~~~~~~~rG~aL~~lgr~eEAl~~y  125 (159)
T 2hr2_A          101 WISAVYSRALALDGLGRGAEAMPEF  125 (159)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHCCCHHHHHHHH
Confidence            8    88888999999999999876

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=96.54  E-value=0.005  Score=38.05  Aligned_cols=81  Identities=6%  Similarity=-0.150  Sum_probs=60.6

Q ss_pred             chhcC-CchhHHHHHHHHHHHHc--CCc--h-HHHHHHHHHHHHhcCChHHHHHhhcCCCC--CCh--h------hHHHH
Q 043594            5 SCGST-RNIRGGTQYQCLAVRSG--FVA--N-VYVGSSLISFCGKCGENIDVYKMFEKMPV--RNV--V------SWTAI   68 (86)
Q Consensus         5 ~~~~~-~~~~~a~~~~~~m~~~g--~~~--~-~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~--~------t~~~l   68 (86)
                      .+.+. |++++|.+.+.+..+..  ...  . ..+++.+-..|.+.|++++|...|++..+  |+.  .      +|..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            34454 99999999999887642  111  1 35688888999999999999999997632  221  1      46777


Q ss_pred             HHHHhhcCChhHhhhcc
Q 043594           69 IAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        69 i~~~~~~g~~~~a~~~f   85 (86)
                      -..|...|+.++|...|
T Consensus       206 g~~~~~~g~~~~A~~~~  222 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTL  222 (292)
T ss_dssp             HHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHH
Confidence            78899999999998765

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=96.52  E-value=0.0036  Score=35.69  Aligned_cols=55  Identities=11%  Similarity=-0.105  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           31 VYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        31 ~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...+..+=..|.+.|++++|...|++..  .| +...|..+=..|.+.|++++|++.|
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~   93 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLY   93 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHH
Confidence            4466777788899999999999999875  35 6788999999999999999999876

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=96.51  E-value=0.0034  Score=39.42  Aligned_cols=81  Identities=10%  Similarity=-0.085  Sum_probs=51.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHc----CCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC----hhhHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG----FVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN----VVSWTAIIA   70 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g----~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~t~~~li~   70 (86)
                      .+...|++++|.+.+....+..    -.+ ...++..+-..|.+.|++++|...|++..+     ++    ..+|..+-.
T Consensus       236 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~  315 (406)
T 3sf4_A          236 AYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGN  315 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence            3456677777777777765431    111 144666677777777888877777776431     11    446666777


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .|.+.|++++|.+.|
T Consensus       316 ~~~~~g~~~~A~~~~  330 (406)
T 3sf4_A          316 AYTALGNHDQAMHFA  330 (406)
T ss_dssp             HHHHHTCHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHH
Confidence            777778887777654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=96.48  E-value=0.0058  Score=40.67  Aligned_cols=77  Identities=9%  Similarity=0.045  Sum_probs=55.6

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----C--ChhhHHHHHHHHhhcCChhH
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----R--NVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~--~~~t~~~li~~~~~~g~~~~   80 (86)
                      ..|+.++|..+|+...+.. +.++.+|..++..+.+.|+.++|+.+|++...     |  ....|...+.-..+.|+.+.
T Consensus       403 ~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~  481 (530)
T 2ooe_A          403 CSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLAS  481 (530)
T ss_dssp             HTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHH
T ss_pred             HcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4677888888888877653 23567888888888888888888888886532     2  13367777777778888877


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      +.+++
T Consensus       482 ~~~~~  486 (530)
T 2ooe_A          482 ILKVE  486 (530)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=96.47  E-value=0.0031  Score=40.42  Aligned_cols=82  Identities=4%  Similarity=-0.083  Sum_probs=58.8

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcC-CchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-----ChhhHHHHHHH--Hh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGF-VANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-----NVVSWTAIIAA--FA   73 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-----~~~t~~~li~~--~~   73 (86)
                      .++...|++++|.+++...+..|- .-+...+..++..|.+.|+.+.|.+.+++|.+  |     +..+..-|..+  ..
T Consensus       108 ~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~~d~~~~~d~~l~~Laea~v~l  187 (310)
T 3mv2_B          108 TAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEMILNLAESYIKF  187 (310)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCccccccchHHHHHHHHHHHHH
Confidence            345567899999998887755542 23666888888999999999999999998864  5     24555555555  22


Q ss_pred             h--cCChhHhhhcc
Q 043594           74 Q--EWEVDMCYTFI   85 (86)
Q Consensus        74 ~--~g~~~~a~~~f   85 (86)
                      .  .++..+|+.+|
T Consensus       188 ~~g~~~~q~A~~~f  201 (310)
T 3mv2_B          188 ATNKETATSNFYYY  201 (310)
T ss_dssp             HHTCSTTTHHHHHH
T ss_pred             HhCCccHHHHHHHH
Confidence            2  33888888776

>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=96.46  E-value=0.0026  Score=42.44  Aligned_cols=80  Identities=5%  Similarity=-0.175  Sum_probs=60.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHH--HhhcCChh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAA--FAQEWEVD   79 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~--~~~~g~~~   79 (86)
                      ++.+.|++++|.+.+.+..+.. ..+...+..+-..|.+.|++++|.+.|++..  .| +...+..+-.+  +.+.|+++
T Consensus        49 ~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~  127 (477)
T 1wao_1           49 AYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFE  127 (477)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999998863 3356788888999999999999999999764  24 44556665555  88889999


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      +|.+.+
T Consensus       128 ~A~~~~  133 (477)
T 1wao_1          128 RAIAGD  133 (477)
T ss_dssp             CC----
T ss_pred             HHhccc
Confidence            998765

>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=96.45  E-value=0.0072  Score=34.43  Aligned_cols=69  Identities=4%  Similarity=-0.054  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHcCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC---hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           15 GTQYQCLAVRSGFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN---VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        15 a~~~~~~m~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~---~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +.+.+....+.  .| ++..+..+-..|.+.|++++|...|++..  .|+   ...|..+...|...|+.++|...|
T Consensus        93 a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           93 ELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             HHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            34445444443  34 46778888889999999999999998764  243   558899999999999999988765

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=96.43  E-value=0.0027  Score=34.55  Aligned_cols=81  Identities=10%  Similarity=-0.054  Sum_probs=61.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHc--C--Cc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----C----ChhhHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG--F--VA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV-----R----NVVSWTAIIA   70 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g--~--~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~----~~~t~~~li~   70 (86)
                      .+...|++++|.+.+....+..  .  .+ ...++..+-..|...|++++|.+.+++..+     +    ...++..+-.
T Consensus        58 ~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~  137 (164)
T 3ro3_A           58 AYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGN  137 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHH
Confidence            4557899999999999876642  1  11 245677788889999999999999886531     1    1346777888


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .|.+.|+.++|.+.|
T Consensus       138 ~~~~~g~~~~A~~~~  152 (164)
T 3ro3_A          138 AYTALGNHDQAMHFA  152 (164)
T ss_dssp             HHHHHTCHHHHHHHH
T ss_pred             HHHHccCHHHHHHHH
Confidence            899999999998765

>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=96.38  E-value=0.0047  Score=31.92  Aligned_cols=56  Identities=16%  Similarity=0.033  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...+..+-..+...|++++|...|++..  .| +...|..+-..|.+.|++++|.+.|
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~   61 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDG   61 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHH
Confidence            45567778888999999999999999864  24 6778888899999999999998765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.31  E-value=0.0059  Score=33.04  Aligned_cols=57  Identities=14%  Similarity=-0.051  Sum_probs=48.1

Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC----hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           29 ANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN----VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        29 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~----~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+...+..+-..|.+.|++++|.+.|++..  .|+    ...|..+-..|.+.|++++|.+.|
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~   88 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEA   88 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHH
Confidence            356678888889999999999999999764  355    677888889999999999998765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=96.31  E-value=0.0064  Score=38.61  Aligned_cols=81  Identities=6%  Similarity=-0.106  Sum_probs=62.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHc----CCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--------CC-hhhHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG----FVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV--------RN-VVSWTAIIA   70 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g----~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--------~~-~~t~~~li~   70 (86)
                      .+...|++++|.+.+....+..    -.+ ...++..+=..|...|++++|.+.|++..+        |+ ..++..+-.
T Consensus       193 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  272 (383)
T 3ulq_A          193 NFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQ  272 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHH
Confidence            4567799999999998887642    111 224788888999999999999998886532        32 456888889


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .|.+.|+.++|.+.|
T Consensus       273 ~~~~~g~~~~A~~~~  287 (383)
T 3ulq_A          273 IHYKLGKIDKAHEYH  287 (383)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHH
Confidence            999999999998876

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=96.30  E-value=0.024  Score=34.99  Aligned_cols=82  Identities=5%  Similarity=-0.095  Sum_probs=57.6

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchH------HHHHHHHHHHHhcCChHHHHHhhcCCCC--CChh------hHHHHH
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANV------YVGSSLISFCGKCGENIDVYKMFEKMPV--RNVV------SWTAII   69 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~------~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~------t~~~li   69 (86)
                      ..+.+.|++++|...+....+..-....      ..+..+-..|...|++++|...|++..+  |+..      .+..++
T Consensus       166 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~  245 (292)
T 1qqe_A          166 DLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLI  245 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHH
Confidence            3456789999999999999886533322      1567777889999999999999998753  3321      344566


Q ss_pred             HHHh--hcCChhHhhhcc
Q 043594           70 AAFA--QEWEVDMCYTFI   85 (86)
Q Consensus        70 ~~~~--~~g~~~~a~~~f   85 (86)
                      .+|.  ..+++++|++.|
T Consensus       246 ~~~~~~~~~~~~~A~~~~  263 (292)
T 1qqe_A          246 DAVNEGDSEQLSEHCKEF  263 (292)
T ss_dssp             HHHHTTCTTTHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHh
Confidence            6664  456788888765

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=96.29  E-value=0.0096  Score=35.81  Aligned_cols=52  Identities=4%  Similarity=-0.221  Sum_probs=26.7

Q ss_pred             hhcCCchhHHHHHHHHHHHHc--CCchHHHHHHHHHHHHh--------cCChHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSG--FVANVYVGSSLISFCGK--------CGENIDVYKMFEKM   57 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~y~~--------~g~~~~A~~~~~~m   57 (86)
                      +.+.|++++|...+....+..  -......+..+-..|.+        .|++++|...|++.
T Consensus        62 ~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~  123 (261)
T 3qky_A           62 YYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLF  123 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHH
Confidence            344556666666666665542  11122334444445555        56666666666654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=96.29  E-value=0.0024  Score=32.84  Aligned_cols=55  Identities=11%  Similarity=-0.070  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           31 VYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        31 ~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...+..+-..|.+.|++++|...|++..   ..+..+|..+-..|.+.|++++|.+.|
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~   63 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCY   63 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHH
Confidence            4466777788899999999999999764   236778888999999999999999876

>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=96.28  E-value=0.0042  Score=38.70  Aligned_cols=79  Identities=5%  Similarity=-0.142  Sum_probs=49.7

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCC----c-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC----hhhHHHHHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFV----A-NVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN----VVSWTAIIAA   71 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~----~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~t~~~li~~   71 (86)
                      +.+ |++++|.+.+.+..+..-.    + ...+++.+-..|.+.|++++|...|++...     ++    ..+|..+...
T Consensus       126 ~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~  204 (307)
T 2ifu_A          126 MEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLV  204 (307)
T ss_dssp             HTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Confidence            344 7777777777776553211    1 134667777778888888888887776532     11    1245556666


Q ss_pred             HhhcCChhHhhhcc
Q 043594           72 FAQEWEVDMCYTFI   85 (86)
Q Consensus        72 ~~~~g~~~~a~~~f   85 (86)
                      +...|+.++|.+.|
T Consensus       205 ~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          205 QLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHTTCHHHHHHHH
T ss_pred             HHHcCCHHHHHHHH
Confidence            67778888877655

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=96.22  E-value=0.0059  Score=32.12  Aligned_cols=55  Identities=15%  Similarity=0.083  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           31 VYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        31 ~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...+..+-..|...|++++|...|++..   ..+...|..+-..|.+.|++++|...|
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~   61 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELC   61 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHH
Confidence            4567777888999999999999999764   236778888999999999999998875

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=96.20  E-value=0.007  Score=33.93  Aligned_cols=56  Identities=13%  Similarity=-0.035  Sum_probs=46.8

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...+..+-..+.+.|++++|...|++..  .| +...|..+-..|.+.|++++|++.|
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   78 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSY   78 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            34466777788999999999999999764  34 6788888889999999999999876

>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=96.20  E-value=0.0076  Score=32.40  Aligned_cols=57  Identities=4%  Similarity=-0.169  Sum_probs=48.4

Q ss_pred             chHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           29 ANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        29 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+...+..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|++++|...|
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~   66 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADC   66 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            456778888889999999999999999764  24 5778999999999999999998765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=96.16  E-value=0.012  Score=34.59  Aligned_cols=70  Identities=14%  Similarity=0.087  Sum_probs=54.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhc
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQE   75 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~   75 (86)
                      .+.+.|++++|.+.+....+.. +-++..+..+-..|...|++++|...|++..  .| +..+|..+-..|...
T Consensus        63 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           63 AYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            4567899999999999998864 3356788888899999999999999999874  34 456666665555433

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=96.15  E-value=0.0059  Score=38.82  Aligned_cols=81  Identities=7%  Similarity=-0.005  Sum_probs=62.4

Q ss_pred             chhcCCchhHHHHHHHHHHHH----cCC-chHHHHHHHHHHHHhcCChHHHHHhhcCCCC-------C-ChhhHHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRS----GFV-ANVYVGSSLISFCGKCGENIDVYKMFEKMPV-------R-NVVSWTAIIAA   71 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-------~-~~~t~~~li~~   71 (86)
                      .+...|++++|.+.+....+.    +-. ....+++.+=..|...|++++|.+.|++..+       | ...++..+-..
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  270 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Confidence            456789999999999888664    211 1234677788889999999999999987532       3 24567788889


Q ss_pred             HhhcCChhHhhhcc
Q 043594           72 FAQEWEVDMCYTFI   85 (86)
Q Consensus        72 ~~~~g~~~~a~~~f   85 (86)
                      |.+.|+.++|.+.|
T Consensus       271 ~~~~g~~~~A~~~~  284 (378)
T 3q15_A          271 LCKAGQTQKAFQFI  284 (378)
T ss_dssp             HHHTTCHHHHHHHH
T ss_pred             HHHCCCHHHHHHHH
Confidence            99999999998876

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=96.09  E-value=0.0048  Score=38.01  Aligned_cols=80  Identities=5%  Similarity=-0.210  Sum_probs=61.1

Q ss_pred             chhcCCchhHHHHHHHHHHHH---c-CCc--hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC-------hhhHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRS---G-FVA--NVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN-------VVSWTAII   69 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~---g-~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~-------~~t~~~li   69 (86)
                      .+...|++++|.+.+....+.   . -.+  ...+++.+-..|.+.|++++|...|++..+  ++       ..+|..+-
T Consensus       164 ~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg  243 (293)
T 2qfc_A          164 IYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRG  243 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456789999999999998742   1 111  225888899999999999999999986531  11       45678888


Q ss_pred             HHHhhcCChhHh-hhc
Q 043594           70 AAFAQEWEVDMC-YTF   84 (86)
Q Consensus        70 ~~~~~~g~~~~a-~~~   84 (86)
                      ..|.+.|+.++| .+.
T Consensus       244 ~~y~~~g~~~~Ai~~~  259 (293)
T 2qfc_A          244 ECLRKLEYEEAEIEDA  259 (293)
T ss_dssp             HHHHHTTCCHHHHHHH
T ss_pred             HHHHHcCCcHHHHHHH
Confidence            899999999999 543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.07  E-value=0.0082  Score=33.69  Aligned_cols=56  Identities=9%  Similarity=-0.083  Sum_probs=48.0

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...+..+-..|.+.|++++|.+.|++..  .| +...|..+-..|.+.|++++|++.|
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~   68 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDA   68 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHH
Confidence            45677778888999999999999999864  34 6788999999999999999999876

>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=96.05  E-value=0.005  Score=38.33  Aligned_cols=80  Identities=5%  Similarity=-0.060  Sum_probs=59.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcC---Cc--hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C---C----hhhHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGF---VA--NVYVGSSLISFCGKCGENIDVYKMFEKMPV--R---N----VVSWTAIIA   70 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~---~~--~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~---~----~~t~~~li~   70 (86)
                      .+.+.|++++|.+.+....+.--   .+  -..+++.+-..|.+ |++++|...|++..+  |   +    ..+|+.+-.
T Consensus        85 ~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~  163 (307)
T 2ifu_A           85 MLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASR  163 (307)
T ss_dssp             HHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            45567889999998888765421   12  24577778888888 999999999986532  1   1    457788889


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .|.+.|++++|++.|
T Consensus       164 ~~~~~g~~~~A~~~~  178 (307)
T 2ifu_A          164 LLVRQQKFDEAAASL  178 (307)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHH
Confidence            999999999998876

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=96.03  E-value=0.0052  Score=37.86  Aligned_cols=81  Identities=5%  Similarity=-0.223  Sum_probs=61.6

Q ss_pred             chhcCCchhHHHHHHHHHHHH-----cCCch-HHHHHHHHHHHHhcCChHHHHHhhcCCCC--------CC-hhhHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRS-----GFVAN-VYVGSSLISFCGKCGENIDVYKMFEKMPV--------RN-VVSWTAII   69 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~-----g~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~~--------~~-~~t~~~li   69 (86)
                      .+...|++++|.+.+....+.     +..+. ..++..+-..|.+.|++++|...+++..+        +. ..+|..+=
T Consensus       164 ~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg  243 (293)
T 3u3w_A          164 IYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRG  243 (293)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            466789999999999998752     22232 33788888999999999999999986531        11 45677888


Q ss_pred             HHHhhcCC-hhHhhhcc
Q 043594           70 AAFAQEWE-VDMCYTFI   85 (86)
Q Consensus        70 ~~~~~~g~-~~~a~~~f   85 (86)
                      ..|.+.|+ .++|.+.|
T Consensus       244 ~~~~~~g~~~~~A~~~~  260 (293)
T 3u3w_A          244 ECLRKLEYEEAEIEDAY  260 (293)
T ss_dssp             HHHHHTTCCHHHHHHHH
T ss_pred             HHHHHhCCcHHHHHHHH
Confidence            88999994 68888765

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.011  Score=31.63  Aligned_cols=55  Identities=9%  Similarity=-0.094  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           31 VYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        31 ~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...+..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|++++|++.|
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~   61 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADC   61 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHH
Confidence            3456666678899999999999999764  24 6788999999999999999998865

>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=95.96  E-value=0.0097  Score=41.28  Aligned_cols=78  Identities=6%  Similarity=-0.175  Sum_probs=49.6

Q ss_pred             cCCchhHHHHHHHHHHH------HcCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCC
Q 043594            8 STRNIRGGTQYQCLAVR------SGFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWE   77 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~------~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~   77 (86)
                      ..|+.++|.+.+....+      ....| +...+..+-..|.+.|++++|.+.|++..+  | +...|..+=..|.+.|+
T Consensus       403 ~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~  482 (681)
T 2pzi_A          403 VLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGD  482 (681)
T ss_dssp             TTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTC
T ss_pred             cccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCC
Confidence            45667777777777661      01223 344666666777777777777777776542  3 45566666677777777


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      +++|.+.|
T Consensus       483 ~~~A~~~~  490 (681)
T 2pzi_A          483 YDSATKHF  490 (681)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777655

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.93  E-value=0.022  Score=29.57  Aligned_cols=56  Identities=11%  Similarity=0.035  Sum_probs=48.4

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++..+..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|++++|.+.|
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~   64 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTY   64 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            56678888899999999999999999875  34 5678999999999999999999876

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.92  E-value=0.0057  Score=31.32  Aligned_cols=53  Identities=8%  Similarity=-0.091  Sum_probs=43.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHH-HHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVY-VGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .+.+.|++++|.+.+....+.. ..+.. .+..+-..|.+.|++++|.+.|++..
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3456799999999999998864 23455 78888889999999999999999764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=95.91  E-value=0.0066  Score=36.53  Aligned_cols=79  Identities=6%  Similarity=-0.070  Sum_probs=61.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch----HHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC----hhhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN----VYVGSSLISFCGKCGENIDVYKMFEKMPV--RN----VVSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~----~~t~~~li~~~~~   74 (86)
                      .+-+.|++++|.+.+..+.+..  |+    ...+..+-..|.+.|++++|...|++...  |+    ..+|..+-..|.+
T Consensus        24 ~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~  101 (261)
T 3qky_A           24 EFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYK  101 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHH
Confidence            3456899999999999998764  32    56777788889999999999999998742  42    3456666677877


Q ss_pred             --------cCChhHhhhcc
Q 043594           75 --------EWEVDMCYTFI   85 (86)
Q Consensus        75 --------~g~~~~a~~~f   85 (86)
                              .|++++|.+.|
T Consensus       102 ~~~~~~~~~~~~~~A~~~~  120 (261)
T 3qky_A          102 LSPPYELDQTDTRKAIEAF  120 (261)
T ss_dssp             HCCCTTSCCHHHHHHHHHH
T ss_pred             hcccccccchhHHHHHHHH
Confidence                    89999998876

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=95.90  E-value=0.0057  Score=33.42  Aligned_cols=53  Identities=9%  Similarity=-0.004  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+...=..|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|++++|++.|
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~   70 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDC   70 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHH
Confidence            45555567899999999999999864  34 6788999999999999999999865

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=95.89  E-value=0.0077  Score=38.11  Aligned_cols=78  Identities=13%  Similarity=-0.075  Sum_probs=45.5

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-CC----hhhHHHHHHHHhhcCChhH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-RN----VVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-~~----~~t~~~li~~~~~~g~~~~   80 (86)
                      +...|++++|.+++..+...+  |+....-.+-..|.+.+++++|...|++... |+    ...+..+=.++.+.|++++
T Consensus       112 L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~~~e  189 (282)
T 4f3v_A          112 EAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLALFTE  189 (282)
T ss_dssp             HHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCCHHH
Confidence            445677777777777665533  4433444444466667777777777765432 21    1234444456677777777


Q ss_pred             hhhcc
Q 043594           81 CYTFI   85 (86)
Q Consensus        81 a~~~f   85 (86)
                      |++.|
T Consensus       190 Al~~l  194 (282)
T 4f3v_A          190 AERRL  194 (282)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=95.87  E-value=0.013  Score=32.26  Aligned_cols=54  Identities=11%  Similarity=-0.109  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           32 YVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        32 ~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+..+-..+.+.|++++|...|++..  .| +...|..+-..|.+.|++++|.+.|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   75 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSY   75 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            345556677889999999999999864  34 6778888889999999999998876

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=95.85  E-value=0.01  Score=35.20  Aligned_cols=54  Identities=11%  Similarity=-0.176  Sum_probs=43.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHcC-Cc-hHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGF-VA-NVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~-~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .+.+.|++++|.+.+..+.+..= .| ....+..+-..|.+.|++++|...|++..
T Consensus        13 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l   68 (225)
T 2yhc_A           13 QKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFI   68 (225)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            34567999999999999988631 11 23567778889999999999999999875

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=95.82  E-value=0.014  Score=31.76  Aligned_cols=53  Identities=15%  Similarity=0.117  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+.-+=..|.+.|++++|.+.|++..  .| +..+|+.+=..|.+.|++++|++.|
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~   65 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFC   65 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHH
Confidence            44445567889999999999999764  34 6778999999999999999998765

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=95.81  E-value=0.022  Score=36.11  Aligned_cols=77  Identities=9%  Similarity=-0.190  Sum_probs=64.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ++.+.|++++|.+.+....+.. +.+...+..+-..|.+.|++++|...|++..  .| +...|..+-..+.+.|+.++|
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999998874 3467788889999999999999999999764  34 567888888899999988887


Q ss_pred             h
Q 043594           82 Y   82 (86)
Q Consensus        82 ~   82 (86)
                      .
T Consensus       284 ~  284 (336)
T 1p5q_A          284 E  284 (336)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=95.76  E-value=0.031  Score=29.59  Aligned_cols=69  Identities=10%  Similarity=0.031  Sum_probs=52.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CChhhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RNVVSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~~t~~~li~~~~~   74 (86)
                      .+.+.|++++|.+.+....+.. +-+..++..+-..|.+.|++++|...|++...     |++..|...|..|.+
T Consensus        36 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~ai~~~~~  109 (117)
T 3k9i_A           36 TFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVELLLKIIAETSDDETIQSYKQAILFYAD  109 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHTHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            4567899999999999998875 23466888888999999999999999987642     344455555555544

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=95.73  E-value=0.099  Score=28.52  Aligned_cols=57  Identities=12%  Similarity=0.034  Sum_probs=42.8

Q ss_pred             hhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHH
Q 043594           12 IRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIA   70 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~   70 (86)
                      -++|.-|-+-+...+-  ...+-=+-++.....|++++|..+.+..+.||+..|-.|-.
T Consensus        23 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce   79 (116)
T 2p58_C           23 HEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE   79 (116)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH
Confidence            3456556555555554  44454555678889999999999999999999999988754

>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=95.68  E-value=0.0099  Score=41.25  Aligned_cols=74  Identities=9%  Similarity=-0.159  Sum_probs=41.3

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~   80 (86)
                      +.+.|++++|.+.+....+.. .-+...+..+=..|.+.|++++|.+.|++..  .| +...|..+-..|.+.|++++
T Consensus       443 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~  519 (681)
T 2pzi_A          443 LLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE  519 (681)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT
T ss_pred             HHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH
Confidence            345566777777777666643 2234456666666666777777777666542  12 33444444444545554444

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=95.64  E-value=0.095  Score=28.55  Aligned_cols=65  Identities=12%  Similarity=-0.041  Sum_probs=46.0

Q ss_pred             hhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhH
Q 043594           12 IRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDM   80 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~   80 (86)
                      -++|.-|-+-+...+-  ...+-=+-++.....|++++|..+.+..+.||+.+|-.|-.  .|.|.-++
T Consensus        22 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~   86 (115)
T 2uwj_G           22 HEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAA   86 (115)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHH
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHH
Confidence            3456556555555554  44454555678889999999999999999999999988754  24444443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=95.63  E-value=0.051  Score=33.51  Aligned_cols=60  Identities=3%  Similarity=-0.129  Sum_probs=49.8

Q ss_pred             CCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           27 FVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        27 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      ...+...+-.+-..+.+.|++++|...|++..  .| +...+..+-..|.+.|+.++|.+.|+
T Consensus       113 lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~  175 (287)
T 3qou_A          113 LPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLX  175 (287)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            45556677777788899999999999999874  35 56788999999999999999998764

>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=95.52  E-value=0.024  Score=33.42  Aligned_cols=72  Identities=10%  Similarity=0.009  Sum_probs=36.5

Q ss_pred             chhHHHHHHHHHHHHcCCchHHHHHHHHHHHHh----cCChHHHHHhhcCCCCCC-----hhhHHHHHHHHhh----cCC
Q 043594           11 NIRGGTQYQCLAVRSGFVANVYVGSSLISFCGK----CGENIDVYKMFEKMPVRN-----VVSWTAIIAAFAQ----EWE   77 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~m~~~~-----~~t~~~li~~~~~----~g~   77 (86)
                      +.++|.+.+....+.|   ++..+..|=..|..    .+++++|.+.|++..+.+     ..++..|=..|.+    .++
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            4555555555554443   23344444444444    455555555555544321     3555555555555    555


Q ss_pred             hhHhhhcc
Q 043594           78 VDMCYTFI   85 (86)
Q Consensus        78 ~~~a~~~f   85 (86)
                      .++|++.|
T Consensus       145 ~~~A~~~~  152 (212)
T 3rjv_A          145 DVKASEYF  152 (212)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555544

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=95.49  E-value=0.021  Score=35.89  Aligned_cols=81  Identities=5%  Similarity=-0.124  Sum_probs=60.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHc----CC--c-hHHHHHHHHHHHHhcCChHHHHHhhcCCC----C---C-ChhhHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG----FV--A-NVYVGSSLISFCGKCGENIDVYKMFEKMP----V---R-NVVSWTAII   69 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g----~~--~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~---~-~~~t~~~li   69 (86)
                      .+...|++++|.+.+.+..+..    ..  | ....+..+-..|...|++++|...+++..    .   + ...+|..+-
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            3456799999999998886642    21  3 34566677788999999999999998642    1   1 234677788


Q ss_pred             HHHhhcCChhHhhhcc
Q 043594           70 AAFAQEWEVDMCYTFI   85 (86)
Q Consensus        70 ~~~~~~g~~~~a~~~f   85 (86)
                      ..+...|++++|.+.+
T Consensus       182 ~~~~~~g~~~~A~~~l  197 (373)
T 1hz4_A          182 QCSLARGDLDNARSQL  197 (373)
T ss_dssp             HHHHHHTCHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHH
Confidence            8899999999998765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=95.44  E-value=0.037  Score=35.07  Aligned_cols=51  Identities=12%  Similarity=-0.043  Sum_probs=24.7

Q ss_pred             hhcCCchhHHHHHHHHHHHH----cC-CchHHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            6 CGSTRNIRGGTQYQCLAVRS----GF-VANVYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~----g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      +...|++++|.+.+....+.    +. .....++..+-..|.+.|++++|...|++
T Consensus       234 y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  289 (383)
T 3ulq_A          234 KNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSK  289 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            33445555555555554442    22 33344555555555555555555555443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=95.36  E-value=0.084  Score=33.11  Aligned_cols=80  Identities=6%  Similarity=-0.083  Sum_probs=55.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCch-HHHHH-----HHHHHHHhcCChHHHHHhhcCCCCCC-------hhhHHHHHHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVAN-VYVGS-----SLISFCGKCGENIDVYKMFEKMPVRN-------VVSWTAIIAAF   72 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~-----~li~~y~~~g~~~~A~~~~~~m~~~~-------~~t~~~li~~~   72 (86)
                      +...|++++|.+.+.+..+..-.++ ...+.     .....+...|++++|...+++...++       ...+..+...+
T Consensus       184 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~  263 (373)
T 1hz4_A          184 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  263 (373)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHH
Confidence            4457889999999998876532221 11121     23345778999999999998875432       22466777889


Q ss_pred             hhcCChhHhhhcc
Q 043594           73 AQEWEVDMCYTFI   85 (86)
Q Consensus        73 ~~~g~~~~a~~~f   85 (86)
                      ...|+.++|.+.+
T Consensus       264 ~~~g~~~~A~~~l  276 (373)
T 1hz4_A          264 ILLGEFEPAEIVL  276 (373)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             HHcCCHHHHHHHH
Confidence            9999999998765

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=95.32  E-value=0.051  Score=28.46  Aligned_cols=69  Identities=6%  Similarity=-0.083  Sum_probs=51.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CChhhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RNVVSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~~t~~~li~~~~~   74 (86)
                      .+...|++++|.+.+....+.. ..+...+..+-..|.+.|++++|...|++..+     ++......+...+.+
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~l~~~l~~  101 (115)
T 2kat_A           28 TYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQSRGDQQVVKELQVFLRR  101 (115)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccccHHHHHHHHHHHHH
Confidence            4567899999999999998865 33466888888999999999999999997642     344444444444433

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=95.30  E-value=0.056  Score=30.63  Aligned_cols=54  Identities=4%  Similarity=-0.176  Sum_probs=43.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      .+.+.|++++|...+....+.. +.+...+..+-..|.+.|++++|...|++...
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~   68 (176)
T 2r5s_A           15 ELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPL   68 (176)
T ss_dssp             HHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh
Confidence            3557899999999999886643 23566788888999999999999999999864

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=95.13  E-value=0.02  Score=38.64  Aligned_cols=83  Identities=7%  Similarity=-0.236  Sum_probs=60.6

Q ss_pred             hcchhcCCchhHHHHHHHHHHHH-----c-CCch-HHHHHHHHHHHHhcCChHHHHHhhcCCC----------CCChh-h
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRS-----G-FVAN-VYVGSSLISFCGKCGENIDVYKMFEKMP----------VRNVV-S   64 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~-----g-~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~----------~~~~~-t   64 (86)
                      -..|...|++++|..++.+..+.     | -.|+ ..+++.|-..|...|++++|..++++..          +|++. +
T Consensus       358 a~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  437 (490)
T 3n71_A          358 SEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDL  437 (490)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHH
Confidence            34677889999999999988654     2 2333 4588999999999999999999988652          24433 3


Q ss_pred             HHHHHHHHhhcCChhHhhhcc
Q 043594           65 WTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        65 ~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+.|-..+...|..++|..+|
T Consensus       438 ~~~l~~~~~e~~~~~~ae~~~  458 (490)
T 3n71_A          438 EAMRMQTEMELRMFRQNEFMY  458 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            455556777777777776554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=95.13  E-value=0.015  Score=34.40  Aligned_cols=76  Identities=16%  Similarity=0.100  Sum_probs=57.5

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchH-HHHH-----------------HHHHHHHhcCChHHHHHhhcCCC--CCCh----h
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANV-YVGS-----------------SLISFCGKCGENIDVYKMFEKMP--VRNV----V   63 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~-~~~~-----------------~li~~y~~~g~~~~A~~~~~~m~--~~~~----~   63 (86)
                      +.|+.++|.+.+..+++.-  |+. ..+.                 .+-..|.+.|++++|...|+++.  .|+.    .
T Consensus       108 ~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  185 (225)
T 2yhc_A          108 DPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRD  185 (225)
T ss_dssp             CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHH
Confidence            3578899999999887752  332 2222                 33456888999999999999875  3543    4


Q ss_pred             hHHHHHHHHhhcCChhHhhhcc
Q 043594           64 SWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        64 t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+..+...|.+.|+.++|.+.|
T Consensus       186 a~~~l~~~~~~~g~~~~A~~~~  207 (225)
T 2yhc_A          186 ALPLMENAYRQMQMNAQAEKVA  207 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHH
Confidence            6888999999999999998865

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=94.89  E-value=0.073  Score=37.40  Aligned_cols=73  Identities=12%  Similarity=0.087  Sum_probs=40.4

Q ss_pred             chhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C----ChhhHHHHHHHHhhcCChhHhhhc
Q 043594           11 NIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R----NVVSWTAIIAAFAQEWEVDMCYTF   84 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~----~~~t~~~li~~~~~~g~~~~a~~~   84 (86)
                      +.+.|.++|+..++. +.-+...|...++...+.|+.+.|+.+|+....  |    ....|...+.--.+.|+.+.+.++
T Consensus       485 d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v  563 (679)
T 4e6h_A          485 DTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTL  563 (679)
T ss_dssp             CCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHH
T ss_pred             CHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            356666666666554 333444555556655556666666666665432  2    224566666666666666555443

>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=94.81  E-value=0.073  Score=40.80  Aligned_cols=54  Identities=13%  Similarity=0.059  Sum_probs=42.0

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++.+|..+=.++-+.|++++|.+.|.+-  .|...|.-++..|.+.|++++|++.|
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL 1157 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYL 1157 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3667777888888888888888888653  46667777888888888888888765

>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=94.81  E-value=0.17  Score=29.65  Aligned_cols=76  Identities=11%  Similarity=0.033  Sum_probs=58.1

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcC----ChHHHHHhhcCCCCC-ChhhHHHHHHHHhh----cC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCG----ENIDVYKMFEKMPVR-NVVSWTAIIAAFAQ----EW   76 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g----~~~~A~~~~~~m~~~-~~~t~~~li~~~~~----~g   76 (86)
                      +...++.++|.+.+....+.|   ++..+..|=..|.. |    +.++|.+.|++..++ +..++..|=..|..    .+
T Consensus        28 ~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g~~~a~~~Lg~~y~~g~g~~~  103 (212)
T 3rjv_A           28 WVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAGSKSGEIVLARVLVNRQAGAT  103 (212)
T ss_dssp             HHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCGGGSSC
T ss_pred             HhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCcc
Confidence            335688999999999988876   45666667777777 6    899999999877554 56677777777776    78


Q ss_pred             ChhHhhhcc
Q 043594           77 EVDMCYTFI   85 (86)
Q Consensus        77 ~~~~a~~~f   85 (86)
                      +.++|++.|
T Consensus       104 d~~~A~~~~  112 (212)
T 3rjv_A          104 DVAHAITLL  112 (212)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            888888766

>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=94.74  E-value=0.1  Score=40.01  Aligned_cols=50  Identities=18%  Similarity=0.235  Sum_probs=28.7

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhh
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMF   54 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~   54 (86)
                      ...|.+.|+++++.+.+....+..  +++.+.+.+...|++.+++++..++.
T Consensus      1141 a~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI 1190 (1630)
T 1xi4_A         1141 VQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI 1190 (1630)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH
Confidence            345666777777777776554433  44444444666666666666544443

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=94.73  E-value=0.059  Score=31.01  Aligned_cols=77  Identities=9%  Similarity=-0.123  Sum_probs=58.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ++.+.|++++|...+....+.. ..+...+..+-..|...|++++|.+.|++..  .| +...+..+-..+.+.++..++
T Consensus        97 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~  175 (198)
T 2fbn_A           97 CYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKEARKK  175 (198)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHH
Confidence            4557899999999999998873 3456788888899999999999999999764  34 556777777777766666555


Q ss_pred             h
Q 043594           82 Y   82 (86)
Q Consensus        82 ~   82 (86)
                      .
T Consensus       176 ~  176 (198)
T 2fbn_A          176 D  176 (198)
T ss_dssp             -
T ss_pred             H
Confidence            4

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.60  E-value=0.025  Score=28.78  Aligned_cols=48  Identities=8%  Similarity=-0.020  Sum_probs=39.6

Q ss_pred             HHHHHhcCChHHHHHhhcCCC--CC-Chh-hHHHHHHHHhhcCChhHhhhcc
Q 043594           38 ISFCGKCGENIDVYKMFEKMP--VR-NVV-SWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        38 i~~y~~~g~~~~A~~~~~~m~--~~-~~~-t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      -..|.+.|++++|...|++..  .| +.. .|..+-..|.+.|++++|.+.|
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~   58 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNY   58 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            345778899999999999764  34 456 7888888999999999999876

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=94.52  E-value=0.056  Score=34.86  Aligned_cols=82  Identities=2%  Similarity=-0.199  Sum_probs=49.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHH--HHHHHHH-HHHhcCChHHHHHhhcCCC-----------------------
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVY--VGSSLIS-FCGKCGENIDVYKMFEKMP-----------------------   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~li~-~y~~~g~~~~A~~~~~~m~-----------------------   58 (86)
                      .+.+.|++++|.+.|....+....+...  ++..+-. .+...|+.++|...|++..                       
T Consensus       343 ~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~  422 (472)
T 4g1t_A          343 LHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMR  422 (472)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHH
Confidence            4567788999999998887765443322  2222221 2345688888888776431                       


Q ss_pred             ---CC-ChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           59 ---VR-NVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        59 ---~~-~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                         .| +..+|+.|=..|.+.|+.++|++.|+
T Consensus       423 l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~  454 (472)
T 4g1t_A          423 LSKNGADSEALHVLAFLQELNEKMQQADEDSE  454 (472)
T ss_dssp             HHHCC-CTTHHHHHHHHHHHHHHCC-------
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence               13 56778888888888899998888764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=94.46  E-value=0.17  Score=32.06  Aligned_cols=51  Identities=12%  Similarity=-0.053  Sum_probs=27.9

Q ss_pred             hhcCCchhHHHHHHHHHHH----HcCCchHHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            6 CGSTRNIRGGTQYQCLAVR----SGFVANVYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~----~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      +...|++++|.+.+....+    .+.+....++..+-..|.+.|+.++|...+++
T Consensus       232 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  286 (378)
T 3q15_A          232 YDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEE  286 (378)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3445566666665555544    13333355566666666666666666665553

>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=94.45  E-value=0.032  Score=30.91  Aligned_cols=74  Identities=9%  Similarity=-0.143  Sum_probs=43.2

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHh----cCChHHHHHhhcCCCC-CChhhHHHHHHHHhh----cCChh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGK----CGENIDVYKMFEKMPV-RNVVSWTAIIAAFAQ----EWEVD   79 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~m~~-~~~~t~~~li~~~~~----~g~~~   79 (86)
                      .+.+++|.+.+....+.|   ++..+..|=.+|..    .++.++|.+.|++-.+ -+..++..|=..|.+    .++.+
T Consensus        38 g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~  114 (138)
T 1klx_A           38 QINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEK  114 (138)
T ss_dssp             TSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHH
Confidence            344555666666665554   34455555555555    5667777777765433 355556666666666    66777


Q ss_pred             Hhhhcc
Q 043594           80 MCYTFI   85 (86)
Q Consensus        80 ~a~~~f   85 (86)
                      +|.+.|
T Consensus       115 ~A~~~~  120 (138)
T 1klx_A          115 QAVKTF  120 (138)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=94.45  E-value=0.15  Score=26.71  Aligned_cols=52  Identities=15%  Similarity=-0.082  Sum_probs=43.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCch----HHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVAN----VYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .+.+.|++++|...+....+..  |+    +..+..+-..|.+.|+.++|...|++..
T Consensus        48 ~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  103 (129)
T 2xev_A           48 SYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVA  103 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4557899999999999998864  33    5567778888999999999999999875

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=94.31  E-value=0.085  Score=34.83  Aligned_cols=77  Identities=14%  Similarity=-0.159  Sum_probs=61.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ++.+.|++++|.+.+...++.. ..+...+..+-.+|.+.|++++|...|++..+  | +...|..+-..+.+.|+.+++
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999998875 33577888888999999999999999997643  4 567788888888888877766


Q ss_pred             h
Q 043594           82 Y   82 (86)
Q Consensus        82 ~   82 (86)
                      .
T Consensus       405 ~  405 (457)
T 1kt0_A          405 D  405 (457)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=94.21  E-value=0.2  Score=27.53  Aligned_cols=77  Identities=6%  Similarity=0.012  Sum_probs=56.5

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC-CChhhHHHHHHHHhh----cCCh
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV-RNVVSWTAIIAAFAQ----EWEV   78 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-~~~~t~~~li~~~~~----~g~~   78 (86)
                      .+....++.++|.+.+....+.| .|+..    |=..|...+.+++|.+.|++-.+ -+...+..|=..|.+    .++.
T Consensus         3 ~G~g~~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~   77 (138)
T 1klx_A            3 GGGTVKKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDL   77 (138)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCH
T ss_pred             CCcCCccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccH
Confidence            44455677889999999988888 33333    55677777888889999886543 466677777777777    7888


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|++.|
T Consensus        78 ~~A~~~~   84 (138)
T 1klx_A           78 RKAAQYY   84 (138)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8888766

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=94.06  E-value=0.061  Score=37.79  Aligned_cols=78  Identities=8%  Similarity=0.031  Sum_probs=58.7

Q ss_pred             cCCchhHHHHHHHHHHHH-c-CCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            8 STRNIRGGTQYQCLAVRS-G-FVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~-g-~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.|.++.|.++|....+. + ..+...+..+.+.... .++.+.|+++|+...+  | +...|...+.-..+.|+.+.|.
T Consensus       446 R~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR  524 (679)
T 4e6h_A          446 RIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVK  524 (679)
T ss_dssp             HHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHH
Confidence            457789999999999886 3 4556666666666432 3569999999997643  3 5567788888888899999999


Q ss_pred             hccC
Q 043594           83 TFIV   86 (86)
Q Consensus        83 ~~f~   86 (86)
                      .+|+
T Consensus       525 ~lfe  528 (679)
T 4e6h_A          525 SLFE  528 (679)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8873

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=94.01  E-value=0.17  Score=32.05  Aligned_cols=79  Identities=6%  Similarity=-0.160  Sum_probs=45.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHH-HhhcCChhH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAA-FAQEWEVDM   80 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~-~~~~g~~~~   80 (86)
                      ++.+.|++++|...+...++.. ..+...+..+-.+|...|++++|...|++..+  | +...+..|-.. ....+..++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4567899999999999998864 33577888899999999999999999998753  4 33444444433 223344444


Q ss_pred             hhhc
Q 043594           81 CYTF   84 (86)
Q Consensus        81 a~~~   84 (86)
                      +.+.
T Consensus       318 a~~~  321 (338)
T 2if4_A          318 QKEM  321 (338)
T ss_dssp             ----
T ss_pred             HHHH
Confidence            4443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=93.86  E-value=0.16  Score=33.33  Aligned_cols=14  Identities=7%  Similarity=0.033  Sum_probs=5.7

Q ss_pred             chhHHHHHHHHHHH
Q 043594           11 NIRGGTQYQCLAVR   24 (86)
Q Consensus        11 ~~~~a~~~~~~m~~   24 (86)
                      +.++|.+.+....+
T Consensus       166 d~~~A~~~~~~a~~  179 (490)
T 2xm6_A          166 DYVMAREWYSKAAE  179 (490)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            34444444444433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=93.83  E-value=0.081  Score=28.39  Aligned_cols=53  Identities=6%  Similarity=-0.170  Sum_probs=43.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .+...|+.++|...+.+..+.. .-+...+..+-..|.+.|++++|...|++..
T Consensus        60 ~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           60 TQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4557899999999999998865 2245688888899999999999999998754

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=93.80  E-value=0.067  Score=34.49  Aligned_cols=56  Identities=11%  Similarity=0.123  Sum_probs=46.2

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC-----------CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP-----------VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~-----------~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ...+||.|=..|...|+.++|.+.|++-.           +| ..++|+-+-..|...|+.++|...|
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~  117 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYV  117 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            35678988889999999999999987531           23 4578999999999999999998765

>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=93.65  E-value=0.095  Score=32.21  Aligned_cols=56  Identities=4%  Similarity=-0.174  Sum_probs=46.6

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +...+..+-..|.+.|++++|...|++..  .| +...|..+-..|.+.|++++|.+.|
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~   61 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADC   61 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            34566677788899999999999999764  35 6778888999999999999998765

>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=93.37  E-value=0.18  Score=33.48  Aligned_cols=55  Identities=13%  Similarity=0.105  Sum_probs=44.8

Q ss_pred             hcchhcCCchhHHHHHHHHHHHH-----c-CCch-HHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRS-----G-FVAN-VYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~-----g-~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      -.+|...|++++|..++.+..+.     | -.|+ ..+++.|=..|...|++++|..++++.
T Consensus       347 a~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          347 MGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            35677889999999999998654     2 3444 447899999999999999999999864

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.15  E-value=0.39  Score=28.39  Aligned_cols=72  Identities=7%  Similarity=-0.044  Sum_probs=53.8

Q ss_pred             cCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCC-----------Chh-------------
Q 043594            8 STRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVR-----------NVV-------------   63 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----------~~~-------------   63 (86)
                      ..|+++.|.++-..+      -+...|..|=+...+.|+++-|+++|.+...-           |..             
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D~~~L~~Ly~~tg~~e~L~kla~iA~~~g   90 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHSFDKLSFLYLVTGDVNKLSKMQNIAQTRE   90 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCHHHHHHHHHHHTCHHHHHHHHHHHHHTT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHHHCc
Confidence            568899998887655      46779999999999999999999999987531           111             


Q ss_pred             hHHHHHHHHhhcCChhHhhhcc
Q 043594           64 SWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        64 t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      -+|.-...+.-.|+++++.++|
T Consensus        91 ~~n~af~~~l~lGdv~~~i~lL  112 (177)
T 3mkq_B           91 DFGSMLLNTFYNNSTKERSSIF  112 (177)
T ss_dssp             CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cHHHHHHHHHHcCCHHHHHHHH
Confidence            1455566666777777777665

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=93.10  E-value=0.27  Score=32.25  Aligned_cols=7  Identities=0%  Similarity=-0.163  Sum_probs=2.6

Q ss_pred             CChhHhh
Q 043594           76 WEVDMCY   82 (86)
Q Consensus        76 g~~~~a~   82 (86)
                      ++.++|+
T Consensus       201 ~~~~~A~  207 (490)
T 2xm6_A          201 RNDAISA  207 (490)
T ss_dssp             CCHHHHH
T ss_pred             cCHHHHH
Confidence            3333333

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=93.09  E-value=0.47  Score=31.83  Aligned_cols=71  Identities=7%  Similarity=0.117  Sum_probs=33.5

Q ss_pred             chhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhhh
Q 043594           11 NIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +.+.|..+|+...+.- .-++..+...++...+.|+.+.|+.+|+... .....|...+.-=.+.|+.+.+.+
T Consensus       335 d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-k~~~lw~~~~~fE~~~G~~~~~r~  405 (493)
T 2uy1_A          335 SRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-KTSRMWDSMIEYEFMVGSMELFRE  405 (493)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-CBHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             ChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCHHHHHH
Confidence            3555555555554432 1112233444555555555555555555542 234445555544444455544443

>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=92.67  E-value=0.21  Score=32.20  Aligned_cols=78  Identities=6%  Similarity=-0.158  Sum_probs=61.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      ++.+.|++++|.+.+....+.. ..+...+..+-.+|.+.|++++|.+.|++..  .| +...+..+-..+.+.++.+++
T Consensus       282 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          282 CKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4557899999999999998753 2356688888899999999999999999764  34 566777777778877777776


Q ss_pred             hh
Q 043594           82 YT   83 (86)
Q Consensus        82 ~~   83 (86)
                      .+
T Consensus       361 ~k  362 (370)
T 1ihg_A          361 EK  362 (370)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.16  E-value=0.59  Score=29.68  Aligned_cols=78  Identities=5%  Similarity=-0.068  Sum_probs=58.3

Q ss_pred             cCCchhHHHHHHHHHHHH----cCC-chHHHHHHHHHHHHhcCChHHHHHhhcCCC--------CCC-hhhHHHHHHHHh
Q 043594            8 STRNIRGGTQYQCLAVRS----GFV-ANVYVGSSLISFCGKCGENIDVYKMFEKMP--------VRN-VVSWTAIIAAFA   73 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--------~~~-~~t~~~li~~~~   73 (86)
                      ..|+.+++.+++......    +-. .-..++..+...|...|++++|..++++..        .|. +.+|..+...|.
T Consensus       107 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (434)
T 4b4t_Q          107 VPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYH  186 (434)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHH
Confidence            356777888877776542    222 235678889999999999999999888642        222 457888999999


Q ss_pred             hcCChhHhhhcc
Q 043594           74 QEWEVDMCYTFI   85 (86)
Q Consensus        74 ~~g~~~~a~~~f   85 (86)
                      ..|++++|..++
T Consensus       187 ~~~~~~~A~~~~  198 (434)
T 4b4t_Q          187 KLRNLAKSKASL  198 (434)
T ss_dssp             HTTCHHHHHHHH
T ss_pred             HhCcHHHHHHHH
Confidence            999999998765

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=91.81  E-value=0.39  Score=26.50  Aligned_cols=57  Identities=2%  Similarity=-0.189  Sum_probs=46.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCCh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNV   62 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~   62 (86)
                      ++.+.|++++|...+...++.. +.++..|..+-.+|...|++++|...|++..  .|+.
T Consensus        72 ~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~  130 (162)
T 3rkv_A           72 CYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAA  130 (162)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGG
T ss_pred             HHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCC
Confidence            4557899999999999998874 3456788888899999999999999999764  3543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=91.70  E-value=0.31  Score=32.25  Aligned_cols=55  Identities=7%  Similarity=-0.096  Sum_probs=44.1

Q ss_pred             hcchhcCCchhHHHHHHHHHHHH-----c-CCch-HHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRS-----G-FVAN-VYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~-----g-~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      ..+|...|++++|..++.+..+.     | -.|+ ..+++.|-..|...|++++|..++++.
T Consensus       336 ~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          336 MDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            35677889999999999988654     2 3343 447888999999999999999998865

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=91.55  E-value=0.6  Score=29.46  Aligned_cols=51  Identities=8%  Similarity=-0.005  Sum_probs=40.4

Q ss_pred             HHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           36 SLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        36 ~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      .....+...|++++|.++|+...  .|+-...-.+-..+.+.|++++|+..|+
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~  159 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVK  159 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34566788899999999999986  4644466666668999999999998763

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=91.46  E-value=0.82  Score=23.75  Aligned_cols=56  Identities=13%  Similarity=-0.038  Sum_probs=44.4

Q ss_pred             hhcCCchhHHHHHHHHHHHHc------CCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSG------FVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN   61 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g------~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~   61 (86)
                      +-+.+++.+|..-+....+.-      -.+...++..|-.+|.+.|++++|...+++..  .|+
T Consensus        15 ~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~   78 (104)
T 2v5f_A           15 AYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (104)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC
Confidence            446788999999888886642      23467788999999999999999999999764  354

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.27  E-value=0.39  Score=27.84  Aligned_cols=56  Identities=4%  Similarity=-0.078  Sum_probs=36.9

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      |+.....|.-++..++...+.. +-+|++...-.+-++|.+-|+..+|.+++.+.++
T Consensus        98 Ld~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~  153 (172)
T 1wy6_A           98 LDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACK  153 (172)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            3444556666777777776544 4466677777777788888888887777776543

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=90.84  E-value=0.078  Score=30.79  Aligned_cols=80  Identities=10%  Similarity=-0.098  Sum_probs=57.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCCh----------HHHHHhhcCCC--CC-ChhhHHHHHHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGEN----------IDVYKMFEKMP--VR-NVVSWTAIIAAF   72 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~----------~~A~~~~~~m~--~~-~~~t~~~li~~~   72 (86)
                      ..+.+.+++|.+.+....+.. ..+...|+.+=..+...|++          ++|...|++..  .| +..+|..+=.+|
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence            345567888888888888765 23555666666666666654          58999888764  35 567888888888


Q ss_pred             hhcC-----------ChhHhhhccC
Q 043594           73 AQEW-----------EVDMCYTFIV   86 (86)
Q Consensus        73 ~~~g-----------~~~~a~~~f~   86 (86)
                      .+.|           ++++|++.|+
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~  115 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQ  115 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHH
Confidence            8764           8999988763

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=90.32  E-value=0.62  Score=32.12  Aligned_cols=44  Identities=5%  Similarity=-0.228  Sum_probs=31.1

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      .|++++|.++..      .-.+...|..+-..+.+.|+++.|.++|.++.
T Consensus       665 ~~~~~~A~~~~~------~~~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          665 VGQLTLARDLLT------DESAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HTCHHHHHHHHT------TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHH------hhCcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            345555544432      22456788888888999999999999888775

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=90.24  E-value=1.9  Score=28.22  Aligned_cols=72  Identities=10%  Similarity=-0.025  Sum_probs=39.0

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcC-----ChHHHHHhhcCCCCC-ChhhHHHHHHHHhh----cCCh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCG-----ENIDVYKMFEKMPVR-NVVSWTAIIAAFAQ----EWEV   78 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g-----~~~~A~~~~~~m~~~-~~~t~~~li~~~~~----~g~~   78 (86)
                      .++.++|.+.+....+.|   ++..+..|=.+|. .|     +.++|...|++-. | +...+..|=..|.+    ..+.
T Consensus       264 ~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~  338 (452)
T 3e4b_A          264 LGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GREVAADYYLGQIYRRGYLGKVYP  338 (452)
T ss_dssp             GCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TTCHHHHHHHHHHHHTTTTSSCCH
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHCCCCCCcCH
Confidence            556666666666666655   3344444444444 34     6677777776655 4 33444444444443    2266


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      ++|++.|
T Consensus       339 ~~A~~~~  345 (452)
T 3e4b_A          339 QKALDHL  345 (452)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=90.12  E-value=0.92  Score=23.57  Aligned_cols=56  Identities=11%  Similarity=-0.038  Sum_probs=42.0

Q ss_pred             hHHHHHHHHHHHHhcCChHHHHHhhcCCC----------CCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGENIDVYKMFEKMP----------VRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~----------~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++.-+-.|=..+.+.|+++.|...|++..          .+....+..|-.+|.+.|+.++|...+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~   69 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLT   69 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            34445556677888899999998887642          123557888899999999999998765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.89  E-value=0.59  Score=29.66  Aligned_cols=81  Identities=5%  Similarity=-0.145  Sum_probs=59.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCC----c-hHHHHHHHHHHHHhcCChHHHHHhhcCCC-------CC-C--hhhHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFV----A-NVYVGSSLISFCGKCGENIDVYKMFEKMP-------VR-N--VVSWTAII   69 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~----~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~-------~~-~--~~t~~~li   69 (86)
                      .+...|++++|..++....+.-..    + ...++..+...|...|++++|...+++..       .| .  ...+..+.
T Consensus       144 ~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g  223 (434)
T 4b4t_Q          144 LHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSG  223 (434)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH
T ss_pred             HHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHH
Confidence            455678999999999988664221    2 24588888999999999999999987642       22 1  24566677


Q ss_pred             HHHhhcCChhHhhhcc
Q 043594           70 AAFAQEWEVDMCYTFI   85 (86)
Q Consensus        70 ~~~~~~g~~~~a~~~f   85 (86)
                      ..+...|++++|...|
T Consensus       224 ~~~~~~~~y~~A~~~~  239 (434)
T 4b4t_Q          224 ILHCEDKDYKTAFSYF  239 (434)
T ss_dssp             HHTTSSSCHHHHHHHH
T ss_pred             HHHHHHHhHHHHHHHH
Confidence            7788889999887654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=89.88  E-value=1.2  Score=23.02  Aligned_cols=48  Identities=4%  Similarity=-0.275  Sum_probs=36.3

Q ss_pred             hhHHHHHHHHHHHHcCCchH-HHHHHHHHHHHhcCChHHHHHhhcCCCC--CC
Q 043594           12 IRGGTQYQCLAVRSGFVANV-YVGSSLISFCGKCGENIDVYKMFEKMPV--RN   61 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~~-~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~   61 (86)
                      .++|.+++.+..+..  |+. .....+=..+.+.|++++|...|+++.+  |+
T Consensus        25 ~~~A~~~l~~AL~~d--p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A           25 TDEVSLLLEQALQLE--PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            688999998888854  544 4455555788899999999999998753  55

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=89.80  E-value=0.32  Score=28.07  Aligned_cols=46  Identities=17%  Similarity=0.041  Sum_probs=25.6

Q ss_pred             chhHHHHHHHHHHHHcCCc---hHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594           11 NIRGGTQYQCLAVRSGFVA---NVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~---~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      ++++|..++....+.. .|   -...|+.-+ +|.+.|++++|++.++...
T Consensus        50 ~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv-~~~kl~~Y~~A~~y~~~lL   98 (152)
T 1pc2_A           50 DIRKGIVLLEELLPKG-SKEEQRDYVFYLAV-GNYRLKEYEKALKYVRGLL   98 (152)
T ss_dssp             HHHHHHHHHHHHHHHS-CHHHHHHHHHHHHH-HHHHTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcC-CccchHHHHHHHHH-HHHHccCHHHHHHHHHHHH
Confidence            5556666666666654 22   222344333 3466677777776666553

>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=88.89  E-value=0.67  Score=30.48  Aligned_cols=58  Identities=3%  Similarity=-0.145  Sum_probs=42.3

Q ss_pred             CchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           28 VANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        28 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..++.++.++-..+...|++++|...+++..  .|+...|..+=..+.-.|+.++|.+.|
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~  333 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAY  333 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            5567777777666777788888888888765  366555655556678888888887765

>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=88.80  E-value=1  Score=29.29  Aligned_cols=51  Identities=6%  Similarity=-0.136  Sum_probs=30.7

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      +...|+..++......+... -..+...+..+|.+|.++|+..+|.+.|++.
T Consensus       181 ~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          181 EIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33456666666555555433 2345566777777777777777777666654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=88.76  E-value=0.76  Score=23.75  Aligned_cols=56  Identities=7%  Similarity=-0.086  Sum_probs=39.7

Q ss_pred             hHHHHHHHHHHHHhcCC---hHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           30 NVYVGSSLISFCGKCGE---NIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        30 ~~~~~~~li~~y~~~g~---~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      |+-.+..+-.++...++   .++|..+|++..  .| ++.++..+=..+.+.|++++|++.|
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w   66 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTW   66 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44455555555543333   699999999765  35 5566666668899999999999876

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=88.45  E-value=1.3  Score=29.00  Aligned_cols=13  Identities=15%  Similarity=0.353  Sum_probs=6.0

Q ss_pred             cCChHHHHHhhcC
Q 043594           44 CGENIDVYKMFEK   56 (86)
Q Consensus        44 ~g~~~~A~~~~~~   56 (86)
                      .|+.++|.+.|++
T Consensus       264 ~~d~~~A~~~~~~  276 (452)
T 3e4b_A          264 LGDVEQMMKYLDN  276 (452)
T ss_dssp             GCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            4444444444443

>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=87.88  E-value=0.31  Score=28.27  Aligned_cols=53  Identities=11%  Similarity=-0.063  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCCC--CC--------h-----hhHHHHHHHHhhcCChhHhhhcc
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMPV--RN--------V-----VSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~~--~~--------~-----~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+...=..+.+.|++++|.+.|++..+  |+        .     ..|+-+=.++.+.|++++|+..|
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~   80 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSA   80 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            334444567889999999999997642  33        2     28999999999999999998765

>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=86.66  E-value=1.5  Score=28.78  Aligned_cols=55  Identities=7%  Similarity=-0.145  Sum_probs=44.7

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCChhhH
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRNVVSW   65 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~t~   65 (86)
                      .|++++|.+.+++....+  |+...|..+=..+.-.|+.++|.+.|++--  .|...||
T Consensus       290 ~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~t~  346 (372)
T 3ly7_A          290 KGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGANTL  346 (372)
T ss_dssp             HTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHHHH
T ss_pred             CCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcChH
Confidence            599999999999999987  787777666677888999999999998653  4555444

>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=86.44  E-value=0.8  Score=29.85  Aligned_cols=52  Identities=15%  Similarity=0.125  Sum_probs=42.4

Q ss_pred             HHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhccC
Q 043594           35 SSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        35 ~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      ..++..+...|+.++|........  .| +...|-.+|.++.+.|+..+|++.|+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~  229 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYR  229 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            346677788999999988777654  34 67789999999999999999998763

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=86.06  E-value=1.5  Score=30.24  Aligned_cols=45  Identities=13%  Similarity=0.197  Sum_probs=36.9

Q ss_pred             HHHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           39 SFCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        39 ~~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      +.+..+|++++|.++.+.+.  +...|..|-..+.+.|+++.|.+.|
T Consensus       660 ~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y  704 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAF  704 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHH
Confidence            44567888888888888765  4678999999999999999998876

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=85.29  E-value=0.99  Score=30.27  Aligned_cols=76  Identities=9%  Similarity=0.125  Sum_probs=49.4

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--CC-hhhHHHHHHHHhhcCChhHhhhcc
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--RN-VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~-~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+.++.|.++++.....+..++..+..+.+.... .++.+.|+.+|+...+  |+ ...|...++-..+.|+.+.|..+|
T Consensus       299 ~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~  377 (493)
T 2uy1_A          299 KRGLELFRKLFIELGNEGVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALF  377 (493)
T ss_dssp             HHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4568889999998821222333444445555433 2369999999986532  32 344677777778889999888776

>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=83.07  E-value=3.3  Score=26.54  Aligned_cols=72  Identities=11%  Similarity=-0.000  Sum_probs=52.0

Q ss_pred             hhHHHHHHHHHHHHcCCch---HHHHHHHHHHHHh-----cCChHHHHHhhcCCC--CC--ChhhHHHHHHHHhhc-CCh
Q 043594           12 IRGGTQYQCLAVRSGFVAN---VYVGSSLISFCGK-----CGENIDVYKMFEKMP--VR--NVVSWTAIIAAFAQE-WEV   78 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g~~~~---~~~~~~li~~y~~-----~g~~~~A~~~~~~m~--~~--~~~t~~~li~~~~~~-g~~   78 (86)
                      ..+++.+.++..+  +.|+   ...|..|-..|.+     .|+.++|++.|++-.  .|  ++.++...-..+++. |+.
T Consensus       179 l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            3344444444444  4455   5688889899999     599999999999764  35  477788888888885 888


Q ss_pred             hHhhhcc
Q 043594           79 DMCYTFI   85 (86)
Q Consensus        79 ~~a~~~f   85 (86)
                      +++.+.+
T Consensus       257 ~~a~~~L  263 (301)
T 3u64_A          257 AGFDEAL  263 (301)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=81.22  E-value=4.1  Score=29.27  Aligned_cols=49  Identities=10%  Similarity=-0.070  Sum_probs=39.6

Q ss_pred             cCCchhHHHHHHHHHHHHcCCch-HHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            8 STRNIRGGTQYQCLAVRSGFVAN-VYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      +.|+++.|.++-.+.+..  .|+ -.+|-.|...|.+.|+++.|.-.++.+|
T Consensus       349 ~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          349 NRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            467888888888776654  354 5599999999999999999999999885

---

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	86
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.18
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.07
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.04
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.89
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.86
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.74
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.64
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.61
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.59
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.53
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.4
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.27
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.19
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.08
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	96.94
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.94
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.79
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	96.7
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	96.46
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.37
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.31
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.28
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	95.92
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	95.85
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.84
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	95.69
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	95.59
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	95.41
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	95.35
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	94.67
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	94.52
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	94.4
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	94.37
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	93.95
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	93.92
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	93.78
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	93.77
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	93.68
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	92.78
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	92.52
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	92.42
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	91.64
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	91.4
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	91.32
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	90.69
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	87.25
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	86.99
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	82.78
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	82.35

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.18  E-value=4.3e-06  Score=47.41  Aligned_cols=80  Identities=6%  Similarity=-0.171  Sum_probs=69.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.|...++.. +.++..|+.+-.+|.+.|++++|...|++..+  | +..+|..+-..|.+.|++++|
T Consensus        13 ~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~~~A   91 (201)
T d2c2la1          13 RLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEA   91 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            4567899999999999998875 45677899999999999999999999998764  5 567899999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      +..|
T Consensus        92 ~~~~   95 (201)
T d2c2la1          92 IANL   95 (201)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8766

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.07  E-value=7e-06  Score=43.75  Aligned_cols=79  Identities=16%  Similarity=-0.024  Sum_probs=69.0

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +-+.|++++|...|...++.. +.++..|..+=.+|.+.|++++|...+++..   ..+...|..+-..|.+.|++++|+
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~A~   91 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEAK   91 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHHHH
Confidence            457899999999999998874 4467789999999999999999999999765   347788999999999999999999


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      ..|
T Consensus        92 ~~~   94 (117)
T d1elwa_          92 RTY   94 (117)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            876

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.04  E-value=8.5e-06  Score=45.30  Aligned_cols=80  Identities=4%  Similarity=-0.152  Sum_probs=69.1

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+-+.|++++|...|...++.. +-+...|..+-..|.+.|++++|...|++..  .| +..+|..+...|...|++++|
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA   97 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAA   97 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHHH
Confidence            3567899999999999999875 4467788888899999999999999999774  34 568999999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus        98 ~~~~  101 (159)
T d1a17a_          98 LRDY  101 (159)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8765

>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=97.89  E-value=1.1e-05  Score=42.70  Aligned_cols=80  Identities=6%  Similarity=-0.087  Sum_probs=68.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +-+.|++++|.+.++..++.. +-++..|..+-..|.+.|++++|...|++..  .| +..+|..+-..|.+.|+.++|.
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~~~A~  104 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAAL  104 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCHHHHH
Confidence            456899999999999998875 2357788999999999999999999999864  34 6789999999999999999999


Q ss_pred             hccC
Q 043594           83 TFIV   86 (86)
Q Consensus        83 ~~f~   86 (86)
                      +.|+
T Consensus       105 ~~l~  108 (112)
T d1hxia_         105 ASLR  108 (112)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8763

>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=97.86  E-value=1.9e-05  Score=47.67  Aligned_cols=79  Identities=8%  Similarity=-0.081  Sum_probs=66.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +-+.|++++|.+++..+.+.. +-++..+..+-..|.+.|++++|...|++..  .| +..+|..+...|.+.|++++|.
T Consensus         9 ~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A~   87 (388)
T d1w3ba_           9 EYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAI   87 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccccc
Confidence            456799999999999998763 2356788888899999999999999999865  35 5678999999999999999998


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus        88 ~~~   90 (388)
T d1w3ba_          88 EHY   90 (388)
T ss_dssp             HHH
T ss_pred             ccc
Confidence            765

>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=97.74  E-value=4.3e-05  Score=45.99  Aligned_cols=79  Identities=8%  Similarity=0.057  Sum_probs=50.8

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +.+.|+.++|.+.+....+.. +.+...+..+...|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|++++|.
T Consensus       281 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~  359 (388)
T d1w3ba_         281 LKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             HHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             HHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            344566666666666655442 3455566666677777777777777777643  24 3456677777777777777777


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       360 ~~~  362 (388)
T d1w3ba_         360 MHY  362 (388)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            655

>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=97.64  E-value=9e-05  Score=43.13  Aligned_cols=80  Identities=10%  Similarity=-0.137  Sum_probs=67.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+.+.|++++|.+.|...++.. +-++.+|+.+=..|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|+.++|
T Consensus        46 ~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A  124 (259)
T d1xnfa_          46 LYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLA  124 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHH
Confidence            3557899999999999998864 3356788889999999999999999999875  34 466788888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+.|
T Consensus       125 ~~~~  128 (259)
T d1xnfa_         125 QDDL  128 (259)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8776

>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=97.61  E-value=8e-05  Score=44.68  Aligned_cols=79  Identities=9%  Similarity=-0.004  Sum_probs=66.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +-+.|++++|...|...++.. +-++..|..+-..|...|++++|...|++..  .| +...|..+...|.+.|++++|.
T Consensus        29 ~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~  107 (323)
T d1fcha_          29 RLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQAC  107 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccccccc
Confidence            457899999999999998753 2246688889999999999999999998764  34 5678889999999999999998


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus       108 ~~~  110 (323)
T d1fcha_         108 EIL  110 (323)
T ss_dssp             HHH
T ss_pred             cch
Confidence            765

>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=97.59  E-value=8e-05  Score=40.05  Aligned_cols=84  Identities=6%  Similarity=-0.122  Sum_probs=63.8

Q ss_pred             hhcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCCh---HHHHHhhcCCCC--CC---hhhHHHHHHHHh
Q 043594            2 PVTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGEN---IDVYKMFEKMPV--RN---VVSWTAIIAAFA   73 (86)
Q Consensus         2 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~---~~A~~~~~~m~~--~~---~~t~~~li~~~~   73 (86)
                      +++.+...+++++|++.|....+.+ +.++.+...+-.++.++++.   ++|..+|++...  |+   ..+|..|=.+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            4566777889999999999999876 34556777777777775554   569999998653  32   236777888999


Q ss_pred             hcCChhHhhhccC
Q 043594           74 QEWEVDMCYTFIV   86 (86)
Q Consensus        74 ~~g~~~~a~~~f~   86 (86)
                      +.|++++|.+.|+
T Consensus        84 ~~g~~~~A~~~~~   96 (122)
T d1nzna_          84 RLKEYEKALKYVR   96 (122)
T ss_dssp             HTTCHHHHHHHHH
T ss_pred             HHhhhHHHHHHHH
Confidence            9999999998763

>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=97.53  E-value=0.00012  Score=43.93  Aligned_cols=80  Identities=4%  Similarity=-0.098  Sum_probs=63.6

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .+...|++++|...+....+.. +-+..+|..+-..|.+.|++++|.+.|++..  .| +..+|..+-..|.+.|+.++|
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A  259 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREA  259 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHH
Confidence            3456788999999998887754 2346678888888999999999999998764  34 567788888999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      ++.|
T Consensus       260 ~~~~  263 (323)
T d1fcha_         260 VEHF  263 (323)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8776

>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=97.40  E-value=0.00014  Score=41.69  Aligned_cols=76  Identities=8%  Similarity=0.014  Sum_probs=63.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCY   82 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~   82 (86)
                      +...|++++|.+.|..+    .+|++.+|..+=..|.+.|++++|.+.|++..+  | +...|+.+=..|.+.|+.++|+
T Consensus        15 ~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHH
Confidence            34678999999988754    467888898899999999999999999997652  4 6778999999999999999998


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.|
T Consensus        91 ~~~   93 (192)
T d1hh8a_          91 KDL   93 (192)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            755

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.27  E-value=0.0001  Score=39.61  Aligned_cols=80  Identities=13%  Similarity=0.039  Sum_probs=63.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-Ch-------hhHHHHHHHHhh
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-NV-------VSWTAIIAAFAQ   74 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~-------~t~~~li~~~~~   74 (86)
                      .+-+.|++++|.+.|.+.++.. +.+..++..+-..|.+.|++++|...+++..+  | +.       .+|..+=..+..
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            3567899999999999999874 34677899999999999999999999998653  2 22       245556667778


Q ss_pred             cCChhHhhhcc
Q 043594           75 EWEVDMCYTFI   85 (86)
Q Consensus        75 ~g~~~~a~~~f   85 (86)
                      .+++++|++.|
T Consensus        92 ~~~~~~A~~~~  102 (128)
T d1elra_          92 EEKYKDAIHFY  102 (128)
T ss_dssp             TTCHHHHHHHH
T ss_pred             hCCHHHHHHHH
Confidence            88888888765

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=0.00043  Score=38.74  Aligned_cols=81  Identities=7%  Similarity=-0.211  Sum_probs=62.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcC-C-------------chHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGF-V-------------ANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTA   67 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~-~-------------~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~   67 (86)
                      .+-+.|++++|...|...++.-- .             .-..+|+.+-..|.+.|++++|...+++..  .| ++.+|.-
T Consensus        22 ~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~  101 (170)
T d1p5qa1          22 VYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSR  101 (170)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHH
Confidence            34567899999999988876521 1             113456667788999999999999998764  35 7788888


Q ss_pred             HHHHHhhcCChhHhhhcc
Q 043594           68 IIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        68 li~~~~~~g~~~~a~~~f   85 (86)
                      +-.+|...|++++|.+.|
T Consensus       102 ~g~~~~~~g~~~~A~~~~  119 (170)
T d1p5qa1         102 RGEAHLAVNDFELARADF  119 (170)
T ss_dssp             HHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHH
Confidence            999999999999999876

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.08  E-value=0.00095  Score=36.62  Aligned_cols=80  Identities=10%  Similarity=-0.110  Sum_probs=63.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCC---------------chHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFV---------------ANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTA   67 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~---------------~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~   67 (86)
                      +-+.|++.+|...|...++.--.               ....+++.+-..|.+.|++++|.+.+++..  .| ++.+|..
T Consensus        27 ~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~  106 (153)
T d2fbna1          27 FFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYK  106 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHH
Confidence            44678999999999887753110               113467778888999999999999999764  34 7789999


Q ss_pred             HHHHHhhcCChhHhhhcc
Q 043594           68 IIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        68 li~~~~~~g~~~~a~~~f   85 (86)
                      +-.+|...|++++|+..|
T Consensus       107 ~g~~~~~lg~~~~A~~~~  124 (153)
T d2fbna1         107 LGVANMYFGFLEEAKENL  124 (153)
T ss_dssp             HHHHHHHHTCHHHHHHHH
T ss_pred             hHHHHHHcCCHHHHHHHH
Confidence            999999999999999876

>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=96.94  E-value=0.00079  Score=40.56  Aligned_cols=75  Identities=4%  Similarity=-0.013  Sum_probs=52.4

Q ss_pred             chhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC--C-C-hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           11 NIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV--R-N-VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        11 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~-~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+++..++.+.++...+.+...|......+-+.|+++.|..+|+++..  | + ...|...+..+.+.|+.++|.++|
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            3566777777776654455566777777777788888888888876532  3 3 336777788888888888777765

>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=96.94  E-value=0.0028  Score=34.99  Aligned_cols=80  Identities=8%  Similarity=-0.116  Sum_probs=61.5

Q ss_pred             hhcCCchhHHHHHHHHHHHH--------------cCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRS--------------GFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTA   67 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~--------------g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~   67 (86)
                      +.+.|++.+|.+.|.+..+.              -+.| +...+..+-..|.+.|++++|...|++..   ..+..+|..
T Consensus        37 ~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~  116 (169)
T d1ihga1          37 FFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYR  116 (169)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHh
Confidence            45678888888888776532              1122 34466667788999999999999999764   236778999


Q ss_pred             HHHHHhhcCChhHhhhcc
Q 043594           68 IIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        68 li~~~~~~g~~~~a~~~f   85 (86)
                      +-.+|.+.|++++|++.|
T Consensus       117 ~g~~~~~l~~~~~A~~~~  134 (169)
T d1ihga1         117 RAQGWQGLKEYDQALADL  134 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHH
Confidence            999999999999998866

>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=96.79  E-value=0.00065  Score=38.59  Aligned_cols=81  Identities=15%  Similarity=0.174  Sum_probs=64.0

Q ss_pred             hhcCCchhHHHHHHHHHHHH--c-CCch------------------HHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-C
Q 043594            6 CGSTRNIRGGTQYQCLAVRS--G-FVAN------------------VYVGSSLISFCGKCGENIDVYKMFEKMP--VR-N   61 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~--g-~~~~------------------~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~   61 (86)
                      ....|++++|.+.+...+..  | +-++                  ...+..+...+.+.|++++|...+++..  .| +
T Consensus        21 ~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~  100 (179)
T d2ff4a2          21 AAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEHPYR  100 (179)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCcc
Confidence            34678888888888887663  2 1111                  1357788899999999999999999875  35 7


Q ss_pred             hhhHHHHHHHHhhcCChhHhhhccC
Q 043594           62 VVSWTAIIAAFAQEWEVDMCYTFIV   86 (86)
Q Consensus        62 ~~t~~~li~~~~~~g~~~~a~~~f~   86 (86)
                      ...|..++.+|.+.|+..+|++.|+
T Consensus       101 e~~~~~l~~al~~~Gr~~eAl~~y~  125 (179)
T d2ff4a2         101 EPLWTQLITAYYLSDRQSDALGAYR  125 (179)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            7899999999999999999998873

>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=96.70  E-value=0.0013  Score=39.52  Aligned_cols=76  Identities=9%  Similarity=0.077  Sum_probs=56.9

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC-----CC--ChhhHHHHHHHHhhcCChhHh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP-----VR--NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~-----~~--~~~t~~~li~~~~~~g~~~~a   81 (86)
                      .|+.+.|.+++..+.+. +..++..|...++...+.|+++.|+.+|++..     .|  ....|...+.---+.|+.+.+
T Consensus       182 ~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~  260 (308)
T d2onda1         182 SKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  260 (308)
T ss_dssp             SCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHH
T ss_pred             ccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            57788888888888876 34456788888888888899999988888642     12  234688888777788888877


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      .+++
T Consensus       261 ~~~~  264 (308)
T d2onda1         261 LKVE  264 (308)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.46  E-value=0.0021  Score=36.51  Aligned_cols=46  Identities=4%  Similarity=-0.085  Sum_probs=42.1

Q ss_pred             HHHhcCChHHHHHhhcCCCCCChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           40 FCGKCGENIDVYKMFEKMPVRNVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        40 ~y~~~g~~~~A~~~~~~m~~~~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+...|++++|.+.|+++.+|+..+|.-+=..|.+.|++++|.+.|
T Consensus        14 ~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~   59 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAF   59 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHH
Confidence            4678899999999999999999999999989999999999999876

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=96.37  E-value=0.0035  Score=34.65  Aligned_cols=80  Identities=10%  Similarity=-0.209  Sum_probs=60.0

Q ss_pred             hhcCCchhHHHHHHHHHHHH-c--CCc-----------hHHHHHHHHHHHHhcCChHHHHHhhcCCC---CCChhhHHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRS-G--FVA-----------NVYVGSSLISFCGKCGENIDVYKMFEKMP---VRNVVSWTAI   68 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~-g--~~~-----------~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~t~~~l   68 (86)
                      +-+.|++.+|...|...... .  ..+           ...+|+.+-.+|.+.|++++|...+++..   ..+..+|..+
T Consensus        25 ~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~  104 (168)
T d1kt1a1          25 YFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRR  104 (168)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHH
Confidence            45678999999999877642 0  100           12345556677889999999999998764   3467888889


Q ss_pred             HHHHhhcCChhHhhhcc
Q 043594           69 IAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        69 i~~~~~~g~~~~a~~~f   85 (86)
                      -.+|...|++++|.+.|
T Consensus       105 ~~~~~~l~~~~~A~~~~  121 (168)
T d1kt1a1         105 GEAQLLMNEFESAKGDF  121 (168)
T ss_dssp             HHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHH
Confidence            99999999999998765

>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=96.31  E-value=0.0048  Score=34.79  Aligned_cols=53  Identities=6%  Similarity=-0.133  Sum_probs=47.2

Q ss_pred             cchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            4 TSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         4 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      ..+.+.|++++|...+..+++.. ..+...|..++..|.+.|+..+|.+.|++.
T Consensus        75 ~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          75 EAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            45667899999999999998865 457889999999999999999999999986

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.28  E-value=0.0065  Score=36.36  Aligned_cols=50  Identities=12%  Similarity=0.065  Sum_probs=42.6

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM   57 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m   57 (86)
                      -+.|++++|.+.+...++.. +-|...+..+...|+..|++++|...|+..
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a   56 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQS   56 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            35699999999999998864 446678999999999999999999988865

>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=95.92  E-value=0.0049  Score=34.12  Aligned_cols=49  Identities=4%  Similarity=-0.154  Sum_probs=41.5

Q ss_pred             HHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           37 LISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        37 li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .=..|.+.|++++|...|++..  .| +...|+-+-..|.+.|++++|+..|
T Consensus        10 ~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~   61 (201)
T d2c2la1          10 QGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADC   61 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHH
Confidence            3367889999999999999764  34 6778998999999999999999876

>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=95.85  E-value=0.0062  Score=36.87  Aligned_cols=51  Identities=8%  Similarity=-0.068  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHhhcCCCC---CChhhHHHHHHHHhhcCChhHhhh
Q 043594           33 VGSSLISFCGKCGENIDVYKMFEKMPV---RNVVSWTAIIAAFAQEWEVDMCYT   83 (86)
Q Consensus        33 ~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~t~~~li~~~~~~g~~~~a~~   83 (86)
                      +|+.+-..+.+.|++++|.+.|+++.+   .+...|+.+-..+.+.|++++|++
T Consensus       114 a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~  167 (315)
T d2h6fa1         114 VWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQ  167 (315)
T ss_dssp             HHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHH
T ss_pred             HHHHHhHHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHH
Confidence            333333344444444444444443321   234444444444444444444443

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=95.84  E-value=0.033  Score=30.07  Aligned_cols=78  Identities=5%  Similarity=-0.089  Sum_probs=59.9

Q ss_pred             cCCchhHHHHHHHHHHHHc-CCc----------hHHHHHHHHHHHHhcCChHHHHHhhcCCC---------CCC-----h
Q 043594            8 STRNIRGGTQYQCLAVRSG-FVA----------NVYVGSSLISFCGKCGENIDVYKMFEKMP---------VRN-----V   62 (86)
Q Consensus         8 ~~~~~~~a~~~~~~m~~~g-~~~----------~~~~~~~li~~y~~~g~~~~A~~~~~~m~---------~~~-----~   62 (86)
                      +.|++++|.+.|.+.+... -.|          ....|+.+-.+|.+.|++++|.+-+++..         .++     .
T Consensus        21 ~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  100 (156)
T d2hr2a1          21 VAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWI  100 (156)
T ss_dssp             HHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhH
Confidence            4588999999999997742 112          24678889999999999999998888642         111     2


Q ss_pred             hhHHHHHHHHhhcCChhHhhhcc
Q 043594           63 VSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        63 ~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+|+.+=..|.+.|+.++|++.|
T Consensus       101 ~a~~~~g~~~~~lg~~eeA~~~~  123 (156)
T d2hr2a1         101 SAVYSRALALDGLGRGAEAMPEF  123 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHH
Confidence            25667778999999999999876

>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=95.69  E-value=0.011  Score=35.72  Aligned_cols=79  Identities=10%  Similarity=-0.046  Sum_probs=63.9

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCC-hHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGE-NIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMC   81 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~-~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a   81 (86)
                      +.+.+..++|.+++..+++.. +-+...|+..-..+.+.|+ +++|.+.+++..  .| +..+|+.+-..+.+.|+.++|
T Consensus        53 ~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eA  131 (315)
T d2h6fa1          53 LQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQE  131 (315)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTH
T ss_pred             HHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHH
Confidence            346788899999999999964 2345577888788888764 899999999764  34 678999999999999999999


Q ss_pred             hhcc
Q 043594           82 YTFI   85 (86)
Q Consensus        82 ~~~f   85 (86)
                      ++.|
T Consensus       132 l~~~  135 (315)
T d2h6fa1         132 LEFI  135 (315)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9876

>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=95.59  E-value=0.004  Score=33.91  Aligned_cols=46  Identities=9%  Similarity=-0.044  Sum_probs=40.2

Q ss_pred             HHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           40 FCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        40 ~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .|.+.|++++|...|++..  .| +...|..+-..|.+.|++++|.+.|
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~   67 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDA   67 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHH
Confidence            5789999999999999775  24 6788999999999999999999876

>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=95.41  E-value=0.0043  Score=32.81  Aligned_cols=47  Identities=15%  Similarity=0.103  Sum_probs=40.4

Q ss_pred             HHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           39 SFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        39 ~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..|.+.|++++|...|++..  .| +..+|..+-..|.+.|++++|++.|
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~   61 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELC   61 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHH
Confidence            46889999999999999764  24 6788999999999999999998765

>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=95.35  E-value=0.01  Score=33.91  Aligned_cols=74  Identities=8%  Similarity=-0.116  Sum_probs=54.0

Q ss_pred             hhHHHHHHHHHHHHc-CCc--hHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           12 IRGGTQYQCLAVRSG-FVA--NVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        12 ~~~a~~~~~~m~~~g-~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .+.+..-+.+..... ..+  ...++-.+=..|.+.|++++|.+.|++..  .| +..+|+.+=..|.+.|++++|++.|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            344444555555432 222  22355556678899999999999999764  34 6788999999999999999999876

>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=94.67  E-value=0.02  Score=29.35  Aligned_cols=51  Identities=6%  Similarity=-0.155  Sum_probs=43.7

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEK   56 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~   56 (86)
                      ++.+.|++++|...+....+.. +.+...+..+-..|...|+.++|.+.|++
T Consensus        59 ~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          59 TQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRA  109 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHHHHHHHH
Confidence            4567899999999999998865 33577889999999999999999999875

>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=94.52  E-value=0.042  Score=28.26  Aligned_cols=53  Identities=8%  Similarity=-0.105  Sum_probs=46.2

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      ++.+.|++++|.+.+....+.. +.++..|..+-.+|...|++++|...|++..
T Consensus        46 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a~   98 (117)
T d1elwa_          46 AYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEAKRTYEEGL   98 (117)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            4556799999999999999875 4577789999999999999999999999765

>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=94.40  E-value=0.038  Score=32.04  Aligned_cols=78  Identities=10%  Similarity=-0.037  Sum_probs=58.6

Q ss_pred             hhcCCchhHHHHHHHHHHHHcCCch------HHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC----hhhHHHHHH
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGFVAN------VYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN----VVSWTAIIA   70 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~~~~------~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~t~~~li~   70 (86)
                      +...|++++|.+++....+..  |+      ...++.+-..|...|++++|...|++..+     ++    ..++..+..
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            456899999999999987743  22      23566677889999999999999987632     22    345666778


Q ss_pred             HHhhcCChhHhhhcc
Q 043594           71 AFAQEWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~~g~~~~a~~~f   85 (86)
                      .+...|++..+.+.+
T Consensus       100 ~~~~~~~~~~a~~~~  114 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQ  114 (366)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            888999998887654

>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=94.37  E-value=0.019  Score=33.99  Aligned_cols=81  Identities=9%  Similarity=-0.107  Sum_probs=46.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHc-----CCchHHHHHHHHHHHHh-cCChHHHHHhhcCCCC-------C--ChhhHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG-----FVANVYVGSSLISFCGK-CGENIDVYKMFEKMPV-------R--NVVSWTAII   69 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g-----~~~~~~~~~~li~~y~~-~g~~~~A~~~~~~m~~-------~--~~~t~~~li   69 (86)
                      .+.+.|++++|.+.+....+.-     ......++..+-..|-. .|++++|.+.|++..+       |  -..+|.-+.
T Consensus        86 ~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la  165 (290)
T d1qqea_          86 CFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCA  165 (290)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHH
Confidence            3445677777777776654431     11113344444445533 4777777777765421       1  123466677


Q ss_pred             HHHhhcCChhHhhhcc
Q 043594           70 AAFAQEWEVDMCYTFI   85 (86)
Q Consensus        70 ~~~~~~g~~~~a~~~f   85 (86)
                      ..|.+.|++++|++.|
T Consensus       166 ~~~~~~g~y~~A~~~~  181 (290)
T d1qqea_         166 DLKALDGQYIEASDIY  181 (290)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHHcChHHHHHHHH
Confidence            7778888888877765

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.95  E-value=0.12  Score=25.50  Aligned_cols=63  Identities=11%  Similarity=-0.097  Sum_probs=46.9

Q ss_pred             chhcCCchhHHHHHHHHHHHHc-----CC-chHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC-hhhHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSG-----FV-ANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN-VVSWTA   67 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g-----~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~-~~t~~~   67 (86)
                      .+-+.|++++|.+.+.+..+..     -. ....+++.|-.+|.+.|++++|.+.+++..  .|+ ..+++.
T Consensus        14 ~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~N   85 (95)
T d1tjca_          14 VAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (95)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHH
Confidence            3457899999999999887642     11 125578889999999999999999999875  353 344443

>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=93.92  E-value=0.22  Score=29.48  Aligned_cols=75  Identities=8%  Similarity=-0.115  Sum_probs=51.1

Q ss_pred             CchhHHHHHHHHHHHHcCCchHHHHH-HHHHHHHhcCChHHHHHhhcCCCC--C-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           10 RNIRGGTQYQCLAVRSGFVANVYVGS-SLISFCGKCGENIDVYKMFEKMPV--R-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        10 ~~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~y~~~g~~~~A~~~~~~m~~--~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ++.+++...+.......-. +...+. ..-..+-..|..++|...+++..+  | |..+|+-+-..+.+.|+.++|...+
T Consensus       123 ~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~  201 (334)
T d1dcea1         123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (334)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             ccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            4567777777777776432 333333 334566677888888888887764  3 5677887778888888888776554

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.78  E-value=0.12  Score=28.12  Aligned_cols=53  Identities=9%  Similarity=-0.192  Sum_probs=46.0

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      ++.+.|++++|.+.+...++.. +.++..+.-+-.+|...|++++|...|++..
T Consensus        71 ~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al  123 (170)
T d1p5qa1          71 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVL  123 (170)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4668899999999999999875 3367788888899999999999999999875

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.77  E-value=0.03  Score=33.04  Aligned_cols=81  Identities=5%  Similarity=-0.114  Sum_probs=58.3

Q ss_pred             chhcCCchhHHHHHHHHHHHH----cCCc-hHHHHHHHHHHHHhcCChHHHHHhhcCCCC-----CC----hhhHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRS----GFVA-NVYVGSSLISFCGKCGENIDVYKMFEKMPV-----RN----VVSWTAIIA   70 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~t~~~li~   70 (86)
                      .|...+++++|.+.|......    +-.+ -..+|+.+-.+|.+.|++++|.+.+++..+     .+    ..++..+..
T Consensus        46 ~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~  125 (290)
T d1qqea_          46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (290)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHH
Confidence            456778899999999888664    2222 235788888999999999999999886431     11    344556666


Q ss_pred             HHhh-cCChhHhhhcc
Q 043594           71 AFAQ-EWEVDMCYTFI   85 (86)
Q Consensus        71 ~~~~-~g~~~~a~~~f   85 (86)
                      .|-. .|++++|++.|
T Consensus       126 ~~~~~~~~~~~A~~~~  141 (290)
T d1qqea_         126 ILENDLHDYAKAIDCY  141 (290)
T ss_dssp             HHHHTTCCHHHHHHHH
T ss_pred             hHhhHHHHHHHHHHHH
Confidence            6644 69999998876

>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=93.68  E-value=0.025  Score=32.84  Aligned_cols=80  Identities=8%  Similarity=-0.091  Sum_probs=56.3

Q ss_pred             hhcCCchhHHHHHHHHHHHHcC---CchHHHHHHHHHHHHhcCChHHHHHhhcCCC--------CC-ChhhHHHHHHHHh
Q 043594            6 CGSTRNIRGGTQYQCLAVRSGF---VANVYVGSSLISFCGKCGENIDVYKMFEKMP--------VR-NVVSWTAIIAAFA   73 (86)
Q Consensus         6 ~~~~~~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--------~~-~~~t~~~li~~~~   73 (86)
                      +...|+.++|.+.+....+..-   ......+..+-..|...|++++|...+++..        .| ...+|..+-..|.
T Consensus       223 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~  302 (366)
T d1hz4a_         223 WQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYW  302 (366)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHH
Confidence            3456778888877776644321   2234456667788899999999999888653        12 2456777778899


Q ss_pred             hcCChhHhhhcc
Q 043594           74 QEWEVDMCYTFI   85 (86)
Q Consensus        74 ~~g~~~~a~~~f   85 (86)
                      +.|+.++|.+.|
T Consensus       303 ~~g~~~~A~~~l  314 (366)
T d1hz4a_         303 QAGRKSDAQRVL  314 (366)
T ss_dssp             HHTCHHHHHHHH
T ss_pred             HCCCHHHHHHHH
Confidence            999999998765

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=92.78  E-value=0.021  Score=34.05  Aligned_cols=45  Identities=4%  Similarity=0.016  Sum_probs=38.6

Q ss_pred             HHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHHhhcCChhHhhhcc
Q 043594           41 CGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        41 y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+.|++++|...+++-.  +| |...+..+...|++.|++++|.+.|
T Consensus         6 aL~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l   53 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQL   53 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            346799999999999764  35 7789999999999999999998765

>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=92.52  E-value=0.048  Score=28.59  Aligned_cols=54  Identities=13%  Similarity=-0.097  Sum_probs=40.4

Q ss_pred             CchhHHHHHHHHHHHHcCCchH-HHHHHHHHHHHhcCChHHHHHhhcCCC--CCChh
Q 043594           10 RNIRGGTQYQCLAVRSGFVANV-YVGSSLISFCGKCGENIDVYKMFEKMP--VRNVV   63 (86)
Q Consensus        10 ~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~~~   63 (86)
                      +++.+|..++..+.+..-.|+. .++..+=.+|.+.|++++|.+.|++..  .|+-.
T Consensus        50 ~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~~~P~~~  106 (122)
T d1nzna_          50 DDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNN  106 (122)
T ss_dssp             HHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhCcCCH
Confidence            4566788899888776543442 366677788999999999999999875  46543

>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=92.42  E-value=0.27  Score=26.21  Aligned_cols=61  Identities=10%  Similarity=-0.092  Sum_probs=49.3

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CCC-hhhHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VRN-VVSWT   66 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~~-~~t~~   66 (86)
                      ++.+.|++++|.+.+...++.. +.++..|-.+-.+|...|++++|...|++..  .|+ ..+++
T Consensus        76 ~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~  139 (153)
T d2fbna1          76 CYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRN  139 (153)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            4567899999999999998874 4467899999999999999999999999765  354 33443

>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=91.64  E-value=0.076  Score=26.30  Aligned_cols=47  Identities=11%  Similarity=-0.002  Sum_probs=37.0

Q ss_pred             HHHHhcCChHHHHHhhcCCC---------CCC-hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           39 SFCGKCGENIDVYKMFEKMP---------VRN-VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        39 ~~y~~~g~~~~A~~~~~~m~---------~~~-~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      ..+.+.|++++|...|++-.         .++ ..+++-|=..|.+.|+.++|++.|
T Consensus        13 ~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y   69 (95)
T d1tjca_          13 KVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLT   69 (95)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHH
Confidence            45678899999998888642         122 356888999999999999999875

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=91.40  E-value=0.18  Score=27.49  Aligned_cols=56  Identities=4%  Similarity=-0.078  Sum_probs=39.0

Q ss_pred             hcchhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCCC
Q 043594            3 VTSCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMPV   59 (86)
Q Consensus         3 l~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~   59 (86)
                      |+...+.|.-++..+++..+.+ +-+|++...-.+-.+|.+-|..++|.+++.+.++
T Consensus        93 Ld~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          93 LDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            3445566777777788887777 3467777777778888888888888877766543

>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=91.32  E-value=0.41  Score=25.76  Aligned_cols=53  Identities=15%  Similarity=-0.177  Sum_probs=45.5

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP   58 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~   58 (86)
                      ++.+.|++++|...+....+.. +.+...+-.+-.+|...|++++|...|++..
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al  125 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVL  125 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4567899999999999998864 4567788888899999999999999999875

>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=90.69  E-value=0.26  Score=26.51  Aligned_cols=67  Identities=7%  Similarity=-0.113  Sum_probs=50.8

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCCC--CC-ChhhHHHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKMP--VR-NVVSWTAIIAAF   72 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~--~~-~~~t~~~li~~~   72 (86)
                      ++.+.|++++|...+...++.. +.++..|..+=.+|.+.|++++|.+.|+...  .| |...+..|-...
T Consensus        86 ~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~  155 (169)
T d1ihga1          86 CKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  155 (169)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3556899999999999998754 3456688888899999999999999999764  24 444555554443

>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=87.25  E-value=0.12  Score=27.61  Aligned_cols=71  Identities=8%  Similarity=-0.202  Sum_probs=47.4

Q ss_pred             chhcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHh----------cCChHHHHHhhcCCC--CC-ChhhHHHHHHH
Q 043594            5 SCGSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGK----------CGENIDVYKMFEKMP--VR-NVVSWTAIIAA   71 (86)
Q Consensus         5 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~----------~g~~~~A~~~~~~m~--~~-~~~t~~~li~~   71 (86)
                      .|-+.+.+++|.+.++...+.. +.++.++..+=..|..          .+.+++|...|++..  .| +..+|+.+=..
T Consensus         6 ~~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~   84 (145)
T d1zu2a1           6 EFDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNA   84 (145)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHH
Confidence            3456677999999999998875 3344455555555553          345577888888764  34 56788777677


Q ss_pred             HhhcC
Q 043594           72 FAQEW   76 (86)
Q Consensus        72 ~~~~g   76 (86)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            76544

>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=86.99  E-value=0.31  Score=25.93  Aligned_cols=53  Identities=11%  Similarity=-0.064  Sum_probs=39.0

Q ss_pred             HHHHH--HHHHHhcCChHHHHHhhcCCCC-----CC----------hhhHHHHHHHHhhcCChhHhhhcc
Q 043594           33 VGSSL--ISFCGKCGENIDVYKMFEKMPV-----RN----------VVSWTAIIAAFAQEWEVDMCYTFI   85 (86)
Q Consensus        33 ~~~~l--i~~y~~~g~~~~A~~~~~~m~~-----~~----------~~t~~~li~~~~~~g~~~~a~~~f   85 (86)
                      .|..+  -..+.+.|++++|...|++-.+     |+          ..+|+.+-.+|.+.|++++|.+-+
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~   78 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSA   78 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhh
Confidence            44444  4456778999999998886531     22          357888889999999999998643

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.78  E-value=2.4  Score=26.61  Aligned_cols=69  Identities=10%  Similarity=0.028  Sum_probs=40.8

Q ss_pred             hcCCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcCChHHHHHhhcCC---CCCChhhHHHHHHHHhhcC
Q 043594            7 GSTRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCGENIDVYKMFEKM---PVRNVVSWTAIIAAFAQEW   76 (86)
Q Consensus         7 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m---~~~~~~t~~~li~~~~~~g   76 (86)
                      ...+++++|.+.+....+.. +-+...|+-|=..|...|+..+|...|.+-   ..|...+++.|...|-+..
T Consensus       163 ~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         163 RYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            34566667766666666543 223456666666677777777777666632   2355556666665555443

>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=82.35  E-value=1.9  Score=25.15  Aligned_cols=76  Identities=8%  Similarity=-0.012  Sum_probs=52.6

Q ss_pred             CCchhHHHHHHHHHHHHcCCchHHHHHHHHHHHHhcC--ChHHHHHhhcCCC---CCChhhHHHHH-HHHhhcCChhHhh
Q 043594            9 TRNIRGGTQYQCLAVRSGFVANVYVGSSLISFCGKCG--ENIDVYKMFEKMP---VRNVVSWTAII-AAFAQEWEVDMCY   82 (86)
Q Consensus         9 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~y~~~g--~~~~A~~~~~~m~---~~~~~t~~~li-~~~~~~g~~~~a~   82 (86)
                      .|.++++...+....+.. +-+...|..+-..+...+  +.++|...+++..   .++...|...+ ..+...|..++|+
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHH
Confidence            345678888888887754 334556666666666654  5789999988764   34667776655 5677789999988


Q ss_pred             hcc
Q 043594           83 TFI   85 (86)
Q Consensus        83 ~~f   85 (86)
                      +.+
T Consensus       165 ~~~  167 (334)
T d1dcea1         165 AFT  167 (334)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765