Citrus Sinensis ID: 045917

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160--
Protein Sequence
MISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE
Secondary Structure (PSIPRED)
ccHHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccHHHHHHcccccccccccHHHHHHHHHccccccHHHHHHHHHHHccccccccccHHHHHHHcccccHHHHHHHHHHHHHHcccccccccHHHHHHHHccccHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHcHcHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MISRQIETLIQLSKTahhhhqlpalflktsldhntyIISRFILtslpislhFTRSlfnnvmpplfAYNTLIRAYAKTSCSIESIKLFDEMLktglrpdnltypfvvkasdqclligvggSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE
Flexible Loop (DISEMBL)
MISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE
Low Complexity Region (SEG)
MISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE
Disordered region (IsUnstruct)
***********************ALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALF*****
Disordered Region (DISOPRED)
*ISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE
Disordered Region (DISEMBL)
MISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE
Disordered Region (DISPRO)
MISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE
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	162	2.2.26 [Sep-21-2011]
Q9LUJ2	842	Pentatricopeptide repeat-	yes	no	0.833	0.160	0.361	1e-19
Q9MA95	565	Putative pentatricopeptid	no	no	0.882	0.253	0.310	6e-19
Q9ZQA1	501	Pentatricopeptide repeat-	no	no	0.975	0.315	0.321	5e-18
A8MQA3	595	Pentatricopeptide repeat-	no	no	0.753	0.205	0.377	1e-17
Q9C6T2	606	Pentatricopeptide repeat-	no	no	0.765	0.204	0.304	2e-17
P0C8Q7	534	Pentatricopeptide repeat-	no	no	0.611	0.185	0.4	6e-17
Q9CA54	643	Pentatricopeptide repeat-	no	no	0.864	0.217	0.331	6e-17
Q9FHR3	550	Putative pentatricopeptid	no	no	0.969	0.285	0.329	2e-16
Q9FG16	622	Pentatricopeptide repeat-	no	no	0.845	0.220	0.308	6e-16
O64705	621	Pentatricopeptide repeat-	no	no	0.623	0.162	0.421	7e-16

>sp|Q9LUJ2|PP249_ARATH Pentatricopeptide repeat-containing protein At3g22690 OS=Arabidopsis thaliana GN=PCMP-H56 PE=2 SV=1

 Score = 95.9 bits (237), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 51/141 (36%), Positives = 77/141 (54%), Gaps = 6/141 (4%)

Query: 28  KTSLDHNTYIISRFILTSLPI----SLHFTRSLFNNVMP--PLFAYNTLIRAYAKTSCSI 81
           K  LD++   I++ +  S  +    SL F + +F N       F YN+LIR YA +    
Sbjct: 57  KQGLDNDVSTITKLVARSCELGTRESLSFAKEVFENSESYGTCFMYNSLIRGYASSGLCN 116

Query: 82  ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL 141
           E+I LF  M+ +G+ PD  T+PF + A  +    G G  +H LI K+G   D ++ N+L+
Sbjct: 117 EAILLFLRMMNSGISPDKYTFPFGLSACAKSRAKGNGIQIHGLIVKMGYAKDLFVQNSLV 176

Query: 142 RMYAACKEIDFAKALFDEMPE 162
             YA C E+D A+ +FDEM E
Sbjct: 177 HFYAECGELDSARKVFDEMSE 197

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MA95|PP214_ARATH Putative pentatricopeptide repeat-containing protein At3g05240 OS=Arabidopsis thaliana GN=PCMP-E82 PE=3 SV=2

 Score = 93.2 bits (230), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 46/148 (31%), Positives = 84/148 (56%), Gaps = 5/148 (3%)

Query: 20  HQLPALFLKTSLDHNTYIISRFI--LTSLP--ISLHFTRSLFNNV-MPPLFAYNTLIRAY 74
           +QL  L +K+S+  N   +SR I   T+ P  ++L + RS+F ++  P ++ +N++IR Y
Sbjct: 23  NQLHGLMIKSSVIRNVIPLSRLIDFCTTCPETMNLSYARSVFESIDCPSVYIWNSMIRGY 82

Query: 75  AKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK 134
           + +    +++  + EML+ G  PD  T+P+V+KA      I  G  VH  + K G   + 
Sbjct: 83  SNSPNPDKALIFYQEMLRKGYSPDYFTFPYVLKACSGLRDIQFGSCVHGFVVKTGFEVNM 142

Query: 135 YIGNTLLRMYAACKEIDFAKALFDEMPE 162
           Y+   LL MY  C E+++   +F+++P+
Sbjct: 143 YVSTCLLHMYMCCGEVNYGLRVFEDIPQ 170

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQA1|PP188_ARATH Pentatricopeptide repeat-containing protein At2g36730 OS=Arabidopsis thaliana GN=PCMP-E44 PE=3 SV=1

 Score = 90.1 bits (222), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 90/168 (53%), Gaps = 10/168 (5%)

Query: 3   SRQIETLI--QLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTS---LPISLHFTRSLF 57
           SR+ + LI  +L  +  H  Q+      +SL ++++IIS  +  S   L   L F R+L 
Sbjct: 11  SRKHQCLIFLKLCSSIKHLLQIHGQIHLSSLQNDSFIISELVRVSSLSLAKDLAFARTLL 70

Query: 58  ---NNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLL 114
              ++  P    +N L R Y+ +   +ESI ++ EM + G++P+ LT+PF++KA    L 
Sbjct: 71  LHSSDSTPS--TWNMLSRGYSSSDSPVESIWVYSEMKRRGIKPNKLTFPFLLKACASFLG 128

Query: 115 IGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           +  G  +   + K G   D Y+GN L+ +Y  CK+   A+ +FDEM E
Sbjct: 129 LTAGRQIQVEVLKHGFDFDVYVGNNLIHLYGTCKKTSDARKVFDEMTE 176

Arabidopsis thaliana (taxid: 3702)

>sp|A8MQA3|PP330_ARATH Pentatricopeptide repeat-containing protein At4g21065 OS=Arabidopsis thaliana GN=PCMP-H28 PE=2 SV=2

 Score = 89.4 bits (220), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 48/127 (37%), Positives = 75/127 (59%), Gaps = 5/127 (3%)

Query: 41  FILTSLPIS--LHFTRSLFNNVMPPL--FAYNTLIRAYAKTSCSIESIKLFDEMLKTGL- 95
           F L SLP    + +   +F+ +  P+  F +NTLIR YA+   SI +  L+ EM  +GL 
Sbjct: 58  FYLVSLPSPPPMSYAHKVFSKIEKPINVFIWNTLIRGYAEIGNSISAFSLYREMRVSGLV 117

Query: 96  RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA 155
            PD  TYPF++KA      + +G ++HS++ + G  S  Y+ N+LL +YA C ++  A  
Sbjct: 118 EPDTHTYPFLIKAVTTMADVRLGETIHSVVIRSGFGSLIYVQNSLLHLYANCGDVASAYK 177

Query: 156 LFDEMPE 162
           +FD+MPE
Sbjct: 178 VFDKMPE 184

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C6T2|PPR68_ARATH Pentatricopeptide repeat-containing protein At1g31920 OS=Arabidopsis thaliana GN=PCMP-H11 PE=2 SV=1

 Score = 88.2 bits (217), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/125 (30%), Positives = 74/125 (59%), Gaps = 1/125 (0%)

Query: 37  IISRFILTSLPISLHFTRSLFNNVMPPL-FAYNTLIRAYAKTSCSIESIKLFDEMLKTGL 95
           ++++   +    S+++  S+F  +  P  F +NT+IR Y       E++  ++EM++ G 
Sbjct: 69  VLAKCAHSGWENSMNYAASIFRGIDDPCTFDFNTMIRGYVNVMSFEEALCFYNEMMQRGN 128

Query: 96  RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA 155
            PDN TYP ++KA  +   I  G  +H  +FK+GL +D ++ N+L+ MY  C E++ + A
Sbjct: 129 EPDNFTYPCLLKACTRLKSIREGKQIHGQVFKLGLEADVFVQNSLINMYGRCGEMELSSA 188

Query: 156 LFDEM 160
           +F+++
Sbjct: 189 VFEKL 193

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8Q7|PP369_ARATH Pentatricopeptide repeat-containing protein At5g08305 OS=Arabidopsis thaliana GN=PCMP-E105 PE=2 SV=1

 Score = 86.7 bits (213), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 40/100 (40%), Positives = 66/100 (66%)

Query: 62  PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSV 121
           PP + +N +IR ++ +    +SI ++ +ML+ GL PD++TYPF++K+S +     +GGS+
Sbjct: 71  PPNYGWNFVIRGFSNSRNPEKSISVYIQMLRFGLLPDHMTYPFLMKSSSRLSNRKLGGSL 130

Query: 122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP 161
           H  + K GL  D +I NTL+ MY + ++   A+ LFDEMP
Sbjct: 131 HCSVVKSGLEWDLFICNTLIHMYGSFRDQASARKLFDEMP 170

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA54|PP122_ARATH Pentatricopeptide repeat-containing protein At1g74630 OS=Arabidopsis thaliana GN=PCMP-H71 PE=2 SV=1

 Score = 86.7 bits (213), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 48/145 (33%), Positives = 81/145 (55%), Gaps = 5/145 (3%)

Query: 21  QLPALFLKTSLDHNTYIISRFIL---TSLPISLHFTRSLFNNV-MPPLFAYNTLIRAYAK 76
           Q+  LF+K  +D ++Y   + IL    S+  +L + R L      P  F +NTL+R Y++
Sbjct: 23  QIHGLFIKYGVDTDSYFTGKLILHCAISISDALPYARRLLLCFPEPDAFMFNTLVRGYSE 82

Query: 77  TSCSIESIKLFDEMLKTG-LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKY 135
           +     S+ +F EM++ G + PD+ ++ FV+KA +    +  G  +H    K GL S  +
Sbjct: 83  SDEPHNSVAVFVEMMRKGFVFPDSFSFAFVIKAVENFRSLRTGFQMHCQALKHGLESHLF 142

Query: 136 IGNTLLRMYAACKEIDFAKALFDEM 160
           +G TL+ MY  C  ++FA+ +FDEM
Sbjct: 143 VGTTLIGMYGGCGCVEFARKVFDEM 167

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 = 84.7 bits (208), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 53/161 (32%), Positives = 86/161 (53%), Gaps = 4/161 (2%)

Query: 6   IETLIQLSKTAHHHHQLPALFLKTSL--DHNTYIISRFILTSLPISLHFTRSLFNNVMPP 63
           +ETL +L K+  H +Q+ A  ++  L  D N   I     +S   SL ++ S+F  V  P
Sbjct: 13  LETLFKLCKSEIHLNQIHARIIRKGLEQDQNLISIFISSSSSSSSSLSYSSSVFERVPSP 72

Query: 64  -LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGL-RPDNLTYPFVVKASDQCLLIGVGGSV 121
             + +N LI+ Y+      E++ +   M++TGL RPD  T+P V+K       + VG SV
Sbjct: 73  GTYLWNHLIKGYSNKFLFFETVSILMRMMRTGLARPDEYTFPLVMKVCSNNGQVRVGSSV 132

Query: 122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           H L+ ++G   D  +G + +  Y  CK++  A+ +F EMPE
Sbjct: 133 HGLVLRIGFDKDVVVGTSFVDFYGKCKDLFSARKVFGEMPE 173

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG16|PP367_ARATH Pentatricopeptide repeat-containing protein At5g06540 OS=Arabidopsis thaliana GN=PCMP-H88 PE=2 SV=1

 Score = 83.2 bits (204), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 45/146 (30%), Positives = 78/146 (53%), Gaps = 9/146 (6%)

Query: 24  ALFLKTSLDHNTYIISRFILTSLPIS--------LHFTRSLFNNVMPP-LFAYNTLIRAY 74
              L+T L  + ++ SR +   +  S        L +   +F+ +  P LF +N LIR +
Sbjct: 33  GFLLRTHLISDVFVASRLLALCVDDSTFNKPTNLLGYAYGIFSQIQNPNLFVFNLLIRCF 92

Query: 75  AKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK 134
           +  +   ++   + +MLK+ + PDN+T+PF++KAS +   + VG   HS I + G  +D 
Sbjct: 93  STGAEPSKAFGFYTQMLKSRIWPDNITFPFLIKASSEMECVLVGEQTHSQIVRFGFQNDV 152

Query: 135 YIGNTLLRMYAACKEIDFAKALFDEM 160
           Y+ N+L+ MYA C  I  A  +F +M
Sbjct: 153 YVENSLVHMYANCGFIAAAGRIFGQM 178

Arabidopsis thaliana (taxid: 3702)

>sp|O64705|PP184_ARATH Pentatricopeptide repeat-containing protein At2g34400 OS=Arabidopsis thaliana GN=PCMP-E23 PE=3 SV=2

 Score = 83.2 bits (204), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 43/102 (42%), Positives = 63/102 (61%), Gaps = 1/102 (0%)

Query: 62  PPLFAYNTLIRAYAKTSCSIES-IKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGS 120
           P  +++N +IR    T    E+ + L+  M  +GL+PD  TY FV  A  +   IGVG S
Sbjct: 94  PNHYSFNYMIRGLTNTWNDHEAALSLYRRMKFSGLKPDKFTYNFVFIACAKLEEIGVGRS 153

Query: 121 VHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           VHS +FKVGL  D +I ++L+ MYA C ++ +A+ LFDE+ E
Sbjct: 154 VHSSLFKVGLERDVHINHSLIMMYAKCGQVGYARKLFDEITE 195

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	162
225435652	461	PREDICTED: pentatricopeptide repeat-cont	0.981	0.344	0.503	7e-42
356528208	444	PREDICTED: pentatricopeptide repeat-cont	0.975	0.355	0.487	4e-32
224141397	505	predicted protein [Populus trichocarpa]	0.888	0.285	0.394	3e-20
356574121	548	PREDICTED: pentatricopeptide repeat-cont	0.993	0.293	0.351	2e-19
357487485	498	Pentatricopeptide repeat-containing prot	0.864	0.281	0.387	2e-19
449445234	542	PREDICTED: pentatricopeptide repeat-cont	0.962	0.287	0.386	6e-19
449507733	442	PREDICTED: pentatricopeptide repeat-cont	0.962	0.352	0.386	7e-19
225468727	558	PREDICTED: pentatricopeptide repeat-cont	0.876	0.254	0.406	2e-18
356529748	604	PREDICTED: pentatricopeptide repeat-cont	0.938	0.251	0.345	2e-18
255549842	546	pentatricopeptide repeat-containing prot	0.635	0.188	0.462	4e-18

>gi|225435652|ref|XP_002283361.1| PREDICTED: pentatricopeptide repeat-containing protein At2g36730 [Vitis vinifera]

 Score =  175 bits (443), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 81/161 (50%), Positives = 116/161 (72%), Gaps = 2/161 (1%)

Query: 2   ISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNN-- 59
           +SRQI+ L+Q SKT  H  QL +L LKT+ DHN  +IS+FI +   +S+ F R +F+   
Sbjct: 1   MSRQIQILLQRSKTTTHLLQLHSLILKTAKDHNPDLISQFIFSISSVSIEFARLVFDRLP 60

Query: 60  VMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGG 119
           +  P+FA+N++IRAY K+S  IE++KLF +M + GL+PDN TYPFVVKA  + L++G GG
Sbjct: 61  IRAPIFAWNSIIRAYTKSSVPIEAVKLFSQMQRVGLKPDNFTYPFVVKACGRSLVVGAGG 120

Query: 120 SVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM 160
           ++HS+I K G  SD+Y+GNTLLRMYA    +  A+ +F+EM
Sbjct: 121 AMHSIIVKAGFDSDRYVGNTLLRMYANLNAVGLARRVFNEM 161

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528208|ref|XP_003532697.1| PREDICTED: pentatricopeptide repeat-containing protein At4g21065-like [Glycine max]

 Score =  142 bits (359), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 78/160 (48%), Positives = 104/160 (65%), Gaps = 2/160 (1%)

Query: 5   QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNV--MP 62
            I TLI  SKT     QL ALFLKTSLDH+ + IS+F+L S  ISL F  S F+++  +P
Sbjct: 2   SICTLIHRSKTLTQLLQLHALFLKTSLDHHPFFISQFLLQSSTISLPFAASFFHSLPTLP 61

Query: 63  PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH 122
           PLFA+NTLIRA+A T     S+ LF  +  + L PDN TYPFV+KA  +   + +GG++H
Sbjct: 62  PLFAWNTLIRAFAATPTPFHSLTLFRLLQTSPLNPDNFTYPFVLKACARSSSLPLGGTLH 121

Query: 123 SLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           SL  K G  S +++GN LL MYA C  +  A+ +FDEM +
Sbjct: 122 SLTLKTGFRSHRHVGNALLNMYAECYAVMSARMVFDEMTD 161

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224141397|ref|XP_002324059.1| predicted protein [Populus trichocarpa] gi|222867061|gb|EEF04192.1| predicted protein [Populus trichocarpa]

 Score =  103 bits (256), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 58/147 (39%), Positives = 81/147 (55%), Gaps = 3/147 (2%)

Query: 18  HHHQLPALFLKTSLDHNTYIISRFI-LTSLPISLH--FTRSLFNNVMPPLFAYNTLIRAY 74
           H  Q+ A  L + L  +T +++  I   SL  S H  +  SL  N +  L  +N LIR Y
Sbjct: 35  HVSQIHAQILVSGLQQDTNLLTELIRFCSLSPSKHLSYAHSLLYNSLDSLPPWNFLIRGY 94

Query: 75  AKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK 134
           A       +I++F  M K G+ P+N T+PFV+KA   CL +  G  VH+ IFK GL  D 
Sbjct: 95  ASGDAPKNAIRVFHRMRKEGVGPNNFTFPFVLKACATCLALEEGKQVHADIFKFGLDCDV 154

Query: 135 YIGNTLLRMYAACKEIDFAKALFDEMP 161
           Y+ N L+ +Y +CK I  A  +FDEMP
Sbjct: 155 YVNNNLVHLYGSCKRIWDACKVFDEMP 181

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356574121|ref|XP_003555200.1| PREDICTED: pentatricopeptide repeat-containing protein At5g08305-like [Glycine max]

 Score =  100 bits (249), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 58/165 (35%), Positives = 97/165 (58%), Gaps = 4/165 (2%)

Query: 2   ISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISR---FILTSLPISLHFTRSLFN 58
           IS  + +L+   K+     QL A+ +   L  +   IS+   F   S    ++++  +F+
Sbjct: 13  ISHNLLSLLDKCKSILELKQLHAVVISCGLSQDDPFISKILCFSALSNSGDINYSYRVFS 72

Query: 59  NVMPP-LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGV 117
            +  P +F++NT+IR Y+ +   I+S+ +F +ML+ G+ PD LTYPF+VKAS + L    
Sbjct: 73  QLSSPTIFSWNTIIRGYSNSKNPIQSLSIFLKMLRLGVAPDYLTYPFLVKASARLLNQET 132

Query: 118 GGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           G SVH+ I K G  SD++I N+L+ MYAAC    +A+ +FD + +
Sbjct: 133 GVSVHAHIIKTGHESDRFIQNSLIHMYAACGNSMWAQKVFDSIQQ 177

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357487485|ref|XP_003614030.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355515365|gb|AES96988.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  100 bits (248), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 57/147 (38%), Positives = 87/147 (59%), Gaps = 7/147 (4%)

Query: 20  HQLPALFLKTSLDHNTYIISR---FILTSLPISLHFTRSL---FNNVMPPLFAYNTLIRA 73
           HQL A     SL ++T+I+S+   F   S   +L   R L   F+N   P+ ++N LIR 
Sbjct: 27  HQLQAQIHLNSLHNDTHILSQLVYFFSLSPFKNLSHARKLVFHFSNNPSPI-SWNILIRG 85

Query: 74  YAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD 133
           YA +   IESI +F +M + G++P+ LTYPF+ K+    L++  G  VH+ + K GL SD
Sbjct: 86  YASSDSPIESIWVFKKMRENGVKPNKLTYPFIFKSCAMALVLCEGKQVHADLVKFGLDSD 145

Query: 134 KYIGNTLLRMYAACKEIDFAKALFDEM 160
            Y+ N ++  Y  CK+I +A+ +FDEM
Sbjct: 146 VYVCNNMINFYGCCKKIVYARKVFDEM 172

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445234|ref|XP_004140378.1| PREDICTED: pentatricopeptide repeat-containing protein At5g08305-like [Cucumis sativus]

 Score = 99.0 bits (245), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 63/163 (38%), Positives = 93/163 (57%), Gaps = 7/163 (4%)

Query: 7   ETLIQL---SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL---PISLHFTRSLFNNV 60
           +TLI L    K+     ++ AL     +  +  I S+ +L S       L ++  L  NV
Sbjct: 14  QTLISLLDGCKSMFELKRIHALLFTLGISQDETIKSKLLLFSALSPARDLDYSYKLILNV 73

Query: 61  -MPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGG 119
             P  F +NTLIRA++ T     SI +F +ML+ G+ PD LTYPF+VKA+ + L   +G 
Sbjct: 74  PNPTTFNWNTLIRAFSNTKNPNPSITVFIKMLQNGVSPDYLTYPFLVKATSKLLNQELGM 133

Query: 120 SVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           +VH  I K G   DK+I N+L+ MYA+C++I  A+ +FDEMP 
Sbjct: 134 AVHVHIVKSGHEIDKFIQNSLIHMYASCRDIASARKVFDEMPR 176

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449507733|ref|XP_004163116.1| PREDICTED: pentatricopeptide repeat-containing protein At5g08305-like [Cucumis sativus]

 Score = 99.0 bits (245), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 63/163 (38%), Positives = 93/163 (57%), Gaps = 7/163 (4%)

Query: 7   ETLIQL---SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL---PISLHFTRSLFNNV 60
           +TLI L    K+     ++ AL     +  +  I S+ +L S       L ++  L  NV
Sbjct: 14  QTLISLLDGCKSMFELKRIHALLFTLGISQDETIKSKLLLFSALSPARDLDYSYKLILNV 73

Query: 61  -MPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGG 119
             P  F +NTLIRA++ T     SI +F +ML+ G+ PD LTYPF+VKA+ + L   +G 
Sbjct: 74  PNPTTFNWNTLIRAFSNTKNPNPSITVFIKMLQNGVSPDYLTYPFLVKATSKLLNQELGM 133

Query: 120 SVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           +VH  I K G   DK+I N+L+ MYA+C++I  A+ +FDEMP 
Sbjct: 134 AVHVHIVKSGHEIDKFIQNSLIHMYASCRDIASARKVFDEMPR 176

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225468727|ref|XP_002271484.1| PREDICTED: pentatricopeptide repeat-containing protein At4g21065-like [Vitis vinifera]

 Score = 97.1 bits (240), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 61/150 (40%), Positives = 92/150 (61%), Gaps = 8/150 (5%)

Query: 17  HHHHQLPALFLKTSLDHNTYIISRFILT---SLPISLHFTRSLFNNV-MPPLFAYNTLIR 72
           +H ++L A  LKT   ++   + R +L+   S P SL + RS+F+ +  P  FA+NT+IR
Sbjct: 2   NHIYKLHARLLKTGHHNHPLALRRLLLSCAASAPASLSYARSIFDLIAFPDTFAFNTIIR 61

Query: 73  AYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS 132
           A+A +S    S+ LF +M   G+ PD+ T+PFV+KA   C  +  G  +HSL+FK+G  S
Sbjct: 62  AHADSS-PSFSLSLFSKMAMAGVSPDHFTFPFVLKA---CARLQTGLDLHSLLFKLGFDS 117

Query: 133 DKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           D Y+ N L+  Y  C  +DFA  +F+EMPE
Sbjct: 118 DVYVQNGLIHFYGCCGFLDFALKVFEEMPE 147

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356529748|ref|XP_003533450.1| PREDICTED: pentatricopeptide repeat-containing protein At1g31920-like [Glycine max]

 Score = 97.1 bits (240), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 56/162 (34%), Positives = 89/162 (54%), Gaps = 10/162 (6%)

Query: 8   TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILT---SLPISLHFTRSLFNNVMPP- 63
           +L++  K+     Q+ A  LK  L ++++  S  + T   S   S+ +  S+F  +  P 
Sbjct: 35  SLLKRCKSMEEFKQVHAHILKLGLFYDSFCGSNLVATCALSRWGSMEYACSIFRQIEEPG 94

Query: 64  LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGV---GGS 120
            F YNT+IR    +    E++ L+ EML+ G+ PDN TYPFV+KA   C L+G    G  
Sbjct: 95  SFEYNTMIRGNVNSMNLEEALLLYVEMLERGIEPDNFTYPFVLKA---CSLLGALKEGVQ 151

Query: 121 VHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
           +H+ +FK GL  D ++ N L+ MY  C  I+ A  +F++M E
Sbjct: 152 IHAHVFKAGLEGDVFVQNGLINMYGKCGAIEHASVVFEQMDE 193

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549842|ref|XP_002515972.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223544877|gb|EEF46392.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score = 96.3 bits (238), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 49/106 (46%), Positives = 72/106 (67%)

Query: 56  LFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLI 115
           LF+ + P +F +NT+IR Y+K+     SI +F +MLK G+ PD LTYPF+VKAS + L  
Sbjct: 71  LFSLLNPTIFNWNTVIRGYSKSKNPNGSISVFIQMLKVGVFPDYLTYPFLVKASARLLKR 130

Query: 116 GVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP 161
            +G S+H+ I K G  SD++I N+L+ MYA+  +I  A+ +FD MP
Sbjct: 131 ELGFSIHAHIIKHGFESDRFISNSLVHMYASFGDISCARYVFDGMP 176

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	162
TAIR|locus:2151694	550	AT5G37570 "AT5G37570" [Arabido	0.969	0.285	0.335	1.9e-22
TAIR|locus:2040565	501	AT2G36730 [Arabidopsis thalian	0.981	0.317	0.323	2.2e-17
TAIR|locus:2034456	606	AT1G31920 [Arabidopsis thalian	0.932	0.249	0.3	2.6e-17
TAIR|locus:4010713895	595	AT4G21065 "AT4G21065" [Arabido	0.753	0.205	0.377	3.2e-17
TAIR|locus:2019160	643	AT1G74630 [Arabidopsis thalian	0.944	0.237	0.322	2.1e-16
TAIR|locus:2056740	603	OTP85 "ORGANELLE TRANSCRIPT PR	0.876	0.235	0.294	3.7e-15
TAIR|locus:2144143	622	AT5G06540 [Arabidopsis thalian	0.827	0.215	0.314	1.3e-14
TAIR|locus:2117084	545	AT4G18840 "AT4G18840" [Arabido	0.962	0.286	0.298	1.3e-14
TAIR|locus:2077878	685	AT3G08820 "AT3G08820" [Arabido	0.981	0.232	0.291	1.6e-14
TAIR|locus:2094812	600	AT3G29230 "AT3G29230" [Arabido	0.987	0.266	0.345	5.6e-14

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

 Score = 248 (92.4 bits), Expect = 1.9e-22, Sum P(2) = 1.9e-22
 Identities = 54/161 (33%), Positives = 90/161 (55%)

Query:     6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPIS--LHFTRSLFNNVMPP 63
             +ETL +L K+  H +Q+ A  ++  L+ +  +IS FI +S   S  L ++ S+F  V  P
Sbjct:    13 LETLFKLCKSEIHLNQIHARIIRKGLEQDQNLISIFISSSSSSSSSLSYSSSVFERVPSP 72

Query:    64 -LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGL-RPDNLTYPFVVKASDQCLLIGVGGSV 121
               + +N LI+ Y+      E++ +   M++TGL RPD  T+P V+K       + VG SV
Sbjct:    73 GTYLWNHLIKGYSNKFLFFETVSILMRMMRTGLARPDEYTFPLVMKVCSNNGQVRVGSSV 132

Query:   122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
             H L+ ++G   D  +G + +  Y  CK++  A+ +F EMPE
Sbjct:   133 HGLVLRIGFDKDVVVGTSFVDFYGKCKDLFSARKVFGEMPE 173

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 220 (82.5 bits), Expect = 2.2e-17, P = 2.2e-17
 Identities = 54/167 (32%), Positives = 94/167 (56%)

Query:     3 SRQIETLI--QLSKTAHHHHQLPALFLKTSLDHNTYIISRFI-LTSLPIS--LHFTRSLF 57
             SR+ + LI  +L  +  H  Q+      +SL ++++IIS  + ++SL ++  L F R+L 
Sbjct:    11 SRKHQCLIFLKLCSSIKHLLQIHGQIHLSSLQNDSFIISELVRVSSLSLAKDLAFARTLL 70

Query:    58 --NNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLI 115
               ++   P   +N L R Y+ +   +ESI ++ EM + G++P+ LT+PF++KA    L +
Sbjct:    71 LHSSDSTPS-TWNMLSRGYSSSDSPVESIWVYSEMKRRGIKPNKLTFPFLLKACASFLGL 129

Query:   116 GVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
               G  +   + K G   D Y+GN L+ +Y  CK+   A+ +FDEM E
Sbjct:   130 TAGRQIQVEVLKHGFDFDVYVGNNLIHLYGTCKKTSDARKVFDEMTE 176

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2034456 AT1G31920 [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.6e-17, P = 2.6e-17
 Identities = 48/160 (30%), Positives = 88/160 (55%)

Query:    10 IQLSKTAHH---HHQLPALFLKTSLDHNTYIISRFILTSLPIS-----LHFTRSLFNNVM 61
             + L K  H+     Q+ A F+K SL +++   +  +L     S     +++  S+F  + 
Sbjct:    34 LYLLKRCHNIDEFKQVHARFIKLSLFYSSSFSASSVLAKCAHSGWENSMNYAASIFRGID 93

Query:    62 PPL-FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGS 120
              P  F +NT+IR Y       E++  ++EM++ G  PDN TYP ++KA  +   I  G  
Sbjct:    94 DPCTFDFNTMIRGYVNVMSFEEALCFYNEMMQRGNEPDNFTYPCLLKACTRLKSIREGKQ 153

Query:   121 VHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM 160
             +H  +FK+GL +D ++ N+L+ MY  C E++ + A+F+++
Sbjct:   154 IHGQVFKLGLEADVFVQNSLINMYGRCGEMELSSAVFEKL 193

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:4010713895 AT4G21065 "AT4G21065" [Arabidopsis thaliana (taxid:3702)]

 Score = 220 (82.5 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 48/127 (37%), Positives = 75/127 (59%)

Query:    41 FILTSLPIS--LHFTRSLFNNVMPPL--FAYNTLIRAYAKTSCSIESIKLFDEMLKTGL- 95
             F L SLP    + +   +F+ +  P+  F +NTLIR YA+   SI +  L+ EM  +GL 
Sbjct:    58 FYLVSLPSPPPMSYAHKVFSKIEKPINVFIWNTLIRGYAEIGNSISAFSLYREMRVSGLV 117

Query:    96 RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA 155
              PD  TYPF++KA      + +G ++HS++ + G  S  Y+ N+LL +YA C ++  A  
Sbjct:   118 EPDTHTYPFLIKAVTTMADVRLGETIHSVVIRSGFGSLIYVQNSLLHLYANCGDVASAYK 177

Query:   156 LFDEMPE 162
             +FD+MPE
Sbjct:   178 VFDKMPE 184

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019160 AT1G74630 [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 2.1e-16, P = 2.1e-16
 Identities = 51/158 (32%), Positives = 86/158 (54%)

Query:     8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFIL-TSLPIS--LHFTRSLFNNVMPP- 63
             +L+   K      Q+  LF+K  +D ++Y   + IL  ++ IS  L + R L      P 
Sbjct:    10 SLLNSCKNLRALTQIHGLFIKYGVDTDSYFTGKLILHCAISISDALPYARRLLLCFPEPD 69

Query:    64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTG-LRPDNLTYPFVVKASDQCLLIGVGGSVH 122
              F +NTL+R Y+++     S+ +F EM++ G + PD+ ++ FV+KA +    +  G  +H
Sbjct:    70 AFMFNTLVRGYSESDEPHNSVAVFVEMMRKGFVFPDSFSFAFVIKAVENFRSLRTGFQMH 129

Query:   123 SLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM 160
                 K GL S  ++G TL+ MY  C  ++FA+ +FDEM
Sbjct:   130 CQALKHGLESHLFVGTTLIGMYGGCGCVEFARKVFDEM 167

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2056740 OTP85 "ORGANELLE TRANSCRIPT PROCESSING 85" [Arabidopsis thaliana (taxid:3702)]

 Score = 201 (75.8 bits), Expect = 3.7e-15, P = 3.7e-15
 Identities = 43/146 (29%), Positives = 80/146 (54%)

Query:    21 QLPALFLKTSLDHNTYIISRF-ILTSLPI--SLHFTRSLFNNVMPP-LFAYNTLIRAYAK 76
             Q+ A  +K+ ++  +++       T  P   S+ + R LF  +  P +  +N++ R Y++
Sbjct:    47 QIQAYAIKSHIEDVSFVAKLINFCTESPTESSMSYARHLFEAMSEPDIVIFNSMARGYSR 106

Query:    77 TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYI 136
              +  +E   LF E+L+ G+ PDN T+P ++KA      +  G  +H L  K+GL  + Y+
Sbjct:   107 FTNPLEVFSLFVEILEDGILPDNYTFPSLLKACAVAKALEEGRQLHCLSMKLGLDDNVYV 166

Query:   137 GNTLLRMYAACKEIDFAKALFDEMPE 162
               TL+ MY  C+++D A+ +FD + E
Sbjct:   167 CPTLINMYTECEDVDSARCVFDRIVE 192

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2144143 AT5G06540 [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.3e-14, P = 1.3e-14
 Identities = 45/143 (31%), Positives = 78/143 (54%)

Query:    27 LKTSLDHNTYIISRFILTSLPIS--------LHFTRSLFNNVMPP-LFAYNTLIRAYAKT 77
             L+T L  + ++ SR +   +  S        L +   +F+ +  P LF +N LIR ++  
Sbjct:    36 LRTHLISDVFVASRLLALCVDDSTFNKPTNLLGYAYGIFSQIQNPNLFVFNLLIRCFSTG 95

Query:    78 SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIG 137
             +   ++   + +MLK+ + PDN+T+PF++KAS +   + VG   HS I + G  +D Y+ 
Sbjct:    96 AEPSKAFGFYTQMLKSRIWPDNITFPFLIKASSEMECVLVGEQTHSQIVRFGFQNDVYVE 155

Query:   138 NTLLRMYAACKEIDFAKALFDEM 160
             N+L+ MYA C  I  A  +F +M
Sbjct:   156 NSLVHMYANCGFIAAAGRIFGQM 178

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2117084 AT4G18840 "AT4G18840" [Arabidopsis thaliana (taxid:3702)]

 Score = 195 (73.7 bits), Expect = 1.3e-14, P = 1.3e-14
 Identities = 48/161 (29%), Positives = 82/161 (50%)

Query:     6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL----PISLHFTRSLFNNVM 61
             I +  + +K+     Q  A  LKT L H+T+  S+ +  +     P ++ +  S+ N + 
Sbjct:    42 ILSFTERAKSLTEIQQAHAFMLKTGLFHDTFSASKLVAFAATNPEPKTVSYAHSILNRIG 101

Query:    62 PPL-FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGS 120
              P  F +N++IRAYA +S    ++ +F EML   + PD  ++ FV+KA         G  
Sbjct:   102 SPNGFTHNSVIRAYANSSTPEVALTVFREMLLGPVFPDKYSFTFVLKACAAFCGFEEGRQ 161

Query:   121 VHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP 161
             +H L  K GL +D ++ NTL+ +Y      + A+ + D MP
Sbjct:   162 IHGLFIKSGLVTDVFVENTLVNVYGRSGYFEIARKVLDRMP 202

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2077878 AT3G08820 "AT3G08820" [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.6e-14, P = 1.6e-14
 Identities = 47/161 (29%), Positives = 85/161 (52%)

Query:     4 RQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPI-SLHFTRSLFNNVM- 61
             +QI+TLI ++ T +H  Q+    +   L H+T++++  +  +L      ++  LF++   
Sbjct:    14 QQIKTLISVACTVNHLKQIHVSLINHHLHHDTFLVNLLLKRTLFFRQTKYSYLLFSHTQF 73

Query:    62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSV 121
             P +F YN+LI  +       E++ LF  + K GL     T+P V+KA  +     +G  +
Sbjct:    74 PNIFLYNSLINGFVNNHLFHETLDLFLSIRKHGLYLHGFTFPLVLKACTRASSRKLGIDL 133

Query:   122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
             HSL+ K G + D     +LL +Y+    ++ A  LFDE+P+
Sbjct:   134 HSLVVKCGFNHDVAAMTSLLSIYSGSGRLNDAHKLFDEIPD 174

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2094812 AT3G29230 "AT3G29230" [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 5.6e-14, P = 5.6e-14
 Identities = 58/168 (34%), Positives = 89/168 (52%)

Query:     3 SRQI--ETLIQLSKTAHHHH--QLPALFLKTSLDHNTYIISRFILT-SLPISLHFTRSLF 57
             SR+I  E L  L K A+ +   QL A  ++ +L  + +I  + I   SL    +    +F
Sbjct:    15 SRRIFEERLQDLPKCANLNQVKQLHAQIIRRNLHEDLHIAPKLISALSLCRQTNLAVRVF 74

Query:    58 NNVMPP-LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIG 116
             N V  P +   N+LIRA+A+ S   ++  +F EM + GL  DN TYPF++KA      + 
Sbjct:    75 NQVQEPNVHLCNSLIRAHAQNSQPYQAFFVFSEMQRFGLFADNFTYPFLLKACSGQSWLP 134

Query:   117 VGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA--LFDEMPE 162
             V   +H+ I K+GL SD Y+ N L+  Y+ C  +    A  LF++M E
Sbjct:   135 VVKMMHNHIEKLGLSSDIYVPNALIDCYSRCGGLGVRDAMKLFEKMSE 182

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	162
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-13
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-12
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	9e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-04

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

 Score = 67.2 bits (164), Expect = 1e-13
 Identities = 33/98 (33%), Positives = 53/98 (54%)

Query: 64  LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHS 123
           LF++N L+  YAK     E++ L+  ML  G+RPD  T+P V++       +  G  VH+
Sbjct: 152 LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHA 211

Query: 124 LIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP 161
            + + G   D  + N L+ MY  C ++  A+ +FD MP
Sbjct: 212 HVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP 249

Length = 857

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

 Score = 61.8 bits (150), Expect = 7e-12
 Identities = 36/135 (26%), Positives = 66/135 (48%), Gaps = 4/135 (2%)

Query: 31  LDHNTYIISRFILTSLPISLHF-TRSLFNNVMPP--LFAYNTLIRAYAKTSCSIESIKLF 87
            + + Y+++R +L  +   +    R LF+  MP   L ++ T+I          E+  LF
Sbjct: 154 FEPDQYMMNRVLLMHVKCGMLIDARRLFDE-MPERNLASWGTIIGGLVDAGNYREAFALF 212

Query: 88  DEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC 147
            EM + G   +  T+  +++AS        G  +H  + K G+  D ++   L+ MY+ C
Sbjct: 213 REMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKC 272

Query: 148 KEIDFAKALFDEMPE 162
            +I+ A+ +FD MPE
Sbjct: 273 GDIEDARCVFDGMPE 287

Length = 697

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

 Score = 52.9 bits (127), Expect = 1e-08
 Identities = 30/111 (27%), Positives = 53/111 (47%), Gaps = 4/111 (3%)

Query: 52  FTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ 111
           F+R    + +    ++  +I  Y K     ++++ +  M +  + PD +T   V+ A   
Sbjct: 346 FSRMETKDAV----SWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC 401

Query: 112 CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE 162
              + VG  +H L  + GL S   + N L+ MY+ CK ID A  +F  +PE
Sbjct: 402 LGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452

Length = 857

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

 Score = 50.6 bits (121), Expect = 7e-08
 Identities = 37/145 (25%), Positives = 71/145 (48%), Gaps = 6/145 (4%)

Query: 21  QLPALFLKTSLDHNTYIISRFI-LTSLPISLHFTRSLFNNVMP--PLFAYNTLIRAYAKT 77
           QL    LKT +  +T++    I + S    +   R +F+  MP     A+N+++  YA  
Sbjct: 245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG-MPEKTTVAWNSMLAGYALH 303

Query: 78  SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIG 137
             S E++ L+ EM  +G+  D  T+  +++   +  L+      H+ + + G   D  + 
Sbjct: 304 GYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLD-IVA 362

Query: 138 NT-LLRMYAACKEIDFAKALFDEMP 161
           NT L+ +Y+    ++ A+ +FD MP
Sbjct: 363 NTALVDLYSKWGRMEDARNVFDRMP 387

Length = 697

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

 Score = 45.5 bits (109), Expect = 1e-07
 Identities = 19/41 (46%), Positives = 26/41 (63%)

Query: 62  PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTY 102
           P +  YNTLI  Y K     E++KLF+EM K G++P+  TY
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTY 41

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

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

 Score = 47.5 bits (113), Expect = 7e-07
 Identities = 28/109 (25%), Positives = 52/109 (47%), Gaps = 3/109 (2%)

Query: 54  RSLFNNVMP--PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ 111
           R +F+  MP     ++N +I  Y +    +E ++LF  M +  + PD +T   V+ A + 
Sbjct: 242 RLVFDR-MPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEL 300

Query: 112 CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM 160
                +G  +H  + K G   D  + N+L++MY +      A+ +F  M
Sbjct: 301 LGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Length = 857

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

 Score = 40.1 bits (95), Expect = 1e-05
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD 98
            YNTLI    K     E+++LF EM + G+ PD
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 42.6 bits (100), Expect = 3e-05
 Identities = 21/62 (33%), Positives = 32/62 (51%)

Query: 101 TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM 160
           TY  +V+A      I    +V+  +   G   D+Y+ N +L M+  C  +  A+ LFDEM
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 161 PE 162
           PE
Sbjct: 185 PE 186

Length = 697

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.4 bits (88), Expect = 9e-05
 Identities = 12/31 (38%), Positives = 18/31 (58%)

Query: 65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGL 95
            YN+LI  Y K     E+++LF EM + G+
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

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

 Score = 39.1 bits (91), Expect = 5e-04
 Identities = 23/82 (28%), Positives = 43/82 (52%), Gaps = 7/82 (8%)

Query: 80  SIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGV---GGSVHSLIFKVGLHSDKYI 136
             E++  F +ML T L+P+++T    + A   C  IG    G  +H+ + + G+  D ++
Sbjct: 471 CFEALIFFRQMLLT-LKPNSVTLIAALSA---CARIGALMCGKEIHAHVLRTGIGFDGFL 526

Query: 137 GNTLLRMYAACKEIDFAKALFD 158
            N LL +Y  C  +++A   F+
Sbjct: 527 PNALLDLYVRCGRMNYAWNQFN 548

Length = 857

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	162
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.98
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	99.98
PLN03218	1060	maturation of RBCL 1; Provisional	99.97
PLN03218	1060	maturation of RBCL 1; Provisional	99.97
PLN03077	857	Protein ECB2; Provisional	99.97
PLN03077	857	Protein ECB2; Provisional	99.97
PF13041	50	PPR_2: PPR repeat family	99.72
PF13041	50	PPR_2: PPR repeat family	99.61
PF12854	34	PPR_1: PPR repeat	99.41
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.32
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.27
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.21
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.19
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.13
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.06
PF12854	34	PPR_1: PPR repeat	99.04
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.99
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.9
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.85
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.81
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.74
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.74
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.62
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.59
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.55
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.54
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.54
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.54
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.52
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.48
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.48
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.47
PRK12370	553	invasion protein regulator; Provisional	98.47
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.46
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.46
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.38
PRK12370	553	invasion protein regulator; Provisional	98.34
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.33
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.27
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	98.23
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.22
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.2
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.18
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.16
PRK14574	822	hmsH outer membrane protein; Provisional	98.16
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.15
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.14
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.13
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.12
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.09
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	98.05
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.04
PRK14574	822	hmsH outer membrane protein; Provisional	97.98
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.96
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.96
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.93
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.93
PRK15359	144	type III secretion system chaperone protein SscB;	97.91
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.88
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.8
PRK11189	296	lipoprotein NlpI; Provisional	97.76
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.74
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.73
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.73
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.72
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.69
PRK15359	144	type III secretion system chaperone protein SscB;	97.69
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.67
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.67
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.65
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.65
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	97.62
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.61
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.56
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.54
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.54
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.51
KOG1126	638	consensus DNA-binding cell division cycle control	97.51
PRK11189	296	lipoprotein NlpI; Provisional	97.5
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.46
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.45
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.38
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.33
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.31
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.31
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.31
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.28
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.27
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.25
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.25
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.18
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.16
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.15
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.13
KOG1126	638	consensus DNA-binding cell division cycle control	97.13
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.12
KOG1915	677	consensus Cell cycle control protein (crooked neck	97.08
KOG3941	406	consensus Intermediate in Toll signal transduction	97.08
KOG1129	478	consensus TPR repeat-containing protein [General f	97.06
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.02
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.0
KOG2003	840	consensus TPR repeat-containing protein [General f	96.98
KOG2003	840	consensus TPR repeat-containing protein [General f	96.92
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.9
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.86
KOG1129	478	consensus TPR repeat-containing protein [General f	96.84
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.84
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.81
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.81
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.79
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.71
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.65
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.65
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.64
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.64
KOG2076	895	consensus RNA polymerase III transcription factor	96.63
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	96.6
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	96.54
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.53
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	96.52
PF12688	120	TPR_5: Tetratrico peptide repeat	96.38
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.38
PRK14720	906	transcript cleavage factor/unknown domain fusion p	96.37
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.36
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.3
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.28
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	96.28
KOG4340	459	consensus Uncharacterized conserved protein [Funct	96.27
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	96.27
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.26
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.23
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	96.2
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.2
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.16
KOG1915	677	consensus Cell cycle control protein (crooked neck	96.13
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	96.09
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.07
KOG1125	579	consensus TPR repeat-containing protein [General f	96.06
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.04
PRK10803	263	tol-pal system protein YbgF; Provisional	95.99
KOG0547	606	consensus Translocase of outer mitochondrial membr	95.99
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.98
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.95
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	95.93
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	95.92
KOG0495	913	consensus HAT repeat protein [RNA processing and m	95.87
KOG1128	777	consensus Uncharacterized conserved protein, conta	95.87
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.85
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.76
KOG2076	895	consensus RNA polymerase III transcription factor	95.75
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.75
PF13762	145	MNE1: Mitochondrial splicing apparatus component	95.69
PF13929	292	mRNA_stabil: mRNA stabilisation	95.66
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	95.64
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.59
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	95.58
PF13371	73	TPR_9: Tetratricopeptide repeat	95.54
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.53
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	95.52
PRK14720	906	transcript cleavage factor/unknown domain fusion p	95.5
KOG4340	459	consensus Uncharacterized conserved protein [Funct	95.22
KOG0495	913	consensus HAT repeat protein [RNA processing and m	95.07
KOG3785	557	consensus Uncharacterized conserved protein [Funct	95.04
PRK04841	903	transcriptional regulator MalT; Provisional	95.04
KOG3941	406	consensus Intermediate in Toll signal transduction	95.03
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.99
PRK10803	263	tol-pal system protein YbgF; Provisional	94.91
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	94.88
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.83
PF12688	120	TPR_5: Tetratrico peptide repeat	94.83
KOG2047	835	consensus mRNA splicing factor [RNA processing and	94.81
PF13371	73	TPR_9: Tetratricopeptide repeat	94.74
KOG3785	557	consensus Uncharacterized conserved protein [Funct	94.57
KOG2376	652	consensus Signal recognition particle, subunit Srp	94.56
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	94.55
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.46
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.41
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.21
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	94.14
KOG3616	1636	consensus Selective LIM binding factor [Transcript	94.13
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.12
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.1
PF13929	292	mRNA_stabil: mRNA stabilisation	94.05
KOG1128	777	consensus Uncharacterized conserved protein, conta	93.94
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	93.77
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	93.76
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	93.52
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.36
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.35
KOG2796	366	consensus Uncharacterized conserved protein [Funct	93.09
KOG0553	304	consensus TPR repeat-containing protein [General f	93.06
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	93.06
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.89
KOG2796	366	consensus Uncharacterized conserved protein [Funct	92.85
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.8
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.65
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	92.55
PRK15331	165	chaperone protein SicA; Provisional	91.97
PRK04841	903	transcriptional regulator MalT; Provisional	91.87
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.86
smart00299	140	CLH Clathrin heavy chain repeat homology.	91.74
PRK15331	165	chaperone protein SicA; Provisional	91.68
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	91.58
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	91.52
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.37
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.31
PLN02789	320	farnesyltranstransferase	91.26
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.06
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.63
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.59
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	90.13
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	90.12
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	90.0
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	89.99
PF13428	44	TPR_14: Tetratricopeptide repeat	89.96
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	89.84
KOG0553	304	consensus TPR repeat-containing protein [General f	89.83
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	89.8
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.79
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	89.69
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.66
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	89.65
KOG2376	652	consensus Signal recognition particle, subunit Srp	89.61
KOG4555	175	consensus TPR repeat-containing protein [Function	89.53
PF10366	108	Vps39_1: Vacuolar sorting protein 39 domain 1; Int	89.45
PF11663	140	Toxin_YhaV: Toxin with endonuclease activity YhaV;	89.38
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.36
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	89.17
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	89.0
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	88.77
PLN02789	320	farnesyltranstransferase	88.69
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.18
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	88.03
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	87.68
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	87.54
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.53
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	87.35
PF13428	44	TPR_14: Tetratricopeptide repeat	86.9
KOG1125	579	consensus TPR repeat-containing protein [General f	86.5
COG4700	251	Uncharacterized protein conserved in bacteria cont	86.22
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.09
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	85.85
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	85.74
PF13762	145	MNE1: Mitochondrial splicing apparatus component	85.69
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	85.65
PF09477	116	Type_III_YscG: Bacterial type II secretion system	85.16
COG3898	531	Uncharacterized membrane-bound protein [Function u	84.58
PF13431	34	TPR_17: Tetratricopeptide repeat	84.42
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	84.26
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	84.18
KOG4648	536	consensus Uncharacterized conserved protein, conta	83.99
COG3118	304	Thioredoxin domain-containing protein [Posttransla	83.69
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	83.44
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	83.41
PF13934	226	ELYS: Nuclear pore complex assembly	82.92
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	82.69
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.47
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	82.39
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	82.06
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	81.6
COG4700	251	Uncharacterized protein conserved in bacteria cont	81.25
KOG2610	491	consensus Uncharacterized conserved protein [Funct	80.87
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	80.67
PRK10564	303	maltose regulon periplasmic protein; Provisional	80.13

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

Probab=99.98  E-value=6e-32  Score=212.63  Aligned_cols=158  Identities=15%  Similarity=0.220  Sum_probs=148.0

Q ss_pred             hHHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCch
Q 045917            4 RQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         4 ~~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~   81 (162)
                      ++++..+...|++++|++++..|.+.|+.|+..+||+|+++|+ .|++++|.++|++|. ||..+||+||.+|+++|+.+
T Consensus       329 ~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~  408 (697)
T PLN03081        329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGT  408 (697)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHH
Confidence            3444455555788889999999999999999999999999999 999999999999999 99999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH-HhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK-VGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~-~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +|+++|++|.+.|+.||..||++++.+|++.|..++|.++|..|.+ .|+.|+..+|++++++|++.|++++|.++|++|
T Consensus       409 ~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        409 KAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC
Confidence            9999999999999999999999999999999999999999999976 699999999999999999999999999999998


Q ss_pred             C
Q 045917          161 P  161 (162)
Q Consensus       161 ~  161 (162)
                      +
T Consensus       489 ~  489 (697)
T PLN03081        489 P  489 (697)
T ss_pred             C
Confidence            6

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

Probab=99.98  E-value=1.1e-31  Score=211.06  Aligned_cols=143  Identities=22%  Similarity=0.381  Sum_probs=131.4

Q ss_pred             cchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC
Q 045917           20 HQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP   97 (162)
Q Consensus        20 ~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   97 (162)
                      ++++..+.+.|+.||..+||+|+++|+ .|++++|.++|++|+ +|.++||++|.+|++.|++++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            333333344455566667788999999 999999999999999 999999999999999999999999999999999999


Q ss_pred             CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcccCC
Q 045917           98 DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE  162 (162)
Q Consensus        98 ~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~~  162 (162)
                      |..||++++.+|++.|++++|++++..|.+.|+.||..+|++|+++|+++|++++|.++|++|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~  388 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR  388 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999974

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.97  E-value=2.1e-31  Score=214.26  Aligned_cols=152  Identities=14%  Similarity=0.216  Sum_probs=74.1

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcCCCchH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~~~~~~   82 (162)
                      .+...|+++.|.++++.|++.|+.||..+|++||.+|+ .|++++|.++|++|.     ||..+||++|.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            33333444445555555555555555555555555555 555555555555444     444555555555555555555


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH--HhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK--VGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~--~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |.++|++|++.|+.||..||+++|.+|++.|++++|.+++.+|.+  .|+.||..+|++|+.+|+++|++++|.++|++|
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            555555554444445544455555554444444444444444433  334444444444444444444444444444444

>PLN03218 maturation of RBCL 1; Provisional

Probab=99.97  E-value=2.6e-31  Score=213.67  Aligned_cols=157  Identities=10%  Similarity=0.132  Sum_probs=85.0

Q ss_pred             hHHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcC
Q 045917            4 RQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKT   77 (162)
Q Consensus         4 ~~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~   77 (162)
                      ++++..+.++|++++|.++|+.|.+.|+.|++.+||+++.+|+ .|++++|.++|++|.     ||..+|+++|.+|++.
T Consensus       583 naLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~  662 (1060)
T PLN03218        583 GALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHA  662 (1060)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            3444444444555555555555555555555555555555555 555555555555554     5555555555555555


Q ss_pred             CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917           78 SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus        78 ~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      |++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|+.|.+.|+.||..+|+.||.+|++.|++++|.++|
T Consensus       663 G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf  742 (1060)
T PLN03218        663 GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVL  742 (1060)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             ccc
Q 045917          158 DEM  160 (162)
Q Consensus       158 ~~m  160 (162)
                      ++|
T Consensus       743 ~eM  745 (1060)
T PLN03218        743 SEM  745 (1060)
T ss_pred             HHH
Confidence            554

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=5.5e-31  Score=211.12  Aligned_cols=158  Identities=22%  Similarity=0.325  Sum_probs=148.2

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchH
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~   82 (162)
                      .++..+...|+.+.+++++..+.+.|+.||..+||+|+.+|+ .|++++|.++|++|. ||..+||++|.+|++.|++++
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            334444444677888888999999999999999999999999 999999999999999 999999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcccCC
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE  162 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~~  162 (162)
                      |+++|++|.+.|+.||..||++++.+|++.|+++.|.++++.+.+.|+.|+..+|++|+++|+++|++++|.++|++|++
T Consensus       373 A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  452 (857)
T PLN03077        373 ALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE  452 (857)
T ss_pred             HHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999974

>PLN03077 Protein ECB2; Provisional

Probab=99.97  E-value=6.9e-31  Score=210.59  Aligned_cols=146  Identities=19%  Similarity=0.308  Sum_probs=131.8

Q ss_pred             hhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcC
Q 045917           17 HHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTG   94 (162)
Q Consensus        17 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (162)
                      ..+.+++..+.+.|+.|++.++|+|+.+|+ .|+++.|.++|++|+ ||.++||++|.+|++.|++++|+++|++|.+.|
T Consensus       204 ~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g  283 (857)
T PLN03077        204 ARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELS  283 (857)
T ss_pred             hhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            334444444444455555566678888888 999999999999999 999999999999999999999999999999999


Q ss_pred             CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcccCC
Q 045917           95 LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE  162 (162)
Q Consensus        95 ~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~~  162 (162)
                      +.||..||+.++.+|++.|+.+.|++++..+.+.|+.||..+|++|+.+|+++|++++|.++|++|++
T Consensus       284 ~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~  351 (857)
T PLN03077        284 VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET  351 (857)
T ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999973

>PF13041 PPR_2: PPR repeat family

Probab=99.72  E-value=1e-17  Score=88.69  Aligned_cols=50  Identities=40%  Similarity=0.701  Sum_probs=47.4

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      ||.++||++|.+|++.|++++|.++|++|++.|+.||..||+++|++|++
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            78999999999999999999999999999999999999999999999985

>PF13041 PPR_2: PPR repeat family

Probab=99.61  E-value=9.9e-16  Score=81.04  Aligned_cols=50  Identities=20%  Similarity=0.230  Sum_probs=48.9

Q ss_pred             CCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           97 PDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        97 p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      ||..+||++|++|++.|++++|.+++++|.+.|++||..||+.+|++|+|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999985

>PF12854 PPR_1: PPR repeat

Probab=99.41  E-value=2.6e-13  Score=65.50  Aligned_cols=34  Identities=38%  Similarity=0.434  Sum_probs=31.9

Q ss_pred             HhcCcchhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917          128 VGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       128 ~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      .|+.||..+|++||++||+.|++++|.++|++|+
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            3789999999999999999999999999999996

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.32  E-value=8.6e-11  Score=87.17  Aligned_cols=151  Identities=13%  Similarity=0.015  Sum_probs=75.0

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCch----hHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcC
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNT----YIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKT   77 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~   77 (162)
                      ..++...|+.++|.+.++.+.+.+..+..    ..+..+...+. .|+.++|...|+++.   | +...+..+...+.+.
T Consensus       148 a~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~  227 (389)
T PRK11788        148 LEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQ  227 (389)
T ss_pred             HHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHC
Confidence            33444445555555555555443322211    12233334444 555666655555554   2 233444555555555


Q ss_pred             CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917           78 SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus        78 ~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      |++++|.++|+++.+.+-.....+++.+..++.+.|+.++|...+..+.+.  .|+...+..+...|.+.|++++|.++|
T Consensus       228 g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l  305 (389)
T PRK11788        228 GDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALL  305 (389)
T ss_pred             CCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHH
Confidence            666666666655554321111234455555555556666665555555443  234444455555566666666666555


Q ss_pred             cc
Q 045917          158 DE  159 (162)
Q Consensus       158 ~~  159 (162)
                      ++
T Consensus       306 ~~  307 (389)
T PRK11788        306 RE  307 (389)
T ss_pred             HH
Confidence            54

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.27  E-value=2.1e-10  Score=85.08  Aligned_cols=150  Identities=6%  Similarity=-0.109  Sum_probs=81.1

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC------hhHHHHHHHHHHcCC
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP------LFAYNTLIRAYAKTS   78 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~------~~~~~~li~~~~~~~   78 (162)
                      .+...|+.++|..++..+.+. -+.+..+++.+...+. .|++++|...++.+.   |+      ...|..+...+.+.|
T Consensus       116 ~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~  194 (389)
T PRK11788        116 DYLKAGLLDRAEELFLQLVDE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARG  194 (389)
T ss_pred             HHHHCCCHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCC
Confidence            333445555566655555443 1233445555566666 666666666666554   21      112334444555566


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      ++++|...|+++.+.. +.+...+..+...+.+.|++++|.+++..+.+.+......+++.+..+|.+.|++++|.+.++
T Consensus       195 ~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~  273 (389)
T PRK11788        195 DLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLR  273 (389)
T ss_pred             CHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6666666666665432 112334455556666666666666666666554322223455666666666677776666665


Q ss_pred             cc
Q 045917          159 EM  160 (162)
Q Consensus       159 ~m  160 (162)
                      ++
T Consensus       274 ~~  275 (389)
T PRK11788        274 RA  275 (389)
T ss_pred             HH
Confidence            53

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.21  E-value=2e-10  Score=84.05  Aligned_cols=123  Identities=16%  Similarity=0.158  Sum_probs=103.2

Q ss_pred             HHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC
Q 045917           26 FLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN   99 (162)
Q Consensus        26 ~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   99 (162)
                      +...-.+.++.++.++|.+.| -...+.|..++++..     .+..+||.+|.+-.-.    ...++..+|....++||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCch
Confidence            333445667889999999999 889999999999887     7888999998876543    237889999999999999


Q ss_pred             ccHHHHHHHhhhhccchhhh----HHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917          100 LTYPFVVKASDQCLLIGVGG----SVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~----~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      .|||+++++..+.|+++.+.    ++..+|.+-|+.|...+|..+|..+++.++.-+
T Consensus       274 ~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k  330 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQK  330 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchh
Confidence            99999999999999887665    567788889999999999999999998777643

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.19  E-value=1.4e-09  Score=79.68  Aligned_cols=153  Identities=13%  Similarity=0.121  Sum_probs=115.9

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC--CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchH
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL--PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~   82 (162)
                      .++.-+.++..++.|.+++++......+.+..++|.+|...+  .|+---++-+-..|.||..|+|+++++.++-|+++.
T Consensus       212 ~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~  291 (625)
T KOG4422|consen  212 IMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFED  291 (625)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHH
Confidence            445556666788999999999999999999999999999887  553223333333333999999999999999998876


Q ss_pred             H----HHHHHHHHHcCCCCCCccHHHHHHHhhhhccchh-hhHHHHHHHH----HhcC----cchhHHHHHHHHHHhcCC
Q 045917           83 S----IKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGV-GGSVHSLIFK----VGLH----SDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        83 a----~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~-a~~i~~~~~~----~~~~----~~~~~~~~ll~~y~~~g~  149 (162)
                      |    ++++.+|++-|++|...+|..+|.-+++.++-.+ +..+..++..    +.++    .|...+.+-+..+.+..+
T Consensus       292 ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d  371 (625)
T KOG4422|consen  292 ARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRD  371 (625)
T ss_pred             HHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhh
Confidence            5    5778899999999999999999999998877644 4444455433    2232    345556677787778888


Q ss_pred             hhHHHHhh
Q 045917          150 IDFAKALF  157 (162)
Q Consensus       150 ~~~a~~~~  157 (162)
                      .+-|.++-
T Consensus       372 ~~LA~~v~  379 (625)
T KOG4422|consen  372 LELAYQVH  379 (625)
T ss_pred             HHHHHHHH
Confidence            88888764

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

Probab=99.13  E-value=3.5e-09  Score=85.27  Aligned_cols=152  Identities=11%  Similarity=-0.010  Sum_probs=117.1

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~   81 (162)
                      ..++...|+.++|.+.+..+.+.. +.++..+..+-..|. .|+.++|...|+.+.    .+...++.+...+...|+ .
T Consensus       743 ~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~  820 (899)
T TIGR02917       743 HRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-P  820 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-H
Confidence            344455566667777666665542 345667777777777 888888888888775    457778888888888888 7


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      +|+..+++..... +-+..++..+...+...|++++|..+++.+.+.+. .+..++..+..+|.+.|+.++|.+++++|.
T Consensus       821 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       821 RALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP-EAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7888888876542 22344566777888899999999999999998775 389999999999999999999999999886


Q ss_pred             C
Q 045917          162 E  162 (162)
Q Consensus       162 ~  162 (162)
                      +
T Consensus       899 ~  899 (899)
T TIGR02917       899 N  899 (899)
T ss_pred             C
Confidence            3

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

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

Probab=99.06  E-value=1.1e-08  Score=82.56  Aligned_cols=146  Identities=13%  Similarity=0.056  Sum_probs=84.2

Q ss_pred             HHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      ...|+.++|...+..+.+.. +.+..++..+...+. .|++++|..+++.+.    .+...+..+...+.+.|++++|..
T Consensus       646 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  724 (899)
T TIGR02917       646 AVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQ  724 (899)
T ss_pred             HHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHH
Confidence            33445555555555444321 223445555555555 555555555555554    344555555566666666666666


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .|+++.+.+  |+..++..+...+.+.|+.++|.+.+..+.+.. +.+...+..+...|.+.|++++|.+.|+++
T Consensus       725 ~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  796 (899)
T TIGR02917       725 AYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTV  796 (899)
T ss_pred             HHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            666665432  444555566666666666666666666665543 345666666667777777777777776654

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

>PF12854 PPR_1: PPR repeat

Probab=99.04  E-value=2.7e-10  Score=54.87  Aligned_cols=29  Identities=48%  Similarity=0.778  Sum_probs=14.4

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      ||.+|||++|.+|++.|++++|.++|++|
T Consensus         5 Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    5 PDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44445555555555555555555554444

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.99  E-value=8.9e-10  Score=53.27  Aligned_cols=35  Identities=43%  Similarity=0.712  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN   99 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   99 (162)
                      .+||++|.+|++.|++++|.++|++|++.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999984

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

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.90  E-value=3.1e-09  Score=51.10  Aligned_cols=33  Identities=42%  Similarity=0.736  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP   97 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   97 (162)
                      .+||++|.+|++.|+++.|.++|++|++.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            689999999999999999999999999999887

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.85  E-value=4.7e-07  Score=61.79  Aligned_cols=150  Identities=8%  Similarity=-0.046  Sum_probs=98.4

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a   83 (162)
                      .+...|+.++|.+.++...+.. +.+...+..+-..+. .|++++|...++...    .+...+..+-..+...|++++|
T Consensus        40 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A  118 (234)
T TIGR02521        40 GYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQA  118 (234)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHH
Confidence            3344466777777777665443 233455566666666 888888888887665    3455666677777778888888


Q ss_pred             HHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           84 IKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        84 ~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ...+++..+....| ....+..+...+...|++++|...+....+.. +.+...+..+...|...|++++|.+.+++.
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  195 (234)
T TIGR02521       119 MQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERY  195 (234)
T ss_pred             HHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888876542222 23345556666777778888887777766643 224556677777777888888887777653

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

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

Probab=98.81  E-value=6.6e-08  Score=68.95  Aligned_cols=151  Identities=11%  Similarity=-0.080  Sum_probs=101.8

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhc-CCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCc
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTS-LDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~   80 (162)
                      +.++...++.+++.++++.+.... .+.++..|..+-..+. .|+.++|.+.++..-   |+ ....+.++..+...|+.
T Consensus       117 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~  196 (280)
T PF13429_consen  117 LQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDY  196 (280)
T ss_dssp             -H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCh
Confidence            344556677788888887776433 3456677777777777 999999999999876   64 77788899999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +++.+++....... +.|...+..+..++...|+.++|...++...+.. +.|+.+...+.+++...|+.++|.++..+
T Consensus       197 ~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~  273 (280)
T PF13429_consen  197 DEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQ  273 (280)
T ss_dssp             HHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT--------------
T ss_pred             HHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccccccccccccc
Confidence            99888888876654 5566677888899999999999999998887753 45788888899999999999999888654

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

Probab=98.74  E-value=1.4e-08  Score=47.65  Aligned_cols=31  Identities=39%  Similarity=0.686  Sum_probs=27.0

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCC
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGL   95 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   95 (162)
                      ++||++|++|++.|++++|.++|++|++.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4789999999999999999999999988774

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.74  E-value=1.2e-06  Score=59.71  Aligned_cols=151  Identities=8%  Similarity=-0.085  Sum_probs=117.9

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--C----ChhHHHHHHHHHHcCCC
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--P----PLFAYNTLIRAYAKTSC   79 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~----~~~~~~~li~~~~~~~~   79 (162)
                      ..++...|+.++|.+.++...... +.+...+..+-..+. .|++++|...|+...  +    ....+..+-..+...|+
T Consensus        72 a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  150 (234)
T TIGR02521        72 ALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGD  150 (234)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCC
Confidence            344455578889999998887654 334556677777778 999999999999885  2    24456667778889999


Q ss_pred             chHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           80 SIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +++|...+.+..+.. +.+...+..+...+...|++++|...++...+. .+.+...+..+...+...|+.+.|.++++.
T Consensus       151 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  228 (234)
T TIGR02521       151 FDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQ  228 (234)
T ss_pred             HHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            999999999987642 223456778888999999999999999988776 345667777888999999999999998765


Q ss_pred             c
Q 045917          160 M  160 (162)
Q Consensus       160 m  160 (162)
                      +
T Consensus       229 ~  229 (234)
T TIGR02521       229 L  229 (234)
T ss_pred             H
Confidence            4

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.62  E-value=4.4e-08  Score=47.10  Aligned_cols=35  Identities=11%  Similarity=0.170  Sum_probs=31.6

Q ss_pred             ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcch
Q 045917          100 LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK  134 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~  134 (162)
                      .+||++|.+|++.|++++|.+++..|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999998874

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.

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

Probab=98.59  E-value=2.1e-07  Score=73.70  Aligned_cols=140  Identities=17%  Similarity=0.137  Sum_probs=93.6

Q ss_pred             chhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----------------------------CChhHHHHH
Q 045917           21 QLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----------------------------PPLFAYNTL   70 (162)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----------------------------~~~~~~~~l   70 (162)
                      .++..+...|+.|+..||.+++..|| .|+++.|- +|.-|+                             |..-+|+.+
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            57788999999999999999999999 99999998 777552                             567789999


Q ss_pred             HHHHHcCCCchHHHHHHHH-HHH-------cCCC-----------------CCCccHHH--HHHHhhh--------h---
Q 045917           71 IRAYAKTSCSIESIKLFDE-MLK-------TGLR-----------------PDNLTYPF--VVKASDQ--------C---  112 (162)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~-m~~-------~~~~-----------------p~~~t~~~--li~~~~~--------~---  112 (162)
                      ..+|..+||+.. ++..++ |..       .|+.                 ||..+-..  +.+++..        .   
T Consensus        90 l~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvs  168 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVS  168 (1088)
T ss_pred             HHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcc
Confidence            999999999876 333333 321       1211                 22221111  0111100        0   


Q ss_pred             --------------ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcccCC
Q 045917          113 --------------LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMPE  162 (162)
Q Consensus       113 --------------~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~~  162 (162)
                                    .+....+++.....+..-.|+..++..++++-...|+++.|..++.+|++
T Consensus       169 a~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  169 AWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             cccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence                          01122222322222222258999999999999999999999999999974

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.55  E-value=5.1e-06  Score=66.07  Aligned_cols=47  Identities=17%  Similarity=-0.048  Sum_probs=19.5

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhh
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNV   60 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m   60 (162)
                      .|+.++|...++...+.. +.++..+..+...+. .|+.++|...++.+
T Consensus       123 ~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~  170 (656)
T PRK15174        123 SKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQ  170 (656)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            344444444444443321 112333344444444 55555554444433

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

Probab=98.54  E-value=1.3e-06  Score=53.08  Aligned_cols=82  Identities=15%  Similarity=0.027  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCC-CCCCccHHHHHHHhhhhc--------cchhhhHHHHHHHHHhcCcchhH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGL-RPDNLTYPFVVKASDQCL--------LIGVGGSVHSLIFKVGLHSDKYI  136 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~t~~~li~~~~~~~--------~~~~a~~i~~~~~~~~~~~~~~~  136 (162)
                      |-...|..+...+++.....+|+.+++.|+ .|+..+|+.++++.++..        .+-....++++|...+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            445567777777999999999999999999 999999999999988753        24456678999999999999999


Q ss_pred             HHHHHHHHHhc
Q 045917          137 GNTLLRMYAAC  147 (162)
Q Consensus       137 ~~~ll~~y~~~  147 (162)
                      |+.++..+.+.
T Consensus       107 Ynivl~~Llkg  117 (120)
T PF08579_consen  107 YNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHh
Confidence            99999987664

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 [, , ].

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.54  E-value=4.5e-06  Score=66.36  Aligned_cols=89  Identities=13%  Similarity=0.094  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchh-HHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKY-IGNTLLRM  143 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~-~~~~ll~~  143 (162)
                      .+..+-..+.+.|++++|...+++..+.  .|+ ...+..+...+.+.|++++|...+..+....  |+.. .+..+-.+
T Consensus       286 a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~a  361 (656)
T PRK15174        286 IVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAA  361 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHH
Confidence            4444444444444444444444444332  122 1223333444444455555544444444331  2221 12222334


Q ss_pred             HHhcCChhHHHHhhc
Q 045917          144 YAACKEIDFAKALFD  158 (162)
Q Consensus       144 y~~~g~~~~a~~~~~  158 (162)
                      |...|+.++|...|+
T Consensus       362 l~~~G~~deA~~~l~  376 (656)
T PRK15174        362 LLQAGKTSEAESVFE  376 (656)
T ss_pred             HHHCCCHHHHHHHHH
Confidence            445555555555444

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

Probab=98.54  E-value=2.5e-07  Score=66.01  Aligned_cols=123  Identities=10%  Similarity=0.036  Sum_probs=59.8

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFV  105 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~l  105 (162)
                      ++..+...+..+. .++.+.+..+++...      .+...|..+-..+.+.|+.++|++.|++..+  ..|+ ......+
T Consensus       109 ~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~--~~P~~~~~~~~l  186 (280)
T PF13429_consen  109 DPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALE--LDPDDPDARNAL  186 (280)
T ss_dssp             ---------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHH--H-TT-HHHHHHH
T ss_pred             ccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHH
Confidence            3334444555555 555555555555543      2444555555555566666666666666544  2233 3334555


Q ss_pred             HHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +..+...|+.+++..++....+.. +.|...+..+-.+|...|+.++|...|++
T Consensus       187 ~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~  239 (280)
T PF13429_consen  187 AWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEK  239 (280)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccc
Confidence            555556666665555555554442 34455556666666666666666666543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.52  E-value=1.4e-07  Score=45.12  Aligned_cols=33  Identities=12%  Similarity=0.092  Sum_probs=28.4

Q ss_pred             ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCc
Q 045917          100 LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS  132 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~  132 (162)
                      .||+++|++|++.|+++.|.+++++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578888888888888888888888888888876

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

Probab=98.48  E-value=1.2e-05  Score=63.49  Aligned_cols=142  Identities=10%  Similarity=-0.102  Sum_probs=92.0

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      |+.++|...++...... +-....|..+-..+. .|++++|...|+...    .+...|..+-..+...|++++|...|+
T Consensus       345 g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~  423 (615)
T TIGR00990       345 GKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQ  423 (615)
T ss_pred             CCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55666666666654432 112344555555566 777777777777654    345667777777777777777777777


Q ss_pred             HHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           89 EMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        89 ~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +..+.  .|+ ...+..+...+.+.|++++|...+....+.. +.+...++.+-..|...|++++|.+.|++
T Consensus       424 kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~  492 (615)
T TIGR00990       424 KSIDL--DPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDT  492 (615)
T ss_pred             HHHHc--CccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            76553  233 3445556666677777888887777766542 33466777777788888888888777654

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

Probab=98.48  E-value=3.4e-06  Score=63.15  Aligned_cols=118  Identities=12%  Similarity=0.084  Sum_probs=99.1

Q ss_pred             cCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--C-----ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCcc
Q 045917           30 SLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--P-----PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLT  101 (162)
Q Consensus        30 ~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t  101 (162)
                      +.+.++....++++.+. ..+++++..++-..+  |     -..|..++|+.|.+.|..+.++.+++.=.+.|+-||..|
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            35567778888888888 888999999888776  2     244667999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc
Q 045917          102 YPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC  147 (162)
Q Consensus       102 ~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~  147 (162)
                      ||.|++.+.+.|++..|.++...|...+...+..|+.--+.++.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999998887776666667766555555554

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 [].

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

Probab=98.47  E-value=8.7e-08  Score=44.85  Aligned_cols=28  Identities=32%  Similarity=0.412  Sum_probs=24.0

Q ss_pred             hHHHHHHHHHHhcCChhHHHHhhcccCC
Q 045917          135 YIGNTLLRMYAACKEIDFAKALFDEMPE  162 (162)
Q Consensus       135 ~~~~~ll~~y~~~g~~~~a~~~~~~m~~  162 (162)
                      ++|+.++++|++.|++++|.++|++|++
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~   28 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRE   28 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhH
Confidence            4788999999999999999999988864

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.

>PRK12370 invasion protein regulator; Provisional

Probab=98.47  E-value=9.7e-06  Score=63.32  Aligned_cols=142  Identities=11%  Similarity=-0.024  Sum_probs=98.6

Q ss_pred             hhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           16 AHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      ..+|...++...... +-++..+..+-..+. .|++++|...|++..   |+ ...|..+-..+...|++++|...+++.
T Consensus       320 ~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~A  398 (553)
T PRK12370        320 MIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINEC  398 (553)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            456666666655443 224555666655666 899999999998876   54 556777778888899999999999998


Q ss_pred             HHcCCCCCCc-cHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           91 LKTGLRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        91 ~~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+.  .|+.. .+..+...+...|++++|...+....+...+-+...+..+-.+|...|+.++|.+.+.+.
T Consensus       399 l~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~  467 (553)
T PRK12370        399 LKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEI  467 (553)
T ss_pred             Hhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHh
Confidence            664  34432 223334445667888889888888765532223455667777888899999999888764

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.46  E-value=1.3e-05  Score=66.24  Aligned_cols=147  Identities=10%  Similarity=-0.028  Sum_probs=102.3

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCCCchHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~~~~~a~   84 (162)
                      ++...|+.++|.+.++...+.. +.....+..+..... .|++++|...+++..   |+...|..+-..+.+.|+.++|.
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~  629 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAV  629 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            3444567777777777776543 112222222222222 488888888888776   77778888888888888888888


Q ss_pred             HHHHHHHHcCCCCCCc-cHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           85 KLFDEMLKTGLRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..|++..+.  .|+.. .++.+-..+...|+.++|...+....+.. +-+...+..+-.+|...|++++|...|++
T Consensus       630 ~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~  702 (987)
T PRK09782        630 SDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARL  702 (987)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            888887653  35443 44556667888888888888888877753 23567788888888899999988888765

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

Probab=98.46  E-value=7.6e-06  Score=64.66  Aligned_cols=145  Identities=10%  Similarity=-0.081  Sum_probs=115.6

Q ss_pred             hchhhhcchhHHHHHhc-CCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHH
Q 045917           14 KTAHHHHQLPALFLKTS-LDH-NTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~-~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      ++.++|.+.++.....+ ..| ....++.+-..+. .|++++|...|+...   |+ ...|..+-..+...|++++|...
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~  387 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEED  387 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            46778888888887665 334 3455666666777 999999999999876   54 55788888889999999999999


Q ss_pred             HHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           87 FDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        87 ~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |++..+.. +-+...|..+-..+...|++++|...+....+.. +.+...+..+-.+|.+.|++++|...|++.
T Consensus       388 ~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~a  459 (615)
T TIGR00990       388 FDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRC  459 (615)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99987642 2345677888888999999999999999988764 335677888888999999999999998753

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

Probab=98.38  E-value=1.2e-05  Score=59.79  Aligned_cols=122  Identities=12%  Similarity=0.064  Sum_probs=96.8

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhcc
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLL  114 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~  114 (162)
                      ....|++.+. .++++.|..+|+++. .++...-.+...+...++-.+|.+++.+..+. .+-+......-.+.+.+.++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCC
Confidence            3455666666 899999999999998 44455666888888889999999999998743 22233444444567888999


Q ss_pred             chhhhHHHHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917          115 IGVGGSVHSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       115 ~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      .+.|..+.+...+.  .|+ ..+|..|..+|.+.|++++|.-.++.+|
T Consensus       250 ~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  250 YELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999998876  355 5699999999999999999999998876

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

>PRK12370 invasion protein regulator; Provisional

Probab=98.34  E-value=2.7e-05  Score=60.82  Aligned_cols=147  Identities=14%  Similarity=-0.053  Sum_probs=103.5

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChh-HHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLF-AYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~-~~~~li~~~~~~~~~~   81 (162)
                      ..++...|+.++|...++...+.+ +.++..+..+-..+. .|+.++|...++...   |+.. .+..+...+...|+++
T Consensus       345 g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~e  423 (553)
T PRK12370        345 GLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGID  423 (553)
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHH
Confidence            344556688899999999887765 334556666667777 999999999999986   5532 3334444566789999


Q ss_pred             HHHHHHHHHHHcCCCCCCc-cHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           82 ESIKLFDEMLKTGLRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +|...+++..... .|+.. .+..+-..+...|+.++|...+..+...  .|+ ....+.+-..|+..|  +.|...+++
T Consensus       424 eA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~  498 (553)
T PRK12370        424 DAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIRE  498 (553)
T ss_pred             HHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHH
Confidence            9999999986543 34433 3566777788899999999998876543  333 444555666777777  466666554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.33  E-value=5.2e-05  Score=61.49  Aligned_cols=152  Identities=7%  Similarity=-0.070  Sum_probs=119.7

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSC   79 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~   79 (162)
                      -++.+....|+.++|.+++....... +.+...+..+-..+. .|++++|..+|+...   | +...+..+...+...|+
T Consensus        20 d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         20 DWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC
Confidence            35666777789999998888876522 334445777777788 999999999999964   4 46677888889999999


Q ss_pred             chHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           80 SIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +++|...+++..+.  .|+...+..+...+...|+.++|...++.+.+... -+...+..+...+...|..+.|.+.++.
T Consensus        99 ~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~e~Al~~l~~  175 (765)
T PRK10049         99 YDEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLSAPALGAIDD  175 (765)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCChHHHHHHHHh
Confidence            99999999998765  34333377788888899999999999999988742 3456666788888899999999988775


Q ss_pred             c
Q 045917          160 M  160 (162)
Q Consensus       160 m  160 (162)
                      .
T Consensus       176 ~  176 (765)
T PRK10049        176 A  176 (765)
T ss_pred             C
Confidence            4

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.27  E-value=4.8e-05  Score=62.92  Aligned_cols=144  Identities=8%  Similarity=-0.105  Sum_probs=80.9

Q ss_pred             HHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CCh-hHHHHHHHHHHcCCCchHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPL-FAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~-~~~~~li~~~~~~~~~~~a~~   85 (162)
                      ...|+.++|...++.+...  +|+...+..+-..+. .|+.++|...|+...   |+. ..+..+.....+.|++++|..
T Consensus       520 ~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~  597 (987)
T PRK09782        520 YQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALN  597 (987)
T ss_pred             HHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHH
Confidence            3455666666666654332  233333333334444 667777776666655   222 111122222333477777777


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .|++..+  +.|+...+..+-..+.+.|+.++|...+....... +-+...+..+-..+...|+.++|...|++
T Consensus       598 ~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~  668 (987)
T PRK09782        598 DLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLER  668 (987)
T ss_pred             HHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            7766654  23455566666667777777777777777766653 22355556666677777777777766653

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=98.23  E-value=7.9e-05  Score=60.47  Aligned_cols=147  Identities=4%  Similarity=-0.111  Sum_probs=106.2

Q ss_pred             HHhhchhhhcchhHHHHHhcCC-CchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-----hhHHHHHHHHHHcCCCc
Q 045917           11 QLSKTAHHHHQLPALFLKTSLD-HNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-----LFAYNTLIRAYAKTSCS   80 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-----~~~~~~li~~~~~~~~~   80 (162)
                      -..++.++|...++.+.+.+.+ |+- ....+-..|. .|++++|...|+...   |.     ......+..++...|++
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~  326 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENY  326 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccH
Confidence            3447788899999998877632 321 1222344666 999999999999875   32     23456677788899999


Q ss_pred             hHHHHHHHHHHHcC-----------CCCCCc---cHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           81 IESIKLFDEMLKTG-----------LRPDNL---TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        81 ~~a~~~~~~m~~~~-----------~~p~~~---t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      ++|...++++....           -.|+..   .+..+...+...|+.++|.++++.+.... +.+...+..+...+.+
T Consensus       327 ~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~  405 (765)
T PRK10049        327 PGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQA  405 (765)
T ss_pred             HHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            99999999987642           113321   23456677788899999999998887653 4457788888888888


Q ss_pred             cCChhHHHHhhcc
Q 045917          147 CKEIDFAKALFDE  159 (162)
Q Consensus       147 ~g~~~~a~~~~~~  159 (162)
                      .|++++|++.+++
T Consensus       406 ~g~~~~A~~~l~~  418 (765)
T PRK10049        406 RGWPRAAENELKK  418 (765)
T ss_pred             cCCHHHHHHHHHH
Confidence            9999998888775

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.22  E-value=5.7e-05  Score=63.87  Aligned_cols=145  Identities=11%  Similarity=-0.054  Sum_probs=110.6

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~   82 (162)
                      ..+...|+.++|..+++     ..+.++..+..+-..+. .|+.++|...|+...    .+...+..+...|...|+.++
T Consensus       581 ~~l~~~G~~~eA~~~l~-----~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~e  655 (1157)
T PRK11447        581 NRLRDSGKEAEAEALLR-----QQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAA  655 (1157)
T ss_pred             HHHHHCCCHHHHHHHHH-----hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHH
Confidence            34555677788887766     23455566666777777 999999999999887    457889999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCC-ccHHHHHHHhhhhccchhhhHHHHHHHHHhc--Cc---chhHHHHHHHHHHhcCChhHHHHh
Q 045917           83 SIKLFDEMLKTGLRPDN-LTYPFVVKASDQCLLIGVGGSVHSLIFKVGL--HS---DKYIGNTLLRMYAACKEIDFAKAL  156 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~--~~---~~~~~~~ll~~y~~~g~~~~a~~~  156 (162)
                      |.+.++...+  ..|+. .+...+...+...|+.++|.++++.+.....  .|   +..++..+-..|.+.|+.++|.+.
T Consensus       656 A~~~l~~ll~--~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~  733 (1157)
T PRK11447        656 ARAQLAKLPA--TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALET  733 (1157)
T ss_pred             HHHHHHHHhc--cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999997754  34443 3345566777889999999999999876532  12   224566667889999999999998


Q ss_pred             hcc
Q 045917          157 FDE  159 (162)
Q Consensus       157 ~~~  159 (162)
                      |++
T Consensus       734 y~~  736 (1157)
T PRK11447        734 YKD  736 (1157)
T ss_pred             HHH
Confidence            865

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.20  E-value=0.00014  Score=58.20  Aligned_cols=149  Identities=6%  Similarity=-0.056  Sum_probs=114.7

Q ss_pred             HHHHHhhchhhhcchhHHHH--HhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCc
Q 045917            8 TLIQLSKTAHHHHQLPALFL--KTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~--~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~   80 (162)
                      .++.+.+.+..+..-+..++  .+..+.++..+-.|-.... .|..++|+.+++...   |+ ...+..+...+.+.+++
T Consensus        57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~  136 (694)
T PRK15179         57 QVLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGI  136 (694)
T ss_pred             HHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccH
Confidence            34444444444444443333  2445666777777777777 999999999999887   65 66788889999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCCccH-HHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           81 IESIKLFDEMLKTGLRPDNLTY-PFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~-~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ++|+..+++..+  ..|+..+. ..+-.++.+.|++++|..+|+.+...+ .-+...+.++=.++-+.|+.++|...|++
T Consensus       137 eeA~~~~~~~l~--~~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~  213 (694)
T PRK15179        137 EAGRAEIELYFS--GGSSSAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQA  213 (694)
T ss_pred             HHHHHHHHHHhh--cCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999999866  45666655 555677888999999999999999843 23478899999999999999999998875

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.18  E-value=0.0002  Score=53.80  Aligned_cols=116  Identities=10%  Similarity=-0.046  Sum_probs=69.8

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc-cHHHHHHHhhhh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL-TYPFVVKASDQC  112 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~li~~~~~~  112 (162)
                      ...+-..+. .|+.++|.+++++.-   ++.  --.++.+....++.+++++..+...+.  .|+.. ...++-..|.+.
T Consensus       266 ~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~--~l~~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~  341 (398)
T PRK10747        266 QVAMAEHLIECDDHDTAQQIILDGLKRQYDE--RLVLLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKH  341 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH--HHHHHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHC
Confidence            333344444 555566655555443   222  111233333446666666666655432  23333 355666777777


Q ss_pred             ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          113 LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       113 ~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +++++|++.++...+.  .|+...+..+-..+.+.|+.++|.+.+.+
T Consensus       342 ~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        342 GEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             CCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888888888777764  57777777888888888888888777653

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

Probab=98.16  E-value=7.2e-06  Score=58.87  Aligned_cols=120  Identities=7%  Similarity=-0.046  Sum_probs=55.3

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC---CC---hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM---PP---LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASD  110 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~---~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  110 (162)
                      ....+..|. .++++.|.+.++.|+   .|   +....+.++.+.-.+++.+|.-+|+++.+ ...+++.+.+.+..++.
T Consensus       134 ~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~-~~~~t~~~lng~A~~~l  212 (290)
T PF04733_consen  134 LALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD-KFGSTPKLLNGLAVCHL  212 (290)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC-CS--SHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh-ccCCCHHHHHHHHHHHH
Confidence            344455555 666666666666665   22   12222333333333456666666666533 23445555555555555


Q ss_pred             hhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh-hHHHHhhcc
Q 045917          111 QCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI-DFAKALFDE  159 (162)
Q Consensus       111 ~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~-~~a~~~~~~  159 (162)
                      ..|++++|+++..+..... +-+..+.-.++-+..-.|.. +.+.+.+.+
T Consensus       213 ~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~q  261 (290)
T PF04733_consen  213 QLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQ  261 (290)
T ss_dssp             HCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            5666666666555543322 22344444444444444444 444444443

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.16  E-value=0.00023  Score=57.98  Aligned_cols=152  Identities=6%  Similarity=-0.039  Sum_probs=123.5

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----------CChhHHHHHHHHHH
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----------PPLFAYNTLIRAYA   75 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----------~~~~~~~~li~~~~   75 (162)
                      +-+|..-++..++.+-|+.+...+.+...++-..+-++|. .++.++|+.+|+...          ++......|..+|.
T Consensus       299 l~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~l  378 (822)
T PRK14574        299 LGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLN  378 (822)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHH
Confidence            4556677788999999999999998888889999999999 999999999999874          12333578999999


Q ss_pred             cCCCchHHHHHHHHHHHcCC-----------C--CCCcc-HHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH
Q 045917           76 KTSCSIESIKLFDEMLKTGL-----------R--PDNLT-YPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL  141 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~-----------~--p~~~t-~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll  141 (162)
                      ..+++++|..+++++.+..-           .  ||... +..++..+...|++.+|++.++.+.... +-|..+...+-
T Consensus       379 d~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A  457 (822)
T PRK14574        379 ESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALA  457 (822)
T ss_pred             hcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            99999999999999987311           1  22222 2345677888999999999999997654 56789999999


Q ss_pred             HHHHhcCChhHHHHhhcc
Q 045917          142 RMYAACKEIDFAKALFDE  159 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~  159 (162)
                      +.+...|.+..|++.++.
T Consensus       458 ~v~~~Rg~p~~A~~~~k~  475 (822)
T PRK14574        458 SIYLARDLPRKAEQELKA  475 (822)
T ss_pred             HHHHhcCCHHHHHHHHHH
Confidence            999999999999998854

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

Probab=98.15  E-value=1.4e-05  Score=63.71  Aligned_cols=89  Identities=9%  Similarity=-0.008  Sum_probs=80.0

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL  141 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll  141 (162)
                      |++.+|.+++..-..+|+.+.|..++.+|++.|+..+.+-|-.|+-+   .++...++.+.+.|...|+.|+..|+.-.+
T Consensus       202 ~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  202 PTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             CChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHH
Confidence            89999999999999999999999999999999999999998888877   778889999999999999999999998888


Q ss_pred             HHHHhcCChhHH
Q 045917          142 RMYAACKEIDFA  153 (162)
Q Consensus       142 ~~y~~~g~~~~a  153 (162)
                      ....++|....+
T Consensus       279 ip~l~N~~t~~~  290 (1088)
T KOG4318|consen  279 IPQLSNGQTKYG  290 (1088)
T ss_pred             Hhhhcchhhhhc
Confidence            777776664443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.14  E-value=9.4e-05  Score=55.57  Aligned_cols=27  Identities=11%  Similarity=0.228  Sum_probs=18.7

Q ss_pred             chhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          133 DKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       133 ~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ++.....+...+...|+.++|.+++++
T Consensus       262 ~~~~~~~~A~~l~~~g~~~~A~~~L~~  288 (398)
T PRK10747        262 QVALQVAMAEHLIECDDHDTAQQIILD  288 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            455566667777778888887777654

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

Probab=98.13  E-value=1.8e-05  Score=59.38  Aligned_cols=98  Identities=13%  Similarity=0.076  Sum_probs=80.5

Q ss_pred             chhhhcchhHHHHHh--cCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcCCCchHHHHH
Q 045917           15 TAHHHHQLPALFLKT--SLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~--~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      +++++..++-.++..  ....-+.|..++++.|. .|..+.+..+++.=.     ||.+++|.+|..+.+.|++..|.++
T Consensus        81 ~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V  160 (429)
T PF10037_consen   81 DLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKV  160 (429)
T ss_pred             HHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHH
Confidence            445566655555443  23344566679999999 999999999999754     9999999999999999999999999


Q ss_pred             HHHHHHcCCCCCCccHHHHHHHhhhh
Q 045917           87 FDEMLKTGLRPDNLTYPFVVKASDQC  112 (162)
Q Consensus        87 ~~~m~~~~~~p~~~t~~~li~~~~~~  112 (162)
                      ..+|...+.-.+..|+..-+.+|.+.
T Consensus       161 ~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  161 ATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999888888889988888887776

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

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

Probab=98.12  E-value=2.7e-05  Score=52.89  Aligned_cols=97  Identities=11%  Similarity=0.096  Sum_probs=58.0

Q ss_pred             HHHHhhhhC---CChhHHHHHHHHHHc-----CCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhc-----------
Q 045917           53 TRSLFNNVM---PPLFAYNTLIRAYAK-----TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCL-----------  113 (162)
Q Consensus        53 a~~~~~~m~---~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~-----------  113 (162)
                      ....|+...   .+-.+|..+|..|.+     +|.++-....++.|.+-|+.-|..+|+.|++.+-+..           
T Consensus        33 ~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F  112 (228)
T PF06239_consen   33 HEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEF  112 (228)
T ss_pred             hHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHh
Confidence            344455442   555666666666554     3556666666666666666666666666666665521           


Q ss_pred             -----cchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCC
Q 045917          114 -----LIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus       114 -----~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~  149 (162)
                           .-+-|.++.++|...|+.||..++..|++.|.+.+.
T Consensus       113 ~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  113 MHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 123455666677777777777777777766665443

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.09  E-value=0.00018  Score=60.93  Aligned_cols=148  Identities=7%  Similarity=-0.016  Sum_probs=80.8

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~   84 (162)
                      +...|+.++|.+.++...+... -++..+..+-..|. .|++++|...++...   |+ ...+-.+-..+...++.++|.
T Consensus       471 ~~~~g~~~eA~~~~~~Al~~~P-~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al  549 (1157)
T PRK11447        471 LENQGKWAQAAELQRQRLALDP-GSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAAL  549 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHH
Confidence            3345677788887777765432 23445556666667 888888888887763   32 222221111222233333333


Q ss_pred             HHHHHHHHc---------------------------------------CCCCCCccHHHHHHHhhhhccchhhhHHHHHH
Q 045917           85 KLFDEMLKT---------------------------------------GLRPDNLTYPFVVKASDQCLLIGVGGSVHSLI  125 (162)
Q Consensus        85 ~~~~~m~~~---------------------------------------~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~  125 (162)
                      ..++.+...                                       ..+.+...+..+-..+.+.|+.++|...++.+
T Consensus       550 ~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~a  629 (1157)
T PRK11447        550 AHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRV  629 (1157)
T ss_pred             HHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            333221100                                       11233344455566666667777777777666


Q ss_pred             HHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          126 FKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       126 ~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+.. +.+...+..+...|.+.|+.++|.+.++.
T Consensus       630 l~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~  662 (1157)
T PRK11447        630 LTRE-PGNADARLGLIEVDIAQGDLAAARAQLAK  662 (1157)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            6543 23456666666677777777777666654

>TIGR00540 hemY_coli hemY protein

Probab=98.05  E-value=0.0008  Score=50.79  Aligned_cols=124  Identities=9%  Similarity=-0.108  Sum_probs=71.6

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHH-HHHHHH--HcCCCchHHHHHHHHHHHcCCCCCCc--c-HH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYN-TLIRAY--AKTSCSIESIKLFDEMLKTGLRPDNL--T-YP  103 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~-~li~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~--t-~~  103 (162)
                      ++..+..+...+. .|+.++|..++++..   ||..... .++..+  ...++.+.+.+.++...+  ..|+..  . ..
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk--~~p~~~~~~ll~  339 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAK--NVDDKPKCCINR  339 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHH--hCCCChhHHHHH
Confidence            4444444555555 666666666666554   3332100 022222  223455555555544432  234444  2 33


Q ss_pred             HHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          104 FVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       104 ~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ++-..+.+.|++++|.+.++........|+...+..+-..+.+.|+.++|.+++++
T Consensus       340 sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       340 ALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             HHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55666677788888888887544544567777777888888888888888887764

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.

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

Probab=98.04  E-value=5.5e-05  Score=54.37  Aligned_cols=111  Identities=11%  Similarity=-0.051  Sum_probs=86.2

Q ss_pred             hhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh----hccchhh
Q 045917           44 TSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ----CLLIGVG  118 (162)
Q Consensus        44 ~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~~~~~~a  118 (162)
                      .+. .|++++|.++++.. .+.......+..|.+.++++.|.+.++.|.+.   -+..+...+..+...    ...+.+|
T Consensus       111 i~~~~~~~~~AL~~l~~~-~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~---~eD~~l~qLa~awv~l~~g~e~~~~A  186 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG-GSLELLALAVQILLKMNRPDLAEKELKNMQQI---DEDSILTQLAEAWVNLATGGEKYQDA  186 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT-TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC---SCCHHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             HHHHcCCHHHHHHHHHcc-CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcHHHHHHHHHHHHHHhCchhHHHH
Confidence            344 89999999998875 45667778889999999999999999999865   244555556655544    2368999


Q ss_pred             hHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          119 GSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       119 ~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+|+++... +.+++.+.+.+..+....|++++|.+++.+
T Consensus       187 ~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~  226 (290)
T PF04733_consen  187 FYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEE  226 (290)
T ss_dssp             HHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            9999998664 567889999999999999999999998765

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.98  E-value=0.00033  Score=57.10  Aligned_cols=143  Identities=11%  Similarity=-0.066  Sum_probs=80.5

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHH---HHHHHcCCCchHHHHHH
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTL---IRAYAKTSCSIESIKLF   87 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~l---i~~~~~~~~~~~a~~~~   87 (162)
                      .|+...|.+.+.+..+....-.+..+ .++..+. .|+.++|...++... |+...+..+   ...|...|++++|.++|
T Consensus        47 ~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely  125 (822)
T PRK14574         47 AGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALW  125 (822)
T ss_pred             CCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            35666677766666554432222233 6666677 777777777777776 432222222   33556667777777777


Q ss_pred             HHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           88 DEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        88 ~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +++.+..  |+ ...+..++..+...++.++|.+.+..+.+.  .|+...+-.++..+...++..+|.+.++++
T Consensus       126 ~kaL~~d--P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        126 QSSLKKD--PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHhhC--CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            7775532  22 233445566666677777777766666554  344444433333333344444466666554

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

Probab=97.96  E-value=0.00065  Score=47.32  Aligned_cols=122  Identities=8%  Similarity=-0.069  Sum_probs=95.5

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHh
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  109 (162)
                      ........+... .|++..|...|++..    +|..+||.+=-+|.+.|++++|..-|.+..+... -+....+.+--.+
T Consensus       100 ~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~  178 (257)
T COG5010         100 RELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSL  178 (257)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHH
Confidence            334455667777 899999999998886    7888999999999999999999998888766321 2344567777778


Q ss_pred             hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          110 DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       110 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      .-.|+.+.|+.++......+. -|..+-..|.......|++++|+.+-.
T Consensus       179 ~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         179 LLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             HHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            888999999998877776643 367778888889999999999988754

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

Probab=97.96  E-value=0.00076  Score=49.57  Aligned_cols=148  Identities=9%  Similarity=-0.067  Sum_probs=99.2

Q ss_pred             HHhhchhhhcchhHHHHHhcCCCchhHHH---HHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDHNTYIIS---RFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~   82 (162)
                      ...|+.++|..+++...... +.+...+.   ....... .+....+.+.+....   |+ ......+-..+...|++++
T Consensus        54 ~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~  132 (355)
T cd05804          54 WIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDR  132 (355)
T ss_pred             HHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHH
Confidence            33467888888888776553 33333333   1222222 566666666665433   33 3344455567788999999


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhc-Ccch--hHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-HSDK--YIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-~~~~--~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      |...+++..+.. +.+...+..+-..+...|++++|...+........ .|+.  ..|..+-..|...|++++|.+++++
T Consensus       133 A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~  211 (355)
T cd05804         133 AEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDT  211 (355)
T ss_pred             HHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999987743 23345567777888899999999999888766422 1232  3456788899999999999999986


Q ss_pred             c
Q 045917          160 M  160 (162)
Q Consensus       160 m  160 (162)
                      .
T Consensus       212 ~  212 (355)
T cd05804         212 H  212 (355)
T ss_pred             H
Confidence            3

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.

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

Probab=97.94  E-value=8.9e-05  Score=45.19  Aligned_cols=65  Identities=18%  Similarity=0.413  Sum_probs=48.8

Q ss_pred             CCChHHHHHHhhhhC------CChhHHHHHHHHHHcC--------CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           47 PISLHFTRSLFNNVM------PPLFAYNTLIRAYAKT--------SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~------~~~~~~~~li~~~~~~--------~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      .+++.....+|+...      |+..+||.++.+-+++        +++-..+.+|++|...+++|+..||+.++....+
T Consensus        38 ~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Llk  116 (120)
T PF08579_consen   38 NEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLLK  116 (120)
T ss_pred             hcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            666666666666554      6666666666666654        2456778999999999999999999999988765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

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

Probab=97.93  E-value=0.00024  Score=55.36  Aligned_cols=149  Identities=10%  Similarity=0.070  Sum_probs=113.8

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSC   79 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~   79 (162)
                      -+...|.--|++.+|.+.|...+.... .-+...+.|-..|. .|.+++|.++|...-   | -...+|.+-..|-+.|+
T Consensus       325 NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgn  403 (966)
T KOG4626|consen  325 NLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGN  403 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhccc
Confidence            355667777888899998888776543 33455777888888 999999999998765   4 46778999999999999


Q ss_pred             chHHHHHHHHHHHcCCCCCC-ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHHHHhh
Q 045917           80 SIESIKLFDEMLKTGLRPDN-LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      +++|+.-|++..+  +.|+. ..++.+=+.+-..|+.+.|.+.+......  .|. ....+.|-..|-..|++.+|..-+
T Consensus       404 l~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY  479 (966)
T KOG4626|consen  404 LDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSY  479 (966)
T ss_pred             HHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHH
Confidence            9999999999865  66653 34666667777778888888877766654  344 566788888888899988887766


Q ss_pred             c
Q 045917          158 D  158 (162)
Q Consensus       158 ~  158 (162)
                      +
T Consensus       480 ~  480 (966)
T KOG4626|consen  480 R  480 (966)
T ss_pred             H
Confidence            4

>TIGR00540 hemY_coli hemY protein

Probab=97.93  E-value=0.00046  Score=52.04  Aligned_cols=145  Identities=16%  Similarity=0.092  Sum_probs=74.3

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      |+.+.|.+.+....+....+.....-.....+. .|+.+.|...++.+.   | +......+...+...|++++|.+++.
T Consensus       132 g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~  211 (409)
T TIGR00540       132 GDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIID  211 (409)
T ss_pred             CCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            555566666655543321111112222234444 666666666666665   3 44556666666666777777777777


Q ss_pred             HHHHcCCCCCCccHH-HHHHHh---hhhccchhhhHHHHHHHHHhc---CcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           89 EMLKTGLRPDNLTYP-FVVKAS---DQCLLIGVGGSVHSLIFKVGL---HSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        89 ~m~~~~~~p~~~t~~-~li~~~---~~~~~~~~a~~i~~~~~~~~~---~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ...+.++.+. ..+. .-..+.   ...+..+.+.+....+.+...   +.+...+..+...+...|+.+.|.+++++
T Consensus       212 ~l~k~~~~~~-~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~  288 (409)
T TIGR00540       212 NMAKAGLFDD-EEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFD  288 (409)
T ss_pred             HHHHcCCCCH-HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence            7666554322 2121 111111   111122222222222222211   12667777788888888888888887765

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.91  E-value=0.00031  Score=45.22  Aligned_cols=96  Identities=8%  Similarity=-0.098  Sum_probs=72.9

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHH
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVK  107 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  107 (162)
                      .++..+..+-..+. .|++++|...|+...    .+...|..+-..+.+.|++++|...|+...+.. +.+...+..+-.
T Consensus        22 ~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~  100 (144)
T PRK15359         22 VDPETVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGV  100 (144)
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            33333444444555 899999999998876    467788888888888999999999999987632 345666777778


Q ss_pred             HhhhhccchhhhHHHHHHHHHh
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      ++...|+.++|...+....+..
T Consensus       101 ~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        101 CLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            8888999999999998887753

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

Probab=97.88  E-value=0.00027  Score=50.64  Aligned_cols=136  Identities=7%  Similarity=0.005  Sum_probs=102.6

Q ss_pred             hHHHHHHHHhhchhhhcchhHHHHHhc-CCCchhHHHHHHHhhCCCChHHHHHHhhhhC----CChhHHHHHHHHHHcCC
Q 045917            4 RQIETLIQLSKTAHHHHQLPALFLKTS-LDHNTYIISRFILTSLPISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTS   78 (162)
Q Consensus         4 ~~~~~~l~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~   78 (162)
                      -.++.++.+.++.+.|+.+|...++.+ +....+...+++..++.++.+.|.++|+...    .+..-|...+..+.+.+
T Consensus         5 i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~~~~   84 (280)
T PF05843_consen    5 IQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFLIKLN   84 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhC
Confidence            356677777788999999999998654 4577788888887777888888999999876    67788999999999999


Q ss_pred             CchHHHHHHHHHHHcCCCCCC---ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           79 CSIESIKLFDEMLKTGLRPDN---LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~---~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      +.+.|..+|+..... +.++.   ..|..+++.=.+.|+++.+.++...+.+.  .|+......+++
T Consensus        85 d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen   85 DINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             -HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             cHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            999999999998755 33333   47899999999999999999998887764  344333333333

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.80  E-value=0.00054  Score=52.77  Aligned_cols=153  Identities=14%  Similarity=0.076  Sum_probs=106.5

Q ss_pred             HHHHHHhhchhhhcchhHHHH----H-hcC-CCc-hhHHHHHHHhhC-CCChHHHHHHhhhhC--------CC----hhH
Q 045917            7 ETLIQLSKTAHHHHQLPALFL----K-TSL-DHN-TYIISRFILTSL-PISLHFTRSLFNNVM--------PP----LFA   66 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~----~-~~~-~~~-~~~~~~ll~~~~-~~~~~~a~~~~~~m~--------~~----~~~   66 (162)
                      ..++.+.|++.+|+...+...    + .+. .|. ....+.+...++ .+++++|..+++..-        ++    .-+
T Consensus       290 a~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~  369 (508)
T KOG1840|consen  290 AVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKI  369 (508)
T ss_pred             HHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHH
Confidence            344556678887766544332    2 121 122 234566666777 999999999888553        22    456


Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHc---C---CCCC-CccHHHHHHHhhhhccchhhhHHHHHH----HHHhc-Ccc-
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLKT---G---LRPD-NLTYPFVVKASDQCLLIGVGGSVHSLI----FKVGL-HSD-  133 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~---~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~----~~~~~-~~~-  133 (162)
                      ++.|=..|.+.|++++|.++|++..+.   +   ..+. -..++.|-..|.+.+..++|.++|..-    +..|. .|+ 
T Consensus       370 ~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~  449 (508)
T KOG1840|consen  370 YANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDV  449 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCch
Confidence            888999999999999999999996432   1   1222 334567788888999999898887653    33443 233 


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          134 KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       134 ~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+|..|...|.+.|++|+|.++.+.
T Consensus       450 ~~~~~nL~~~Y~~~g~~e~a~~~~~~  475 (508)
T KOG1840|consen  450 TYTYLNLAALYRAQGNYEAAEELEEK  475 (508)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            67899999999999999999988653

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.76  E-value=0.0037  Score=45.18  Aligned_cols=80  Identities=9%  Similarity=-0.119  Sum_probs=44.1

Q ss_pred             HhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      ..|+.++|...+....+.. +.++..|+.+-..+. .|++++|...|+...   | +..+|..+-..+...|++++|.+.
T Consensus        76 ~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~  154 (296)
T PRK11189         76 SLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDD  154 (296)
T ss_pred             HCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3355555655555554432 223455555555555 666666666666554   3 244555555555556666666666


Q ss_pred             HHHHHH
Q 045917           87 FDEMLK   92 (162)
Q Consensus        87 ~~~m~~   92 (162)
                      |+.-.+
T Consensus       155 ~~~al~  160 (296)
T PRK11189        155 LLAFYQ  160 (296)
T ss_pred             HHHHHH
Confidence            655443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.74  E-value=0.003  Score=43.81  Aligned_cols=147  Identities=9%  Similarity=-0.050  Sum_probs=96.8

Q ss_pred             HhhchhhhcchhHHHHHhcCC-C-chhHHHHHHHhhC-CCChHHHHHHhhhhC---CChh----HHHHHHHHHHcC----
Q 045917           12 LSKTAHHHHQLPALFLKTSLD-H-NTYIISRFILTSL-PISLHFTRSLFNNVM---PPLF----AYNTLIRAYAKT----   77 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~----~~~~li~~~~~~----   77 (162)
                      ..|++++|...++.+...... | ....+..+-..+. .|++++|...++...   |+..    ++..+-..+...    
T Consensus        45 ~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~  124 (235)
T TIGR03302        45 DSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRV  124 (235)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccc
Confidence            446777787777777554321 1 1234555666677 999999999999885   4322    233333333332    


Q ss_pred             ----CCchHHHHHHHHHHHcCCCCCCc-cHH-----------------HHHHHhhhhccchhhhHHHHHHHHHhc--Ccc
Q 045917           78 ----SCSIESIKLFDEMLKTGLRPDNL-TYP-----------------FVVKASDQCLLIGVGGSVHSLIFKVGL--HSD  133 (162)
Q Consensus        78 ----~~~~~a~~~~~~m~~~~~~p~~~-t~~-----------------~li~~~~~~~~~~~a~~i~~~~~~~~~--~~~  133 (162)
                          |+.++|...|++..+.  .|+.. .+.                 .+...+.+.|+..+|...+....+...  +..
T Consensus       125 ~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~  202 (235)
T TIGR03302       125 DRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPAT  202 (235)
T ss_pred             cCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcch
Confidence                6788899999888654  23322 111                 234556677899999998888876531  223


Q ss_pred             hhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          134 KYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       134 ~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ...+..+...|.+.|+.++|...++.+
T Consensus       203 ~~a~~~l~~~~~~lg~~~~A~~~~~~l  229 (235)
T TIGR03302       203 EEALARLVEAYLKLGLKDLAQDAAAVL  229 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            567889999999999999999988764

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).

>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=0.00028  Score=48.07  Aligned_cols=98  Identities=13%  Similarity=0.116  Sum_probs=68.1

Q ss_pred             CCchhHHHHHHHhhC------CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcC----------------CCchHHH
Q 045917           32 DHNTYIISRFILTSL------PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKT----------------SCSIESI   84 (162)
Q Consensus        32 ~~~~~~~~~ll~~~~------~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~----------------~~~~~a~   84 (162)
                      ..+..+|..+++.|.      .|..+-....++.|.     .|..+|+.|+..+.+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            345555666666555      233444444444443     5666666666666542                2346688


Q ss_pred             HHHHHHHHcCCCCCCccHHHHHHHhhhhcc-chhhhHHHHHHHHHh
Q 045917           85 KLFDEMLKTGLRPDNLTYPFVVKASDQCLL-IGVGGSVHSLIFKVG  129 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~~~li~~~~~~~~-~~~a~~i~~~~~~~~  129 (162)
                      +++++|.+.|+-||..|+..+++.+++.+. +.+.+++.-+|.+..
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpkfk  169 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPKFK  169 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999998775 677888888887753

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

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

Probab=97.73  E-value=0.0007  Score=43.56  Aligned_cols=121  Identities=12%  Similarity=0.032  Sum_probs=82.6

Q ss_pred             HHHHHHHhhCCCChHHHHHHhhhhC---CCh-hHHHH---HHHHHHcCCCchHHHHHHHHHHHcCCCCCCc--cHHHHHH
Q 045917           37 IISRFILTSLPISLHFTRSLFNNVM---PPL-FAYNT---LIRAYAKTSCSIESIKLFDEMLKTGLRPDNL--TYPFVVK  107 (162)
Q Consensus        37 ~~~~ll~~~~~~~~~~a~~~~~~m~---~~~-~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--t~~~li~  107 (162)
                      .|..++..+..++...+...++.+.   |+. +..-+   +-..+...|++++|...|++.....-.|+..  ..-.+..
T Consensus        14 ~y~~~~~~~~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~   93 (145)
T PF09976_consen   14 LYEQALQALQAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLAR   93 (145)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHH
Confidence            3445555444677777777777776   433 22222   3366777899999999999998876333322  2333567


Q ss_pred             HhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+...|++++|...+.......+  ....+...=+.|.+.|+.++|...|++
T Consensus        94 ~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   94 ILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            77788999999998876544433  345666777899999999999998864

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

Probab=97.72  E-value=0.00061  Score=42.97  Aligned_cols=96  Identities=9%  Similarity=-0.087  Sum_probs=66.4

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC  112 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  112 (162)
                      ...+-..+. .|+.++|...|+...    .+...|..+-..+.+.|++++|...+++....+ +.+...+..+-..+...
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHc
Confidence            334444555 888888888888765    356677777777778888888888888765543 33455566666777788


Q ss_pred             ccchhhhHHHHHHHHHhcCcchhH
Q 045917          113 LLIGVGGSVHSLIFKVGLHSDKYI  136 (162)
Q Consensus       113 ~~~~~a~~i~~~~~~~~~~~~~~~  136 (162)
                      |+.++|...+....+..  |+...
T Consensus        99 g~~~~A~~~~~~al~~~--p~~~~  120 (135)
T TIGR02552        99 GEPESALKALDLAIEIC--GENPE  120 (135)
T ss_pred             CCHHHHHHHHHHHHHhc--cccch
Confidence            88888888887777653  44444

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

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

Probab=97.69  E-value=0.0028  Score=44.21  Aligned_cols=111  Identities=9%  Similarity=-0.014  Sum_probs=92.8

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      .|+-+....+.....    .|...-++......+.|++..|...+++..+. -++|...|+.+--+|.+.|++++|+.-+
T Consensus        79 ~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~ay  157 (257)
T COG5010          79 RGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAY  157 (257)
T ss_pred             cccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHH
Confidence            677777777666644    56667777899999999999999999998653 5678999999999999999999999999


Q ss_pred             HHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          123 SLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       123 ~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+..+... -++...+.|--.|.-.|+.++|..++.+
T Consensus       158 ~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~  193 (257)
T COG5010         158 RQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLP  193 (257)
T ss_pred             HHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHH
Confidence            99888643 4578889999999999999999998753

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.69  E-value=0.0017  Score=41.78  Aligned_cols=104  Identities=6%  Similarity=-0.166  Sum_probs=79.0

Q ss_pred             HHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCc
Q 045917           54 RSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS  132 (162)
Q Consensus        54 ~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~  132 (162)
                      +.+|+... .++..+...-..+...|++++|...|+...... +.+...+..+-..+.+.|++++|...+....+.. +.
T Consensus        13 ~~~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~   90 (144)
T PRK15359         13 EDILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-AS   90 (144)
T ss_pred             HHHHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CC
Confidence            34455444 222234455667788899999999999986542 2356667788888999999999999999988764 45


Q ss_pred             chhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          133 DKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       133 ~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +...+..+-.+|...|+.++|...|++
T Consensus        91 ~~~a~~~lg~~l~~~g~~~eAi~~~~~  117 (144)
T PRK15359         91 HPEPVYQTGVCLKMMGEPGLAREAFQT  117 (144)
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            788888888999999999999988865

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

Probab=97.67  E-value=0.0076  Score=44.54  Aligned_cols=58  Identities=14%  Similarity=0.014  Sum_probs=50.3

Q ss_pred             ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          100 LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      -.+.+|=.-|.+.+.+.+|.+.++...+.  .|+..+|+-+-++|.+.|+..+|.+++++
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e  386 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRRE  386 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHH
Confidence            56677778888999999999999966554  68999999999999999999999998765

>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=97.67  E-value=0.00049  Score=39.43  Aligned_cols=91  Identities=11%  Similarity=-0.006  Sum_probs=62.9

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      |..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|.+.+....+.. +.+...+..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            4445566667788888888888876542 1222456666777777788888888887776653 2344677777788888


Q ss_pred             cCChhHHHHhhcc
Q 045917          147 CKEIDFAKALFDE  159 (162)
Q Consensus       147 ~g~~~~a~~~~~~  159 (162)
                      .|+.+.|...+.+
T Consensus        81 ~~~~~~a~~~~~~   93 (100)
T cd00189          81 LGKYEEALEAYEK   93 (100)
T ss_pred             HHhHHHHHHHHHH
Confidence            8888888877754

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

Probab=97.65  E-value=0.00077  Score=50.44  Aligned_cols=117  Identities=9%  Similarity=-0.019  Sum_probs=92.4

Q ss_pred             hHHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCC
Q 045917            4 RQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTS   78 (162)
Q Consensus         4 ~~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~   78 (162)
                      .+++.++...++.+.|..+++.+.+..  |+  ....+.+.+. .++-.+|.+++++.-   | +....+.-...+.+.+
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence            456677777789999999999998776  33  3455667777 778888888888765   3 5666666677788999


Q ss_pred             CchHHHHHHHHHHHcCCCCCCc-cHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           79 CSIESIKLFDEMLKTGLRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      +.+.|+.+.++..+  ..|+.. +|..|.++|.+.|+++.|......+.
T Consensus       249 ~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999876  456554 89999999999999999988776654

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

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

Probab=97.65  E-value=0.0015  Score=44.43  Aligned_cols=95  Identities=9%  Similarity=-0.040  Sum_probs=44.7

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHh-hhhcc--chhhhHHHHHHHHHhcCcchhHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKAS-DQCLL--IGVGGSVHSLIFKVGLHSDKYIGN  138 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~-~~~~~--~~~a~~i~~~~~~~~~~~~~~~~~  138 (162)
                      |...|..+-..|...|++++|...|++..+.  .| |...+..+-.++ ...|+  .++|.++++...+... -+...+.
T Consensus        72 ~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP-~~~~al~  148 (198)
T PRK10370         72 NSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDA-NEVTALM  148 (198)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCC-CChhHHH
Confidence            4445555555555555555555555554432  22 222233333332 33333  2555555555554432 2344445


Q ss_pred             HHHHHHHhcCChhHHHHhhccc
Q 045917          139 TLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       139 ~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+-..+.+.|++++|...|+++
T Consensus       149 ~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370        149 LLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHH
Confidence            5555555555555555555543

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

Probab=97.62  E-value=0.00095  Score=50.24  Aligned_cols=146  Identities=10%  Similarity=0.026  Sum_probs=99.3

Q ss_pred             HHhhchhhhcchhHHHHHhcC-CC-chhHHHHHHH-------------------------------hhC-CCChHHHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSL-DH-NTYIISRFIL-------------------------------TSL-PISLHFTRSL   56 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~~ll~-------------------------------~~~-~~~~~~a~~~   56 (162)
                      ....++++|+++|+.+++... .. |-.+|+.++-                               .|+ .++.++|...
T Consensus       273 y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~Y  352 (559)
T KOG1155|consen  273 YNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMY  352 (559)
T ss_pred             hhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHH
Confidence            334588889999988887642 11 3344433332                               344 5667777777


Q ss_pred             hhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCc
Q 045917           57 FNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS  132 (162)
Q Consensus        57 ~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~  132 (162)
                      |+..-   | ....|+.|=.-|....+.+.|.+-|+...+- .+.|...|-.|=++|.-.+...-|.-.++...... +-
T Consensus       353 FkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi-~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-Pn  430 (559)
T KOG1155|consen  353 FKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI-NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PN  430 (559)
T ss_pred             HHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc-CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CC
Confidence            77665   3 4566777777788888888888888877543 23466666667777777777777777776666542 34


Q ss_pred             chhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          133 DKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       133 ~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      |...|.+|=++|.+.+++++|.+.|.
T Consensus       431 DsRlw~aLG~CY~kl~~~~eAiKCyk  456 (559)
T KOG1155|consen  431 DSRLWVALGECYEKLNRLEEAIKCYK  456 (559)
T ss_pred             chHHHHHHHHHHHHhccHHHHHHHHH
Confidence            67888888888888888888887764

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.61  E-value=0.0025  Score=49.23  Aligned_cols=155  Identities=12%  Similarity=0.125  Sum_probs=107.3

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHh---cCCCchhHHHHHH----HhhC-CCChHHHHHHhhhhC--------C----Chh
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKT---SLDHNTYIISRFI----LTSL-PISLHFTRSLFNNVM--------P----PLF   65 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~ll----~~~~-~~~~~~a~~~~~~m~--------~----~~~   65 (162)
                      +...+...|+++.|.+++++..+.   +...+......++    ..|. .+++++|..+|+++-        +    -..
T Consensus       205 La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~  284 (508)
T KOG1840|consen  205 LAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAA  284 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            556667778999999888777543   1113333333333    3555 899999999999874        2    255


Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHH---c--CC-CCCCcc-HHHHHHHhhhhccchhhhHHHHHHHHH-----hc-C-
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLK---T--GL-RPDNLT-YPFVVKASDQCLLIGVGGSVHSLIFKV-----GL-H-  131 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~--~~-~p~~~t-~~~li~~~~~~~~~~~a~~i~~~~~~~-----~~-~-  131 (162)
                      +++.|=.+|.+.|++++|...+++..+   .  |. .|...+ ++.+...|+..+++++|..++....+-     |. . 
T Consensus       285 ~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~  364 (508)
T KOG1840|consen  285 TLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNV  364 (508)
T ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccch
Confidence            677777789999999999998877422   2  11 122222 456677888889999999888765431     21 1 


Q ss_pred             cchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          132 SDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       132 ~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .-..+++.|=..|-+.|++++|+++|.+.
T Consensus       365 ~~a~~~~nl~~l~~~~gk~~ea~~~~k~a  393 (508)
T KOG1840|consen  365 NLAKIYANLAELYLKMGKYKEAEELYKKA  393 (508)
T ss_pred             HHHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            22567899999999999999999998763

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

Probab=97.59  E-value=0.0036  Score=45.26  Aligned_cols=156  Identities=11%  Similarity=0.070  Sum_probs=89.1

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhc-CCCch--hHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHc
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTS-LDHNT--YIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAK   76 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~-~~~~~--~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~   76 (162)
                      |+=+++.+-|..+.|.++++-+..+. .+-..  ...-.|=+=|- .|-++.|+.+|....    .-...-.-++..|-+
T Consensus        74 tLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~  153 (389)
T COG2956          74 TLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQA  153 (389)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHH
Confidence            45566677777788888887765432 22111  11122223344 677888888887776    224455667777777


Q ss_pred             CCCchHHHHHHHHHHHcCCCCCCcc----HHHHH----------------------------------HHhhhhccchhh
Q 045917           77 TSCSIESIKLFDEMLKTGLRPDNLT----YPFVV----------------------------------KASDQCLLIGVG  118 (162)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~~p~~~t----~~~li----------------------------------~~~~~~~~~~~a  118 (162)
                      ..++++|.++-.++...+-.+...-    |.-|.                                  +.....|+++.|
T Consensus       154 treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~A  233 (389)
T COG2956         154 TREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKA  233 (389)
T ss_pred             hhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHH
Confidence            7788887777776655433322111    11111                                  222223555555


Q ss_pred             hHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          119 GSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       119 ~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+.++.+.+.+..--..+...|..+|...|+.++....+.++
T Consensus       234 V~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~  275 (389)
T COG2956         234 VEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRA  275 (389)
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            555555555443333456677888888888888777665543

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

Probab=97.56  E-value=0.0022  Score=48.41  Aligned_cols=122  Identities=15%  Similarity=0.009  Sum_probs=95.3

Q ss_pred             hhHHHHHHHhhCCCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHHHh
Q 045917           35 TYIISRFILTSLPISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVKAS  109 (162)
Q Consensus        35 ~~~~~~ll~~~~~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~  109 (162)
                      +.-|..-+..|-.|++++|+..++...   | |.+-+......+.+.++.++|.+.++.+..  ..|+ ..-.-.+-+++
T Consensus       307 aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a~al  384 (484)
T COG4783         307 AAQYGRALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLAQAL  384 (484)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHHHHH
Confidence            344555555555788999999988876   5 566677778888999999999999999876  4566 44456677899


Q ss_pred             hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          110 DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       110 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+.|+..++..+........ +-|+..|..|-.+|...|+..+|....-|
T Consensus       385 l~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE  433 (484)
T COG4783         385 LKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE  433 (484)
T ss_pred             HhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH
Confidence            99999999988887776654 45789999999999999998888765443

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

Probab=97.54  E-value=0.0001  Score=42.85  Aligned_cols=81  Identities=14%  Similarity=0.054  Sum_probs=58.3

Q ss_pred             CCCchHHHHHHHHHHHcCC-CCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHH
Q 045917           77 TSCSIESIKLFDEMLKTGL-RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~-~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      .|+++.|+.+++++.+..- .|+...+-.+..++.+.|++++|..+++. .+.+. .+....-.+-.+|.+.|++++|.+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            5788999999999877544 23444555578999999999999999988 33332 233444455788999999999999


Q ss_pred             hhcc
Q 045917          156 LFDE  159 (162)
Q Consensus       156 ~~~~  159 (162)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8864

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

Probab=97.54  E-value=0.0016  Score=50.99  Aligned_cols=118  Identities=14%  Similarity=0.124  Sum_probs=82.4

Q ss_pred             HHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhc
Q 045917           39 SRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCL  113 (162)
Q Consensus        39 ~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~  113 (162)
                      ..|--.|. .|.++.|...|++.-   | ....||.|-+++-..|++.+|.+.|.+-... ..--..+.+.|-+.+...|
T Consensus       290 gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l-~p~hadam~NLgni~~E~~  368 (966)
T KOG4626|consen  290 GNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL-CPNHADAMNNLGNIYREQG  368 (966)
T ss_pred             cceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhc
Confidence            33333455 777888888877765   3 3667888888888888888888888877653 2223445677778888888


Q ss_pred             cchhhhHHHHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          114 LIGVGGSVHSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       114 ~~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+++|..++......  -|. ...++.|-..|-..|++++|...+++
T Consensus       369 ~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Yke  413 (966)
T KOG4626|consen  369 KIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKE  413 (966)
T ss_pred             cchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHH
Confidence            888888887766553  233 45567777788888888888776654

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

Probab=97.51  E-value=0.0019  Score=47.11  Aligned_cols=106  Identities=14%  Similarity=0.007  Sum_probs=85.1

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccc
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLI  115 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~  115 (162)
                      .+..+..+. .|+...|.++-++.. |+..-|-..|.+++..+++++-..+-..      +-++.-|-.+++.|.+.|+.
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            344455556 899999999999999 9999999999999999999987776432      23457899999999999998


Q ss_pred             hhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          116 GVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       116 ~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+|..+...          ..+..-+..|.++|++.+|.+.--+
T Consensus       254 ~eA~~yI~k----------~~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  254 KEASKYIPK----------IPDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHh----------CChHHHHHHHHHCCCHHHHHHHHHH
Confidence            888877655          2236677999999999999776433

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

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

Probab=97.51  E-value=0.00034  Score=54.31  Aligned_cols=122  Identities=15%  Similarity=0.043  Sum_probs=83.4

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHH-
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVV-  106 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li-  106 (162)
                      -.|.+|.++=++|+ .++.+.|.+.|+...   | ..++|+.+=.-+....++++|+.-|+.-    +..|...|+++. 
T Consensus       419 ~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~A----l~~~~rhYnAwYG  494 (638)
T KOG1126|consen  419 NSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKA----LGVDPRHYNAWYG  494 (638)
T ss_pred             CCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhh----hcCCchhhHHHHh
Confidence            34677888888888 888888888888776   4 5677776666666667777777777655    335666666643 


Q ss_pred             --HHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          107 --KASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       107 --~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                        -.|.+.+.++.|+-.|+...+-+ +.+.+....+-..|-+.|+.|+|.+++++
T Consensus       495 lG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~  548 (638)
T KOG1126|consen  495 LGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEK  548 (638)
T ss_pred             hhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHH
Confidence              45667777777777776666543 23455556666677777777777777764

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.50  E-value=0.0035  Score=45.30  Aligned_cols=120  Identities=15%  Similarity=0.011  Sum_probs=89.3

Q ss_pred             hHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHHHh
Q 045917           36 YIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVKAS  109 (162)
Q Consensus        36 ~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~  109 (162)
                      ..|..+=..|. .|+.++|...|+...   | +...|+.+=..+...|++++|...|++..+  +.|+ ..++..+-..+
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l  142 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAYLNRGIAL  142 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            33555555666 999999999998876   4 578899999999999999999999999876  4454 45566777778


Q ss_pred             hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          110 DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       110 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ...|++++|.+.++...+..  |+..........+...++.++|...|++
T Consensus       143 ~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~  190 (296)
T PRK11189        143 YYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQ  190 (296)
T ss_pred             HHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            88999999999999888753  4332222222334457788999888754

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

Probab=97.46  E-value=0.0034  Score=39.52  Aligned_cols=94  Identities=13%  Similarity=-0.057  Sum_probs=70.3

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRM  143 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~  143 (162)
                      ......+...+...|+.++|.+.|+.....+ +.+...+..+-..+.+.|++++|..++....+.+ +.+...+..+-.+
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~   94 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHH
Confidence            3445556667777889999999988876643 3355666777778888888999988888877654 3456777777788


Q ss_pred             HHhcCChhHHHHhhcc
Q 045917          144 YAACKEIDFAKALFDE  159 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~  159 (162)
                      |...|+.++|.+.|++
T Consensus        95 ~~~~g~~~~A~~~~~~  110 (135)
T TIGR02552        95 LLALGEPESALKALDL  110 (135)
T ss_pred             HHHcCCHHHHHHHHHH
Confidence            8889999999888765

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

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

Probab=97.45  E-value=0.00098  Score=47.77  Aligned_cols=122  Identities=11%  Similarity=0.115  Sum_probs=81.5

Q ss_pred             hHHHHHHHhhC-CCChHHHHHHhhhhC-C-----ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHH
Q 045917           36 YIISRFILTSL-PISLHFTRSLFNNVM-P-----PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKA  108 (162)
Q Consensus        36 ~~~~~ll~~~~-~~~~~~a~~~~~~m~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  108 (162)
                      .+|..+++..- .+.++.|..+|++.. .     ..+...+.|. |...++.+.|..+|+..... +..+..-|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            46777777766 666888888888876 2     2222333332 22346666688888887654 55566667788888


Q ss_pred             hhhhccchhhhHHHHHHHHHhcCcc---hhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          109 SDQCLLIGVGGSVHSLIFKVGLHSD---KYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       109 ~~~~~~~~~a~~i~~~~~~~~~~~~---~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +.+.++.+.++.+|+..... +.++   ..+|...++.=.+.|+++.+.++.+++
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~  133 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRA  133 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888888888888887654 3222   257888888888888888888887665

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.

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

Probab=97.38  E-value=0.0058  Score=51.75  Aligned_cols=120  Identities=8%  Similarity=0.041  Sum_probs=67.4

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC---CccHHHHHHHh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD---NLTYPFVVKAS  109 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~t~~~li~~~  109 (162)
                      |..|...|. ..+.++|-++++.|-    -....|......+.++++-+.|..++.+....  .|-   ..-..-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHH
Confidence            444445555 555555555555554    13444555555555555555555555443321  122   11122223333


Q ss_pred             hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          110 DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       110 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+.|+.+.++.+|+..... .+.....|+.+++.=.+.|+.+.++.+|++.
T Consensus      1611 Fk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRv 1660 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERV 1660 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            4556666666676666654 2345677888888888899988888888753

>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=97.33  E-value=0.0024  Score=40.19  Aligned_cols=47  Identities=13%  Similarity=-0.057  Sum_probs=26.9

Q ss_pred             CCCCccHHHHHHHhhhhccchhhhHHHHHHHH-HhcCcchhHHHHHHH
Q 045917           96 RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK-VGLHSDKYIGNTLLR  142 (162)
Q Consensus        96 ~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~-~~~~~~~~~~~~ll~  142 (162)
                      .|+..+..+++.+++..+++..|.++.+.+.+ -+++.+..+|..|++
T Consensus        49 ~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   49 YPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            35555555666666666666666666655543 344445556666555

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

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

Probab=97.31  E-value=0.005  Score=43.34  Aligned_cols=131  Identities=11%  Similarity=-0.079  Sum_probs=57.1

Q ss_pred             hhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC
Q 045917           22 LPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN   99 (162)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   99 (162)
                      +.+++.......+......-...|. .+++++|.+...... ......|.-  .+.+..+.+-|..-++.|.+-   -+.
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~Vq--I~lk~~r~d~A~~~lk~mq~i---ded  169 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAAALNVQ--ILLKMHRFDLAEKELKKMQQI---DED  169 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHHHHHHH--HHHHHHHHHHHHHHHHHHHcc---chH
Confidence            3444444433333322223333444 677777777666533 222222221  123333444455555555432   223


Q ss_pred             ccHHHHHHHhhh----hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          100 LTYPFVVKASDQ----CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       100 ~t~~~li~~~~~----~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      .|.+-|.++..+    .+.+.+|.-+|+++..+ ..|++.+.+....+....|++++|..+++
T Consensus       170 ~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~  231 (299)
T KOG3081|consen  170 ATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLE  231 (299)
T ss_pred             HHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHH
Confidence            333333333222    23344555555555442 34555555555555555555555555443

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

Probab=97.31  E-value=0.016  Score=39.42  Aligned_cols=104  Identities=7%  Similarity=-0.014  Sum_probs=81.2

Q ss_pred             CCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHH-HHcCCC--chHHHHHHHHHHHcCCCCCCccHH
Q 045917           32 DHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRA-YAKTSC--SIESIKLFDEMLKTGLRPDNLTYP  103 (162)
Q Consensus        32 ~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~-~~~~~~--~~~a~~~~~~m~~~~~~p~~~t~~  103 (162)
                      +.++..|..+-..|. .|++++|...|+...   | +...+..+-.+ +...|+  .++|..++++..+.+-. +...+.
T Consensus        70 P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~  148 (198)
T PRK10370         70 PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALM  148 (198)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHH
Confidence            456777888888888 999999999999887   4 56667666665 466677  59999999998774332 556677


Q ss_pred             HHHHHhhhhccchhhhHHHHHHHHHhcCcchhHH
Q 045917          104 FVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIG  137 (162)
Q Consensus       104 ~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~  137 (162)
                      .+-..+.+.|++++|...++.+.+.. .|+..-+
T Consensus       149 ~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~  181 (198)
T PRK10370        149 LLASDAFMQADYAQAIELWQKVLDLN-SPRVNRT  181 (198)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHH
Confidence            88888899999999999999998875 4555444

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.31  E-value=0.0056  Score=37.31  Aligned_cols=90  Identities=13%  Similarity=-0.052  Sum_probs=52.7

Q ss_pred             HHHHHhhC-CCChHHHHHHhhhhC---CC----hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCC--CCCccHHHHHHH
Q 045917           39 SRFILTSL-PISLHFTRSLFNNVM---PP----LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLR--PDNLTYPFVVKA  108 (162)
Q Consensus        39 ~~ll~~~~-~~~~~~a~~~~~~m~---~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~t~~~li~~  108 (162)
                      -.+...+. .|++++|...|+.+.   |+    ...+-.+-..+.+.|++++|...|++.....-.  .....+..+...
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            33444444 677777777776664   33    234445666666777777777777776543211  112345555566


Q ss_pred             hhhhccchhhhHHHHHHHHH
Q 045917          109 SDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       109 ~~~~~~~~~a~~i~~~~~~~  128 (162)
                      +.+.|+.++|...+..+.+.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHH
Confidence            66667777777777766665

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

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

Probab=97.28  E-value=0.015  Score=42.74  Aligned_cols=144  Identities=8%  Similarity=-0.004  Sum_probs=87.1

Q ss_pred             hhchhhhcchhHHHHH-hcCCCchhHHHHHHHhhC--CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHc----CCCch
Q 045917           13 SKTAHHHHQLPALFLK-TSLDHNTYIISRFILTSL--PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAK----TSCSI   81 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~--~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~----~~~~~   81 (162)
                      .++.+.+...+....+ ....+++.....+-....  .|++++|...++...   |+ ...++. ...+..    .+...
T Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~~~~~   97 (355)
T cd05804          19 GGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFSGMRD   97 (355)
T ss_pred             cCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccccCch
Confidence            3455555555544433 222334333322222222  899999999998865   43 334442 222222    44555


Q ss_pred             HHHHHHHHHHHcCCCCCCc-cHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           82 ESIKLFDEMLKTGLRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+...+..  .....|+.. ....+-..+...|++++|...++...+.. +.+...+..+-..|...|++++|.+.+++-
T Consensus        98 ~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~  174 (355)
T cd05804          98 HVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESW  174 (355)
T ss_pred             hHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            55555443  122223322 22334457778899999999999998865 345677888899999999999999998753

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.27  E-value=0.019  Score=46.34  Aligned_cols=133  Identities=5%  Similarity=-0.113  Sum_probs=97.8

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCch-hHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNT-YIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTS   78 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~   78 (162)
                      -+..+....|+.++|+.+++.....  .|+. .....+...+. .+++++|...++..-   |+ ....+.+=.++.+.|
T Consensus        91 ~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g  168 (694)
T PRK15179         91 LVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIG  168 (694)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhc
Confidence            3556677788999999998887654  4543 33444555555 999999999999886   54 555666677788899


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL  141 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll  141 (162)
                      ++++|.++|++... ...-+..++..+-..+-..|+.++|...|+.....- .+...-|+.++
T Consensus       169 ~~~~A~~~y~~~~~-~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        169 QSEQADACFERLSR-QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             chHHHHHHHHHHHh-cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            99999999999987 222336677888888889999999999998887643 23445544433

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

Probab=97.25  E-value=0.006  Score=45.04  Aligned_cols=126  Identities=14%  Similarity=0.047  Sum_probs=91.9

Q ss_pred             hhHHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhCCCC----hHHHHHHhhhhCCChhHHHHHHHHHHcCC
Q 045917            3 SRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPIS----LHFTRSLFNNVMPPLFAYNTLIRAYAKTS   78 (162)
Q Consensus         3 ~~~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----~~~a~~~~~~m~~~~~~~~~li~~~~~~~   78 (162)
                      ..+++.-+-.||+-++|.++..+..+.+..|.-   ..++...-.++    ...++...+..+-++-.+.++=..|.+++
T Consensus       266 ~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L---~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~  342 (400)
T COG3071         266 VVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL---CRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNK  342 (400)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHhccChhH---HHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhh
Confidence            346677778888889999998888888888772   22222222233    33344444444434567888888899999


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD  133 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~  133 (162)
                      .+.+|...|+.  .-...|+..+|+.+-.++.+.|+..+|.++.++....-.+|+
T Consensus       343 ~w~kA~~~lea--Al~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         343 LWGKASEALEA--ALKLRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHHHHHHHH--HHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            99999999994  345779999999999999999999999999888765433443

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

Probab=97.25  E-value=0.011  Score=46.56  Aligned_cols=152  Identities=11%  Similarity=0.056  Sum_probs=106.7

Q ss_pred             HHHHHHhhchhhhcchhHHHH-HhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHH
Q 045917            7 ETLIQLSKTAHHHHQLPALFL-KTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a   83 (162)
                      ..++-..|++...+..|+..+ ...+....-+|...+.... .+.++-+.++++..- .++..-+..|.-+++.+++++|
T Consensus       109 lq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~ea  188 (835)
T KOG2047|consen  109 LQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEA  188 (835)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHH
Confidence            344455566666666666654 3444555566777777777 888889999999887 5666688899999999999999


Q ss_pred             HHHHHHHHHc------CCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhc--Ccc--hhHHHHHHHHHHhcCChhHH
Q 045917           84 IKLFDEMLKT------GLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL--HSD--KYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        84 ~~~~~~m~~~------~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~--~~~--~~~~~~ll~~y~~~g~~~~a  153 (162)
                      -+.+...++.      ..+.+...|.-+-+-..+..+.-....+ +.+.+.|+  -+|  -..|++|-+-|.+.|++|+|
T Consensus       189 a~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~eka  267 (835)
T KOG2047|consen  189 AQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKA  267 (835)
T ss_pred             HHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCH-HHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHH
Confidence            9999887554      3456677777776666665544333332 33333333  344  46789999999999999999


Q ss_pred             HHhhcc
Q 045917          154 KALFDE  159 (162)
Q Consensus       154 ~~~~~~  159 (162)
                      ..+|++
T Consensus       268 rDvyee  273 (835)
T KOG2047|consen  268 RDVYEE  273 (835)
T ss_pred             HHHHHH
Confidence            999875

>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=97.18  E-value=0.0064  Score=38.23  Aligned_cols=82  Identities=11%  Similarity=0.043  Sum_probs=63.6

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhh--------------C------CChhHHHHHHHHHHcCCCchHHHHHHHHHH-H
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNV--------------M------PPLFAYNTLIRAYAKTSCSIESIKLFDEML-K   92 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m--------------~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-~   92 (162)
                      ..++.++|.+++ .|+++....+.+..              .      |+..+-.+++.+|+.+|++..|+++.+... .
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            345566666666 66666666665532              1      889999999999999999999999999965 4


Q ss_pred             cCCCCCCccHHHHHHHhhhhccch
Q 045917           93 TGLRPDNLTYPFVVKASDQCLLIG  116 (162)
Q Consensus        93 ~~~~p~~~t~~~li~~~~~~~~~~  116 (162)
                      -+++.+...|..|++.+...-+..
T Consensus        82 Y~I~i~~~~W~~Ll~W~~v~s~~~  105 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLEWAYVLSSKR  105 (126)
T ss_pred             cCCCCCHHHHHHHHHHHHHhcCCc
Confidence            588888999999999887665543

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

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

Probab=97.16  E-value=0.029  Score=40.77  Aligned_cols=141  Identities=14%  Similarity=0.114  Sum_probs=84.8

Q ss_pred             chhhhcchhHHHHHhcCCCchh-HHHHHHHhhC-CCChHHHHHHhhhhC--CCh------hHHHHHHHHHHcCCCchHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTY-IISRFILTSL-PISLHFTRSLFNNVM--PPL------FAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~-~~~~~~a~~~~~~m~--~~~------~~~~~li~~~~~~~~~~~a~   84 (162)
                      ..+.|.+.|..|.+.  .|.+. +--+|=+.|- .|..+.|.++.+..-  ||.      ..--.+=.-|...|-++.|.
T Consensus        50 Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          50 QPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             CcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            455677777777652  22222 2233444455 888888888888776  542      22333445566678888888


Q ss_pred             HHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcch----hHHHHHHHHHHhcCChhHHHHhhc
Q 045917           85 KLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK----YIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~----~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      ++|..+.+.+. .-...--.|+..|-..++|++|..+-+.+.+.+-++..    ..|.-|-..+....+++.|..++.
T Consensus       128 ~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         128 DIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            88888866432 11223455778888888888888888777776543332    123444444445566666665543

>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=97.15  E-value=0.0043  Score=35.31  Aligned_cols=87  Identities=13%  Similarity=0.011  Sum_probs=58.6

Q ss_pred             HHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhcc
Q 045917           40 RFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLL  114 (162)
Q Consensus        40 ~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~  114 (162)
                      .+-..+. .|++++|...++...   | +...+..+-..+...+++++|.+.+++..+.. +.+..++..+...+...|+
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHh
Confidence            3444555 778888888887764   3 33566667777777788888888888766543 2233456667777777788


Q ss_pred             chhhhHHHHHHHH
Q 045917          115 IGVGGSVHSLIFK  127 (162)
Q Consensus       115 ~~~a~~i~~~~~~  127 (162)
                      .+.|...+....+
T Consensus        84 ~~~a~~~~~~~~~   96 (100)
T cd00189          84 YEEALEAYEKALE   96 (100)
T ss_pred             HHHHHHHHHHHHc
Confidence            8887777766544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.13  E-value=0.018  Score=35.05  Aligned_cols=89  Identities=13%  Similarity=-0.035  Sum_probs=49.5

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHcCCCCC----CccHHHHHHHhhhhccchhhhHHHHHHHHHhcC--cchhHHHHHHH
Q 045917           69 TLIRAYAKTSCSIESIKLFDEMLKTGLRPD----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH--SDKYIGNTLLR  142 (162)
Q Consensus        69 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~--~~~~~~~~ll~  142 (162)
                      .....+.+.|++++|...|.+..+..  |+    ......+...+.+.|+++.|...+..+......  .....+..+-.
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            34445555666666666666665431  22    123444556666666666666666666553211  11344555556


Q ss_pred             HHHhcCChhHHHHhhcc
Q 045917          143 MYAACKEIDFAKALFDE  159 (162)
Q Consensus       143 ~y~~~g~~~~a~~~~~~  159 (162)
                      +|.+.|+.++|.+.+++
T Consensus        85 ~~~~~~~~~~A~~~~~~  101 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQ  101 (119)
T ss_pred             HHHHhCChHHHHHHHHH
Confidence            66666666666666654

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.

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

Probab=97.13  E-value=0.0026  Score=49.64  Aligned_cols=137  Identities=15%  Similarity=0.147  Sum_probs=93.9

Q ss_pred             hhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---------------------------------
Q 045917           16 AHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---------------------------------   61 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---------------------------------   61 (162)
                      .++|...|.. ...-+.-+......+=.+|. .+++++|+++|+..+                                 
T Consensus       335 ~~~A~~~~~k-lp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~L  413 (638)
T KOG1126|consen  335 CREALNLFEK-LPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDL  413 (638)
T ss_pred             HHHHHHHHHh-hHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHH
Confidence            3455555555 22223333455566667777 888888888888653                                 


Q ss_pred             -----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchh
Q 045917           62 -----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKY  135 (162)
Q Consensus        62 -----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~  135 (162)
                           -.+.+|.++=++|.-.++.+.|++.|+.-.+  +.| ..++|+.+=.-+....+++.|...|+...    ..|+.
T Consensus       414 i~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~~r  487 (638)
T KOG1126|consen  414 IDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVDPR  487 (638)
T ss_pred             HhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCCch
Confidence                 2467788888888888888888888887755  555 56677666666666677888877776654    34556


Q ss_pred             HHHH---HHHHHHhcCChhHHHHhhcc
Q 045917          136 IGNT---LLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       136 ~~~~---ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .|+.   |=-.|.|.++++.|+--|++
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqk  514 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQK  514 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHh
Confidence            6655   44578899999999877764

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.12  E-value=0.033  Score=38.54  Aligned_cols=122  Identities=15%  Similarity=0.058  Sum_probs=83.8

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---CCh----hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc----c
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---PPL----FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL----T  101 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----t  101 (162)
                      .+..+-.+-..+. .|+++.|...|++..   |+.    .++..+-.++.+.|++++|...+++..+..  |+..    +
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCchHHH
Confidence            3445555556666 999999999999876   542    356777788899999999999999997642  3322    2


Q ss_pred             HHHHHHHhhhh--------ccchhhhHHHHHHHHHhcCcc-hhHH-----------------HHHHHHHHhcCChhHHHH
Q 045917          102 YPFVVKASDQC--------LLIGVGGSVHSLIFKVGLHSD-KYIG-----------------NTLLRMYAACKEIDFAKA  155 (162)
Q Consensus       102 ~~~li~~~~~~--------~~~~~a~~i~~~~~~~~~~~~-~~~~-----------------~~ll~~y~~~g~~~~a~~  155 (162)
                      +..+-..+...        |+.++|.+.+..+.+..  |+ ...+                 ..+-..|.+.|++++|..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~  187 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAIN  187 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            33333333332        67888888888887653  32 2222                 134456788999999998


Q ss_pred             hhcc
Q 045917          156 LFDE  159 (162)
Q Consensus       156 ~~~~  159 (162)
                      .+++
T Consensus       188 ~~~~  191 (235)
T TIGR03302       188 RFET  191 (235)
T ss_pred             HHHH
Confidence            8765

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).

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

Probab=97.08  E-value=0.017  Score=44.10  Aligned_cols=139  Identities=11%  Similarity=0.145  Sum_probs=87.3

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CCh-hHHHHHHHHHHcCCCchHHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPL-FAYNTLIRAYAKTSCSIESIKLFDE   89 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~-~~~~~li~~~~~~~~~~~a~~~~~~   89 (162)
                      +...|+++|...+.-. .-+...|---..+=. ++.+.+|..+|+...   |.+ ..|=-.+..=-..|++..|..+|..
T Consensus        88 e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqifer  166 (677)
T KOG1915|consen   88 EIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFER  166 (677)
T ss_pred             HHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            4445667776665443 222333333333333 677778888887765   322 2232333333334777777777776


Q ss_pred             HHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           90 MLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        90 m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      -..  ..|+...|.+.|+.-.+-+.++.|..+++...-.  .|++..|-...+.=-++|+++.|.+||+
T Consensus       167 W~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~Vye  231 (677)
T KOG1915|consen  167 WME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYE  231 (677)
T ss_pred             HHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            533  5678888888888777777788888877776643  5777777777777777777777777765

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

Probab=97.08  E-value=0.0046  Score=44.08  Aligned_cols=102  Identities=14%  Similarity=0.085  Sum_probs=79.2

Q ss_pred             ChHHHHHHhhhhC---CChhHHHHHHHHHHcC-----CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccc-----
Q 045917           49 SLHFTRSLFNNVM---PPLFAYNTLIRAYAKT-----SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLI-----  115 (162)
Q Consensus        49 ~~~~a~~~~~~m~---~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~-----  115 (162)
                      .+-..+..|...+   .|-.+|-+.+.-+..+     +.++-....++.|++-|++.|..+|+.|++.+-+..-.     
T Consensus        49 ~Lv~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvf  128 (406)
T KOG3941|consen   49 SLVHVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVF  128 (406)
T ss_pred             cccchhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHH
Confidence            3445667777776   6777777777777653     66777777888899999999999999999988775322     


Q ss_pred             -----------hhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917          116 -----------GVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus       116 -----------~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                                 +=+.++.++|...|+.||..+-..|+++|.+.|-.
T Consensus       129 Q~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  129 QKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                       23456889999999999999999999999876643

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

Probab=97.06  E-value=0.014  Score=42.53  Aligned_cols=141  Identities=9%  Similarity=-0.068  Sum_probs=95.9

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHH-HHHHHHHcCCCchHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYN-TLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~-~li~~~~~~~~~~~a~~~~~   88 (162)
                      |-..+|+.-++.-+.  ..|-+.||-.|-+.|. ..+...|..+|.+-.   |.-+||- -+-+.+-..++.++|.++|+
T Consensus       237 gm~r~AekqlqssL~--q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk  314 (478)
T KOG1129|consen  237 GMPRRAEKQLQSSLT--QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYK  314 (478)
T ss_pred             cChhhhHHHHHHHhh--cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHH
Confidence            344455544444333  3456677888888888 889999999988765   6555543 34455556688888888888


Q ss_pred             HHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           89 EMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        89 ~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      ...+. -..|+....++-.+|.-.++.+-|..+++.+.+.|+. ++..|+.+=-++.-.+++|.+.--|.
T Consensus       315 ~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  315 LVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            87543 2235555666667777788888999999999888874 56666666666666666666655443

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

Probab=97.02  E-value=0.012  Score=41.54  Aligned_cols=93  Identities=11%  Similarity=0.000  Sum_probs=67.9

Q ss_pred             CCChHHHHHHhhhhC--CChhHHHHHHHH----HHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhH
Q 045917           47 PISLHFTRSLFNNVM--PPLFAYNTLIRA----YAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGS  120 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~--~~~~~~~~li~~----~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~  120 (162)
                      ..+++.|.+.++.|.  .+-.+.+-+-.+    ..-.++..+|.=+|++|-+ ...|++.+-+-....+...|++++|+.
T Consensus       150 ~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~-k~~~T~~llnG~Av~~l~~~~~eeAe~  228 (299)
T KOG3081|consen  150 MHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHLQLGRYEEAES  228 (299)
T ss_pred             HHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc-ccCCChHHHccHHHHHHHhcCHHHHHH
Confidence            578899999999998  444555544444    4445778999999999954 377888888888888889999999999


Q ss_pred             HHHHHHHHhcCcchhHHHHHH
Q 045917          121 VHSLIFKVGLHSDKYIGNTLL  141 (162)
Q Consensus       121 i~~~~~~~~~~~~~~~~~~ll  141 (162)
                      +.+....+.. .++.+...++
T Consensus       229 lL~eaL~kd~-~dpetL~Nli  248 (299)
T KOG3081|consen  229 LLEEALDKDA-KDPETLANLI  248 (299)
T ss_pred             HHHHHHhccC-CCHHHHHHHH
Confidence            9988876643 2444443333

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

Probab=97.00  E-value=0.023  Score=43.92  Aligned_cols=122  Identities=7%  Similarity=0.014  Sum_probs=89.9

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCC-chhHHHHHHHhhCCCChHHHHHHhhhhC---CChhH-HHHHHHHHHcCCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDH-NTYIISRFILTSLPISLHFTRSLFNNVM---PPLFA-YNTLIRAYAKTSC   79 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~~~~~~~a~~~~~~m~---~~~~~-~~~li~~~~~~~~   79 (162)
                      .++..+.+...++.|+.+|...++.+..+ .+.+++++|..||.++..-|.++|+-=-   +|... -...+.-+.+.++
T Consensus       371 ~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cskD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNd  450 (656)
T KOG1914|consen  371 QYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCSKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLND  450 (656)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhcCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCc
Confidence            45566666677888888888888777665 7888888888888888888888887432   44333 3455666667778


Q ss_pred             chHHHHHHHHHHHcCCCCC--CccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           80 SIESIKLFDEMLKTGLRPD--NLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~--~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      =..+..+|+.....++.|+  ...|..+|+.-...|++..+.++-+.+.
T Consensus       451 d~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  451 DNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             chhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            8888888888887766554  4668888888888888888877765553

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

Probab=96.98  E-value=0.0065  Score=46.04  Aligned_cols=143  Identities=9%  Similarity=0.006  Sum_probs=80.7

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhCCCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDE   89 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (162)
                      |+++.|.+.|++.+...-.-....||+=+..=..|++++|...|=.++    .+....--+-+.|-...++..|.+++.+
T Consensus       504 gd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  504 GDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             CcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            455666666666544333222233332221111666777776666555    3444444445555555666666666544


Q ss_pred             HHHcCCCC-CCccHHHHHHHhhhhccchhhhH----------------------------------HHHHHHHHhcCcch
Q 045917           90 MLKTGLRP-DNLTYPFVVKASDQCLLIGVGGS----------------------------------VHSLIFKVGLHSDK  134 (162)
Q Consensus        90 m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~----------------------------------i~~~~~~~~~~~~~  134 (162)
                      .  ..+.| |....+-|-+-|-+.|+-+.|.+                                  +|+..  .-++|+.
T Consensus       584 ~--~slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~eka--aliqp~~  659 (840)
T KOG2003|consen  584 A--NSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKA--ALIQPNQ  659 (840)
T ss_pred             h--cccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHH--HhcCccH
Confidence            3  23333 34444555566666665555543                                  22221  2258999


Q ss_pred             hHHHHHHH-HHHhcCChhHHHHhhccc
Q 045917          135 YIGNTLLR-MYAACKEIDFAKALFDEM  160 (162)
Q Consensus       135 ~~~~~ll~-~y~~~g~~~~a~~~~~~m  160 (162)
                      .-|.-++. ++.+.|++.+|..++..+
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~  686 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDI  686 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            99998876 556799999999988754

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

Probab=96.92  E-value=0.055  Score=41.26  Aligned_cols=117  Identities=12%  Similarity=0.065  Sum_probs=85.0

Q ss_pred             CCCchhHHHHHHHhhC-CCChHHHHHHh-hhhC--C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHH
Q 045917           31 LDHNTYIISRFILTSL-PISLHFTRSLF-NNVM--P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFV  105 (162)
Q Consensus        31 ~~~~~~~~~~ll~~~~-~~~~~~a~~~~-~~m~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  105 (162)
                      ++.|+.+.+-|-..|- .|+-..|+..+ +...  | +..+..=+-.-|....-++++...|...  .=+.|+..-|..+
T Consensus       588 ip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~eka--aliqp~~~kwqlm  665 (840)
T KOG2003|consen  588 IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKA--ALIQPNQSKWQLM  665 (840)
T ss_pred             CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHH--HhcCccHHHHHHH
Confidence            4557888888888888 88888887753 3333  3 4444444445556666778888887764  3367999999998


Q ss_pred             HHHhh-hhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917          106 VKASD-QCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus       106 i~~~~-~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      |.+|. +.|++.+|..++.++.+. ++-|......|++.....|.-
T Consensus       666 iasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  666 IASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccch
Confidence            87776 468999999999888765 666788888888887766654

>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=96.90  E-value=0.0037  Score=34.38  Aligned_cols=52  Identities=12%  Similarity=0.043  Sum_probs=27.5

Q ss_pred             cCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           76 KTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      ..|++++|.+.|++..+..- -|......+...+.+.|++++|..++..+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNP-DNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTT-TSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            45566666666666544311 13333444556666666666666666555544

...

>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=96.86  E-value=0.0032  Score=40.38  Aligned_cols=59  Identities=17%  Similarity=0.100  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLI  125 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~  125 (162)
                      ....++..+...|++++|..+.+...... +.|...|..+|.++...|+...|.+++..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            33444444555555555555555554321 123344555555555555555555555443

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

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

Probab=96.84  E-value=0.0051  Score=44.71  Aligned_cols=119  Identities=11%  Similarity=0.037  Sum_probs=97.6

Q ss_pred             HHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccH-HHHHHHhhhhc
Q 045917           39 SRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTY-PFVVKASDQCL  113 (162)
Q Consensus        39 ~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~-~~li~~~~~~~  113 (162)
                      +.+=++|. .|.+.+|++.|+.--   |-+.||-.+-..|.+..++..|+.+|.+-.+  .-|-.+|| .-..+.+-..+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHHHH
Confidence            66677777 999999999998765   7777889999999999999999999998765  34655665 44567777788


Q ss_pred             cchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          114 LIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       114 ~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +.+++.++++...+.. ..++...-++-..|.-.|+.|.|++.++++
T Consensus       305 ~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRi  350 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRI  350 (478)
T ss_pred             hHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHH
Confidence            9999999999988764 356777778888899999999999988765

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.84  E-value=0.027  Score=37.04  Aligned_cols=92  Identities=10%  Similarity=-0.039  Sum_probs=44.0

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC--CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD--NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      ..|..+...+...|++++|+..|++.......|.  ..++..+-..+...|+.++|...+....+.. +.....+..+-.
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            3344444555555666666666655543321111  1244455555555666666666655554431 112233444444


Q ss_pred             HHH-------hcCChhHHHHhh
Q 045917          143 MYA-------ACKEIDFAKALF  157 (162)
Q Consensus       143 ~y~-------~~g~~~~a~~~~  157 (162)
                      .|.       +.|+++.|...+
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~  136 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWF  136 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHH
Confidence            444       566655444433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.81  E-value=0.03  Score=36.78  Aligned_cols=90  Identities=3%  Similarity=-0.095  Sum_probs=63.7

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---CC----hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---PP----LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFV  105 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  105 (162)
                      ....+..+...+. .|++++|...|+...   |+    ..+|..+=..+...|++++|.+.++...+.. +....++..+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            3455666666677 999999999999884   33    3478888888999999999999999987542 2223345555


Q ss_pred             HHHhh-------hhccchhhhHHHHH
Q 045917          106 VKASD-------QCLLIGVGGSVHSL  124 (162)
Q Consensus       106 i~~~~-------~~~~~~~a~~i~~~  124 (162)
                      ...+.       ..|+++.|...+..
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            55555       66777766655544

>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=96.81  E-value=0.047  Score=42.62  Aligned_cols=131  Identities=13%  Similarity=0.141  Sum_probs=96.6

Q ss_pred             hhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-------------------CChhHH--HHHHHHHHcCCC
Q 045917           22 LPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-------------------PPLFAY--NTLIRAYAKTSC   79 (162)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-------------------~~~~~~--~~li~~~~~~~~   79 (162)
                      ....+.+.|+   |.+++.|-..|. ..+..-...++..+.                   |.+..|  .-+-.+|-..|+
T Consensus       133 yl~~~l~Kgv---PslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~  209 (517)
T PF12569_consen  133 YLRPQLRKGV---PSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGD  209 (517)
T ss_pred             HHHHHHhcCC---chHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCC
Confidence            3344444554   445888888888 666666666666542                   344344  555677888999


Q ss_pred             chHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           80 SIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      .++|++.+++-.+.  +|+ +.-|.+-.+.+-+.|++.+|....+..++... -|..+=+.....+.++|++++|.+++.
T Consensus       210 ~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~  286 (517)
T PF12569_consen  210 YEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTAS  286 (517)
T ss_pred             HHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999987664  455 33455567788899999999999999988775 488888888999999999999998864

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 [], [].

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

Probab=96.79  E-value=0.099  Score=44.90  Aligned_cols=151  Identities=11%  Similarity=0.076  Sum_probs=114.0

Q ss_pred             hhHHHHHHHHhhchhhhcchhHHHHH-hcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC---hhHHHHHHHHH
Q 045917            3 SRQIETLIQLSKTAHHHHQLPALFLK-TSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP---LFAYNTLIRAY   74 (162)
Q Consensus         3 ~~~~~~~l~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~---~~~~~~li~~~   74 (162)
                      .-++..++.+.....+|-++++.|.+ .|  .....|....+.+. ..+.+.|.+++++.-   |.   .....-....=
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            44667777777888999999999964 45  66777999999988 888899999998875   54   22222233333


Q ss_pred             HcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc--hhHHHHHHHHHHhcCChhH
Q 045917           75 AKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD--KYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~--~~~~~~ll~~y~~~g~~~~  152 (162)
                      .+.|+.+.+..+|......--+ -...|+.+|+.-.+.|+.+.++.+|+.+...++.|.  .+.|.-.|..=-..|+-+.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            4679999999999998765322 344699999999999999999999999999888665  5667777766666777665


Q ss_pred             HHHh
Q 045917          153 AKAL  156 (162)
Q Consensus       153 a~~~  156 (162)
                      ++.|
T Consensus      1690 vE~V 1693 (1710)
T KOG1070|consen 1690 VEYV 1693 (1710)
T ss_pred             HHHH
Confidence            5544

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

Probab=96.71  E-value=0.016  Score=43.08  Aligned_cols=82  Identities=9%  Similarity=-0.043  Sum_probs=66.9

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      .|+++.|...|++..    .+...|..+-.+|.+.|++++|+..+++..+.. +.+...|..+-.++...|++++|...+
T Consensus        15 ~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~~~   93 (356)
T PLN03088         15 DDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKAAL   93 (356)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            789999999999886    456778888888899999999999999987642 124556777778888999999999999


Q ss_pred             HHHHHHh
Q 045917          123 SLIFKVG  129 (162)
Q Consensus       123 ~~~~~~~  129 (162)
                      +...+..
T Consensus        94 ~~al~l~  100 (356)
T PLN03088         94 EKGASLA  100 (356)
T ss_pred             HHHHHhC
Confidence            8888754

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

Probab=96.65  E-value=0.0087  Score=34.55  Aligned_cols=73  Identities=11%  Similarity=0.062  Sum_probs=31.2

Q ss_pred             CChHHHHHHhhhhC---C---ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhH
Q 045917           48 ISLHFTRSLFNNVM---P---PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGS  120 (162)
Q Consensus        48 ~~~~~a~~~~~~m~---~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~  120 (162)
                      |+++.|..+|+.+.   |   +...+-.+-.+|.+.|++++|..+++...   ..|+ ....-.+-.++.+.|++++|.+
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~---~~~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLK---LDPSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHT---HHHCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            44555555555554   3   12222224455555555555555555511   1111 1222223444555555555555


Q ss_pred             HHH
Q 045917          121 VHS  123 (162)
Q Consensus       121 i~~  123 (162)
                      +++
T Consensus        80 ~l~   82 (84)
T PF12895_consen   80 ALE   82 (84)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            543

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

Probab=96.65  E-value=0.052  Score=41.36  Aligned_cols=109  Identities=12%  Similarity=0.023  Sum_probs=87.5

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      |..+.|+..++.+.+. .+-|++-.....+.+. .++..+|.+.++.+.   |+ ...+-.+=.+|.+.|++.+|..+++
T Consensus       320 ~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~  398 (484)
T COG4783         320 GQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILN  398 (484)
T ss_pred             cccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHH
Confidence            4667778888775543 5567788888888888 999999999999987   66 5666677788999999999999999


Q ss_pred             HHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHH
Q 045917           89 EMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSL  124 (162)
Q Consensus        89 ~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~  124 (162)
                      .-... .+-|...|..|-++|...|+..++.....+
T Consensus       399 ~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~AE  433 (484)
T COG4783         399 RYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARAE  433 (484)
T ss_pred             HHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHHH
Confidence            87643 566888999999999999887777655443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.64  E-value=0.042  Score=36.29  Aligned_cols=45  Identities=7%  Similarity=0.090  Sum_probs=19.9

Q ss_pred             CCChHHHHHHhhhhC---CC----hhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           47 PISLHFTRSLFNNVM---PP----LFAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      .|++++|...|++..   |+    ...|..+-..+.+.|++++|...+++..
T Consensus        48 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al   99 (172)
T PRK02603         48 DGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQAL   99 (172)
T ss_pred             cCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455555555444432   11    2334444444444445555544444443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.64  E-value=0.1  Score=36.78  Aligned_cols=143  Identities=15%  Similarity=0.163  Sum_probs=77.5

Q ss_pred             chhhhcchhHHHH---Hhc-CCCchhH-HHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHH-HHcCCCchHHH
Q 045917           15 TAHHHHQLPALFL---KTS-LDHNTYI-ISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRA-YAKTSCSIESI   84 (162)
Q Consensus        15 ~~~~a~~~~~~~~---~~~-~~~~~~~-~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~-~~~~~~~~~a~   84 (162)
                      +.++..+++..+.   +.| ..++..+ |-.++-+.. .|+.+.|...++...   |.+.--..+=.. +-..|..++|.
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~  106 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAI  106 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHH
Confidence            4556666665554   233 4444422 333333333 778888888777765   332221111111 23357788888


Q ss_pred             HHHHHHHHcCCCCCCccHHHHHHHh-hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           85 KLFDEMLKTGLRPDNLTYPFVVKAS-DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~~~li~~~-~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ++|+...+.+ +.|.+++--=+-.. +..++.+-.+.+-..+..  +..|...|.-|-+.|...|++++|--.++++
T Consensus       107 e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  107 EYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             HHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            8888887765 33333332211111 122233333333333333  4567888888888888888888887777665

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

Probab=96.63  E-value=0.051  Score=44.24  Aligned_cols=111  Identities=17%  Similarity=0.158  Sum_probs=85.0

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSV  121 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i  121 (162)
                      .|++++|.+++.++.    .+..+|-+|=..|-..|+.++++..+  ++..-+.| |..-|-.+-+-..+.|+++.|.-.
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~--llAAHL~p~d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFW--LLAAHLNPKDYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHH--HHHHhcCCCChHHHHHHHHHHHhcccHHHHHHH
Confidence            899999999999886    56888999999999999988887665  33343444 445577777778888889999988


Q ss_pred             HHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +....+.. +++...+..=...|-+.|+...|++-|.+|
T Consensus       230 y~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l  267 (895)
T KOG2076|consen  230 YSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQL  267 (895)
T ss_pred             HHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence            88888765 355555556667888888888888877654

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

Probab=96.60  E-value=0.13  Score=35.66  Aligned_cols=111  Identities=8%  Similarity=-0.043  Sum_probs=48.7

Q ss_pred             CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcC-CCCCCccHHHHHHHhhhhccchhhhHH
Q 045917           47 PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTG-LRPDNLTYPFVVKASDQCLLIGVGGSV  121 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~li~~~~~~~~~~~a~~i  121 (162)
                      .|..+.|.+-|+..-   | +-...|..=.-++..|++++|...|++-.+.- ..--+.||..+--+..+.|+.+.|+..
T Consensus        82 ~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~  161 (250)
T COG3063          82 LGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEY  161 (250)
T ss_pred             cCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHH
Confidence            555555555555443   2 22222332233344455555555555544331 111233444444444455555555555


Q ss_pred             HHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +..-.+..- -.....-.+-+...+.|++-.|...++
T Consensus       162 l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         162 LKRALELDP-QFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             HHHHHHhCc-CCChHHHHHHHHHHhcccchHHHHHHH
Confidence            555444321 113333444444445555555544443

>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=96.54  E-value=0.14  Score=40.11  Aligned_cols=126  Identities=13%  Similarity=0.046  Sum_probs=92.6

Q ss_pred             CchhHH--HHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHH
Q 045917           33 HNTYII--SRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFV  105 (162)
Q Consensus        33 ~~~~~~--~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  105 (162)
                      |+...|  .-+-..|. .|+.++|....+...   |+ +..|-.--..+-+.|++.+|.+.+++-+..+. -|-..=+-.
T Consensus       190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~  268 (517)
T PF12569_consen  190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDL-ADRYINSKC  268 (517)
T ss_pred             chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHH
Confidence            444334  45556677 999999999999776   55 56677788888999999999999998876432 233333456


Q ss_pred             HHHhhhhccchhhhHHHHHHHHHhcCcchhHH--------HHHHHHHHhcCChhHHHHhhcc
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKVGLHSDKYIG--------NTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~--------~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ...+.+.|+.++|++++....+.+..|-....        ...-.+|.+.|++..|++-|..
T Consensus       269 aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~  330 (517)
T PF12569_consen  269 AKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHA  330 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            78888999999999999988776642222221        3455688899999999887754

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 [], [].

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.53  E-value=0.028  Score=45.31  Aligned_cols=126  Identities=14%  Similarity=0.060  Sum_probs=81.9

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHc
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKT   93 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (162)
                      .+..|..+++-++..+.  -+.-|..+-+.|+ .|+++.|+++|-+..    .++-.|..|.+.|++++|.++-.+-  .
T Consensus       747 ew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~----~~~dai~my~k~~kw~da~kla~e~--~  818 (1636)
T KOG3616|consen  747 EWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD----LFKDAIDMYGKAGKWEDAFKLAEEC--H  818 (1636)
T ss_pred             hhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc----hhHHHHHHHhccccHHHHHHHHHHh--c
Confidence            34455555555544432  2344777888999 999999999998865    5677788999999999999886554  3


Q ss_pred             CCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917           94 GLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus        94 ~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      |-+.....|.+=.+-.-+.|++.+|++++-.+.    .|+.     -+.+|-+.|..++..++.
T Consensus       819 ~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv  873 (1636)
T KOG3616|consen  819 GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLV  873 (1636)
T ss_pred             CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHH
Confidence            444455556555566667778888877653221    2322     235555555555555544

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

Probab=96.52  E-value=0.1  Score=39.78  Aligned_cols=142  Identities=12%  Similarity=0.089  Sum_probs=111.1

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      +.-+.|...|+..++-+ +-....|+.+=+-|. .++...|..-++...    .|-..|=.+=.+|.-.+.+.=|+-.|+
T Consensus       344 ~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfq  422 (559)
T KOG1155|consen  344 SEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQ  422 (559)
T ss_pred             HhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHH
Confidence            34455666666665543 223466888888888 899999999888776    577888888888888888888888888


Q ss_pred             HHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           89 EMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        89 ~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +-.+  ++| |+..|.+|-+.|.+.++.++|.+-+......|- .+...+..|-+.|-+.++..+|.+.|.+
T Consensus       423 kA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~l~d~~eAa~~yek  491 (559)
T KOG1155|consen  423 KALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEELKDLNEAAQYYEK  491 (559)
T ss_pred             HHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            8754  555 677889999999999999999999988887653 3557888899999999999999887754

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.38  E-value=0.076  Score=33.11  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=10.4

Q ss_pred             HHHHHHcCCCchHHHHHHHHHH
Q 045917           70 LIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      +=+.+...|++++|..++++..
T Consensus        44 lastlr~LG~~deA~~~L~~~~   65 (120)
T PF12688_consen   44 LASTLRNLGRYDEALALLEEAL   65 (120)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            3334444455555555555443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.38  E-value=0.052  Score=39.35  Aligned_cols=140  Identities=10%  Similarity=0.115  Sum_probs=92.9

Q ss_pred             hhHHHHHHHHhhc-----hhhhcchhHHHHHhcCCCchhHHHHH--HHhhC-C----CChHHHHHHhhhhC--------C
Q 045917            3 SRQIETLIQLSKT-----AHHHHQLPALFLKTSLDHNTYIISRF--ILTSL-P----ISLHFTRSLFNNVM--------P   62 (162)
Q Consensus         3 ~~~~~~~l~~~~~-----~~~a~~~~~~~~~~~~~~~~~~~~~l--l~~~~-~----~~~~~a~~~~~~m~--------~   62 (162)
                      +.++...+...+.     +++..++++.+++.|+.-+.++|-+.  |.... .    -.+..|..+|+.|+        +
T Consensus        60 ~~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~  139 (297)
T PF13170_consen   60 RFILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSP  139 (297)
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCc
Confidence            3455666666554     45678899999999999888777653  33332 2    34777889999997        6


Q ss_pred             ChhHHHHHHHHHHcCCCc----hHHHHHHHHHHHcCCCCCCc-cHHHHHHHhhhhcc---chhhhHHHHHHHHHhcCcch
Q 045917           63 PLFAYNTLIRAYAKTSCS----IESIKLFDEMLKTGLRPDNL-TYPFVVKASDQCLL---IGVGGSVHSLIFKVGLHSDK  134 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~----~~a~~~~~~m~~~~~~p~~~-t~~~li~~~~~~~~---~~~a~~i~~~~~~~~~~~~~  134 (162)
                      +-+++.+++..  ..+++    +.+...|+.+.+.|+..+.. -+-+-+-+++....   ...+..++..+.+.|+++..
T Consensus       140 ~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~  217 (297)
T PF13170_consen  140 EDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKY  217 (297)
T ss_pred             cchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCcccc
Confidence            77888888776  33333    45567788888888865433 45555555544333   44677788889999987766


Q ss_pred             hHHHHHHHHHH
Q 045917          135 YIGNTLLRMYA  145 (162)
Q Consensus       135 ~~~~~ll~~y~  145 (162)
                      ..|. ++..++
T Consensus       218 ~~yp-~lGlLa  227 (297)
T PF13170_consen  218 MHYP-TLGLLA  227 (297)
T ss_pred             cccc-HHHHHH
Confidence            6654 333444

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

Probab=96.37  E-value=0.11  Score=43.18  Aligned_cols=60  Identities=15%  Similarity=0.082  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      ..-.+-.+|-+.|+.++|..+|++..+.. .-|....|.+...+... ++++|+++......
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~  177 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIY  177 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHH
Confidence            34444555555566666666666665544 33455555566666555 66666655554443

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

Probab=96.36  E-value=0.076  Score=40.76  Aligned_cols=141  Identities=13%  Similarity=0.026  Sum_probs=95.1

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC------CChhHHHHHHHHHHcCCCchHHHH
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM------PPLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      +|+...|++-++...+....++.. |--+-..|. ..+.++.+..|+...      ||++-.-.  ..+.-.+++++|..
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRg--Qm~flL~q~e~A~a  415 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRG--QMRFLLQQYEEAIA  415 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHH--HHHHHHHHHHHHHH
Confidence            466777788887776665554441 333344567 888889999998876      44333222  22223456677777


Q ss_pred             HHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           86 LFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        86 ~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      =|++-..  +.| +...|..+--+.-+.+.+.+++..|++..++ ++..+.+|+..-..+...+++++|.+-|+.
T Consensus       416 DF~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~  487 (606)
T KOG0547|consen  416 DFQKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDK  487 (606)
T ss_pred             HHHHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHH
Confidence            7776644  333 2333433333444677899999999998876 666689999999999999999999998875

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.30  E-value=0.23  Score=35.09  Aligned_cols=117  Identities=6%  Similarity=-0.021  Sum_probs=80.4

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC--CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL--PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~   82 (162)
                      +.--+++...|+.+++.+.+.-  |.+.=...|=.++.  .|..++|.+.++..-    .|.+++--=+...-..|+..+
T Consensus        61 AAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~  138 (289)
T KOG3060|consen   61 AALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLE  138 (289)
T ss_pred             HHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHH
Confidence            3344567788888888877664  55544444444444  788888888888775    356666666666666677777


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      |++-+.+..+. +..|...|.-+-+.|...|++++|---++++.-.
T Consensus       139 aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~  183 (289)
T KOG3060|consen  139 AIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI  183 (289)
T ss_pred             HHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence            77777776543 6667777888888888888888777777776654

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

Probab=96.28  E-value=0.011  Score=32.16  Aligned_cols=54  Identities=13%  Similarity=0.001  Sum_probs=25.9

Q ss_pred             HHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           73 AYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        73 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      .+.+.|++++|.+.|++..+.. +-+...+..+-..+...|++++|...++.+.+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555555554433 11333344444555555555555555555443

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

Probab=96.28  E-value=0.056  Score=34.64  Aligned_cols=109  Identities=7%  Similarity=0.025  Sum_probs=76.1

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhH-HHH--HHHhhC-CCChHHHHHHhhhhC---CCh----hHHHHHHHHHHcCCCch
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYI-ISR--FILTSL-PISLHFTRSLFNNVM---PPL----FAYNTLIRAYAKTSCSI   81 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~-~~~--ll~~~~-~~~~~~a~~~~~~m~---~~~----~~~~~li~~~~~~~~~~   81 (162)
                      .++...+...++.+.+... .+++. ...  +-..+. .|++++|...|+...   |+.    ...-.+-..+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            4677778888888876543 33332 333  334566 999999999999987   443    23334567778899999


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHH
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSL  124 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~  124 (162)
                      +|+..++.......  ....+...-+.+.+.|+.++|...++.
T Consensus       103 ~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  103 EALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999977433332  233455566888899999999998875

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.27  E-value=0.052  Score=39.24  Aligned_cols=145  Identities=10%  Similarity=-0.041  Sum_probs=78.2

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhCCCChHHHHHHhhhhC------------------CCh-----------
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVM------------------PPL-----------   64 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m~------------------~~~-----------   64 (162)
                      |..+.|.+=|....+.+--..-..||..+..|..|+.+.|.+...++.                  ||+           
T Consensus       158 gqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~  237 (459)
T KOG4340|consen  158 GQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQ  237 (459)
T ss_pred             ccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHH
Confidence            444555555555544333333456676666666666666666655441                  221           


Q ss_pred             ----hHHHHHHHHHHcCCCchHHHHHHHHHH-HcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHH
Q 045917           65 ----FAYNTLIRAYAKTSCSIESIKLFDEML-KTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNT  139 (162)
Q Consensus        65 ----~~~~~li~~~~~~~~~~~a~~~~~~m~-~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~  139 (162)
                          ..+|.-...+.+.|+.+.|.+.+-+|. +..-+.|++|...+.-.=.. ++..++..=...+..-+.- -..|+-.
T Consensus       238 Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~-~~p~~g~~KLqFLL~~nPf-P~ETFAN  315 (459)
T KOG4340|consen  238 SALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMD-ARPTEGFEKLQFLLQQNPF-PPETFAN  315 (459)
T ss_pred             HHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhccc-CCccccHHHHHHHHhcCCC-ChHHHHH
Confidence                112222233345566666666666663 33344566666554433222 2233332222223222211 2578889


Q ss_pred             HHHHHHhcCChhHHHHhhccc
Q 045917          140 LLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       140 ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ++-.|||+.-++.|-.++.+-
T Consensus       316 lLllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  316 LLLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHHHhhhHHHhHHHHHHhhC
Confidence            999999999999999887653

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

Probab=96.27  E-value=0.022  Score=46.63  Aligned_cols=107  Identities=11%  Similarity=0.037  Sum_probs=85.5

Q ss_pred             hHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHH
Q 045917           50 LHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLI  125 (162)
Q Consensus        50 ~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~  125 (162)
                      .+.|..+|+..-    .|.+.=|-+=-.++..|++.+|.++|.+..+... -+..+|-.+...|...|.+..|.++++..
T Consensus       628 ~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~  706 (1018)
T KOG2002|consen  628 QEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENC  706 (1018)
T ss_pred             HHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHH
Confidence            567777777654    4566666676778889999999999999987644 34456778899999999999999999887


Q ss_pred             HH-HhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917          126 FK-VGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       126 ~~-~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      .+ ..-.-+..+...|-++|-+.|.+.+|.+..
T Consensus       707 lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~l  739 (1018)
T KOG2002|consen  707 LKKFYKKNRSEVLHYLARAWYEAGKLQEAKEAL  739 (1018)
T ss_pred             HHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            65 444556888899999999999999998764

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

Probab=96.26  E-value=0.083  Score=39.31  Aligned_cols=95  Identities=12%  Similarity=0.030  Sum_probs=74.8

Q ss_pred             HhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      ..|++.+|.+.+....+... -++..|..+-.+|. .|++++|...++...   | +...|..+-.+|...|++++|...
T Consensus        14 ~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~   92 (356)
T PLN03088         14 VDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAA   92 (356)
T ss_pred             HcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            34688899999998877543 34556666667777 999999999999886   4 567788888899999999999999


Q ss_pred             HHHHHHcCCCCCCccHHHHHHHh
Q 045917           87 FDEMLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        87 ~~~m~~~~~~p~~~t~~~li~~~  109 (162)
                      |++..+  +.|+...+..++.-|
T Consensus        93 ~~~al~--l~P~~~~~~~~l~~~  113 (356)
T PLN03088         93 LEKGAS--LAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHH--hCCCCHHHHHHHHHH
Confidence            999876  557777666666554

>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=96.23  E-value=0.025  Score=30.97  Aligned_cols=47  Identities=13%  Similarity=0.017  Sum_probs=21.5

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM   61 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~   61 (162)
                      |++++|.+.++.+...... ++..+-.+..+|. .|++++|..+++.+.
T Consensus         5 ~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             THHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             cCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555555555433211 3333334444444 555555555555544

...

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

Probab=96.20  E-value=0.2  Score=42.04  Aligned_cols=102  Identities=14%  Similarity=0.058  Sum_probs=75.8

Q ss_pred             CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           47 PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      .+.++.|.+.-+... .+..|+.+-.+-.+.|.+++|.+-|-+.      -|...|.-+++.+.+.|.+++-.++..+.+
T Consensus      1088 i~~ldRA~efAe~~n-~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaR 1160 (1666)
T KOG0985|consen 1088 IGSLDRAYEFAERCN-EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMAR 1160 (1666)
T ss_pred             hhhHHHHHHHHHhhC-ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            444444444443333 2346888888888888888888776543      367789999999999999999999888888


Q ss_pred             HHhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917          127 KVGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       127 ~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      +..-+|  .+-+.|+-+|++.+++.+-+++.
T Consensus      1161 kk~~E~--~id~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1161 KKVREP--YIDSELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             HhhcCc--cchHHHHHHHHHhchHHHHHHHh
Confidence            876665  45578999999999998887764

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

Probab=96.20  E-value=0.016  Score=31.85  Aligned_cols=59  Identities=8%  Similarity=-0.136  Sum_probs=36.1

Q ss_pred             ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcC-ChhHHHHhhcc
Q 045917          100 LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACK-EIDFAKALFDE  159 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g-~~~~a~~~~~~  159 (162)
                      .+|..+-..+...|++++|...+....+.. +-+...|..+-.+|.+.| ++++|.+.|++
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            345555556666666777766666666653 234566666666666666 56666666543

...

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

Probab=96.16  E-value=0.18  Score=39.22  Aligned_cols=135  Identities=15%  Similarity=0.148  Sum_probs=94.9

Q ss_pred             hhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC------CChhHHHHHHHHHHcCCCchHHHHHHHH-HHHc
Q 045917           22 LPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM------PPLFAYNTLIRAYAKTSCSIESIKLFDE-MLKT   93 (162)
Q Consensus        22 ~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~~~~~~~li~~~~~~~~~~~a~~~~~~-m~~~   93 (162)
                      .+..+++.-..--+.+|...|+.-- ..-+..|..+|....      ..++..+++|.-|+. ++.+-|.++|.- |+..
T Consensus       353 ~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf  431 (656)
T KOG1914|consen  353 IYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKF  431 (656)
T ss_pred             HHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhc
Confidence            3444433322223455666666655 666788888888886      367788888887765 577778888876 4444


Q ss_pred             CCCCCCccH-HHHHHHhhhhccchhhhHHHHHHHHHhcCcc--hhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           94 GLRPDNLTY-PFVVKASDQCLLIGVGGSVHSLIFKVGLHSD--KYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        94 ~~~p~~~t~-~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~--~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |   |+-.| ...++.+...++-..++.+|+.+...+..||  ..+|..+|+-=+.-|++..+.++-+++
T Consensus       432 ~---d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~  498 (656)
T KOG1914|consen  432 G---DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRR  498 (656)
T ss_pred             C---CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            3   33333 5677888888888999999999888866555  578999999999999999888775543

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

Probab=96.13  E-value=0.22  Score=38.38  Aligned_cols=142  Identities=13%  Similarity=0.135  Sum_probs=97.8

Q ss_pred             HHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCCCchHHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      -++...++|+.+++.....=...|.. |---+.+=- .|++..|..+|..-.   |+...|++.|+.=.+-.+.+.|..+
T Consensus       118 mknk~vNhARNv~dRAvt~lPRVdql-WyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~I  196 (677)
T KOG1915|consen  118 MKNKQVNHARNVWDRAVTILPRVDQL-WYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSI  196 (677)
T ss_pred             HhhhhHhHHHHHHHHHHHhcchHHHH-HHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHH
Confidence            34456677777777664432222221 111111222 799999999998654   9999999999999999999999999


Q ss_pred             HHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH----hcCChhHHHHhh
Q 045917           87 FDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA----ACKEIDFAKALF  157 (162)
Q Consensus        87 ~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~----~~g~~~~a~~~~  157 (162)
                      |..-+-  +-|+..+|.-....-.++|....+.+++......  ..|...-..|+.+++    ++..++.|.-+|
T Consensus       197 YerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iy  267 (677)
T KOG1915|consen  197 YERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIY  267 (677)
T ss_pred             HHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999754  4499999999888888999999999998876653  123333344445554    455556665554

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

Probab=96.09  E-value=0.21  Score=39.02  Aligned_cols=112  Identities=13%  Similarity=0.054  Sum_probs=77.9

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHH--cCCCC----CCccHHHHHHHhhhhccch
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLK--TGLRP----DNLTYPFVVKASDQCLLIG  116 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p----~~~t~~~li~~~~~~~~~~  116 (162)
                      .+.++.|.+.|.+..    .|+...+.+=-...+.+.+.+|...|+.-+.  ..+.+    ...+++.|=.+|.+.+.++
T Consensus       393 t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~  472 (611)
T KOG1173|consen  393 TNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYE  472 (611)
T ss_pred             hccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHH
Confidence            567777777777665    3566666665555556778888888877652  12222    2234566667777888888


Q ss_pred             hhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          117 VGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       117 ~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +|...++...... +.+..++.++--.|...|+++.|...|++
T Consensus       473 eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhK  514 (611)
T KOG1173|consen  473 EAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHK  514 (611)
T ss_pred             HHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHH
Confidence            8888888777653 45788888888888888888888887764

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

Probab=96.07  E-value=0.15  Score=38.93  Aligned_cols=137  Identities=12%  Similarity=0.099  Sum_probs=95.9

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhc-CCCchhHHHHHHHhhCCCChHHHHHHhhhhC---CChhHH-HHHHHHHHcCCCc
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTS-LDHNTYIISRFILTSLPISLHFTRSLFNNVM---PPLFAY-NTLIRAYAKTSCS   80 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m~---~~~~~~-~~li~~~~~~~~~   80 (162)
                      +++.+.+-..++.|+.+|-..++.| +.++++++++++..++.|+..-|.++|+-=-   ||...| +-.+.-+.+.++-
T Consensus       403 ~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde  482 (660)
T COG5107         403 HLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDE  482 (660)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcH
Confidence            3444555567888999999999999 6789999999999999888888999988433   665554 4466667778888


Q ss_pred             hHHHHHHHHHHHcCCC--CCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           81 IESIKLFDEMLKTGLR--PDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~--p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      +.|..+|+.-... +.  --...|-.+|+.-..-|++..+..+-+.+...  .|-..+.....+-|+
T Consensus       483 ~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         483 ENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            8899999854321 11  12456888888888888887777776666543  344444444444444

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

Probab=96.06  E-value=0.29  Score=38.23  Aligned_cols=139  Identities=13%  Similarity=0.013  Sum_probs=103.1

Q ss_pred             hhcchhHHH-HHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           18 HHHQLPALF-LKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        18 ~a~~~~~~~-~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      +..++|-.+ ...+-.+|+.+...|=-.|. .|.++.|..-|+..-    -|...||-+=..++...+.++|...|++.+
T Consensus       412 ~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rAL  491 (579)
T KOG1125|consen  412 HIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRAL  491 (579)
T ss_pred             HHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHH
Confidence            334444333 45555578888888888888 999999999999876    468889999999999999999999999987


Q ss_pred             HcCCCCCCc-cHHHHHHHhhhhccchhhhHHHHHHHH---Hh------cCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           92 KTGLRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIFK---VG------LHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        92 ~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~~---~~------~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +  +.|+.+ ....|-=+|...|.+.+|.+.+-....   .+      ..++..+|.+|=.++...++.|.+.++..
T Consensus       492 q--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a~~  566 (579)
T KOG1125|consen  492 Q--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEAAP  566 (579)
T ss_pred             h--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHhcc
Confidence            6  556533 334455567889999999887655432   21      12345688888888888888886665543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.04  E-value=0.07  Score=34.80  Aligned_cols=81  Identities=7%  Similarity=-0.061  Sum_probs=62.9

Q ss_pred             CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           47 PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      .|++++|.++|+-..   |. ..-|-.+=..+-..|++++|++.|......+. -|...+-.+-.++...|+.+.|++.|
T Consensus        48 ~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A~~aF  126 (157)
T PRK15363         48 VKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYAIKAL  126 (157)
T ss_pred             CCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHHHHHH
Confidence            899999999999887   43 44455555556667999999999999876653 56677777888888999999999998


Q ss_pred             HHHHHH
Q 045917          123 SLIFKV  128 (162)
Q Consensus       123 ~~~~~~  128 (162)
                      +.....
T Consensus       127 ~~Ai~~  132 (157)
T PRK15363        127 KAVVRI  132 (157)
T ss_pred             HHHHHH
Confidence            877664

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.99  E-value=0.13  Score=36.62  Aligned_cols=93  Identities=14%  Similarity=0.040  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC----ccHHHHHHHhhhhccchhhhHHHHHHHHHhc--CcchhHHH
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN----LTYPFVVKASDQCLLIGVGGSVHSLIFKVGL--HSDKYIGN  138 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~--~~~~~~~~  138 (162)
                      ..|...+..+.+.|++++|...|+...+.  -|+.    ..+-.+-..+...|++++|...|..+.+.-.  ......+-
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            34666665556667888888888887653  2333    2445566777778888888888877776411  11233333


Q ss_pred             HHHHHHHhcCChhHHHHhhcc
Q 045917          139 TLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       139 ~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+..+|.+.|+.++|.++|++
T Consensus       222 klg~~~~~~g~~~~A~~~~~~  242 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQ  242 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHH
Confidence            445567778888888887764

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

Probab=95.99  E-value=0.1  Score=40.12  Aligned_cols=111  Identities=13%  Similarity=0.077  Sum_probs=75.3

Q ss_pred             CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHHHHHHHHcC-----CCCCCcc--HHHHHHHhhhhccc
Q 045917           47 PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKLFDEMLKTG-----LRPDNLT--YPFVVKASDQCLLI  115 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~p~~~t--~~~li~~~~~~~~~  115 (162)
                      .++++++...|++..   |+ +..||-.-..+...+++++|.+.|+.-.+..     +-.+..+  --.++..- ..+++
T Consensus       441 ~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~  519 (606)
T KOG0547|consen  441 QHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDI  519 (606)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhH
Confidence            677888888888776   43 6677777778888888888888888764421     1111111  11222222 23778


Q ss_pred             hhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          116 GVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       116 ~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..|..+.....+... .....|.+|-..-...|++++|.++|++
T Consensus       520 ~~a~~Ll~KA~e~Dp-kce~A~~tlaq~~lQ~~~i~eAielFEk  562 (606)
T KOG0547|consen  520 NQAENLLRKAIELDP-KCEQAYETLAQFELQRGKIDEAIELFEK  562 (606)
T ss_pred             HHHHHHHHHHHccCc-hHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            888887777766542 3456788888888899999999999975

>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=95.98  E-value=0.028  Score=35.96  Aligned_cols=57  Identities=12%  Similarity=-0.042  Sum_probs=45.2

Q ss_pred             HHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          103 PFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       103 ~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ..++..+...|+.+.+..+...+.... +.|...|..+|.+|.+.|+...|.++|+++
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            345556667889999999988888764 457889999999999999999999999875

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

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

Probab=95.95  E-value=0.018  Score=32.53  Aligned_cols=59  Identities=14%  Similarity=0.091  Sum_probs=37.5

Q ss_pred             cHHHHHHHhhhhccchhhhHHHHHHHHHh--c---Ccc-hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          101 TYPFVVKASDQCLLIGVGGSVHSLIFKVG--L---HSD-KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       101 t~~~li~~~~~~~~~~~a~~i~~~~~~~~--~---~~~-~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +++.+-..+...|++++|...++...+..  .   .|+ ..++..+-.+|.+.|++++|.+.+++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~   71 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQK   71 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34555566666667777766666554321  1   122 55677788888888888888888764

...

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

Probab=95.93  E-value=0.14  Score=42.32  Aligned_cols=96  Identities=13%  Similarity=-0.013  Sum_probs=64.5

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCC--CCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc--hhHH
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGL--RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD--KYIG  137 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~--~~~~  137 (162)
                      .++..-+.|-+.|.-.|+++.+..+...+.....  ..-...|-.+-+++-..|++++|..++..-.+.  .+|  +..+
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~  345 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPL  345 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccc
Confidence            4666777777888888888888888777755431  112334666777777778888888877665543  233  3334


Q ss_pred             HHHHHHHHhcCChhHHHHhhcc
Q 045917          138 NTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       138 ~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      -.|-..|.+.|+++.|...|++
T Consensus       346 ~GlgQm~i~~~dle~s~~~fEk  367 (1018)
T KOG2002|consen  346 VGLGQMYIKRGDLEESKFCFEK  367 (1018)
T ss_pred             cchhHHHHHhchHHHHHHHHHH
Confidence            5677788888888888777764

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=95.92  E-value=0.093  Score=34.23  Aligned_cols=83  Identities=8%  Similarity=0.035  Sum_probs=62.5

Q ss_pred             HHcCCCchHHHHHHHHHHHcCCCCCCcc-HHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917           74 YAKTSCSIESIKLFDEMLKTGLRPDNLT-YPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      +...|++++|..+|+-...  +.|+... |-.|--.+-..|++++|...+........ -|+..+-.+=.+|.+.|+.+.
T Consensus        45 ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~  121 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCY  121 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHH
Confidence            4467899999999988765  3444444 34555566667889999999988877663 467888888889999999999


Q ss_pred             HHHhhcc
Q 045917          153 AKALFDE  159 (162)
Q Consensus       153 a~~~~~~  159 (162)
                      |++.|+.
T Consensus       122 A~~aF~~  128 (157)
T PRK15363        122 AIKALKA  128 (157)
T ss_pred             HHHHHHH
Confidence            9888863

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

Probab=95.87  E-value=0.6  Score=37.51  Aligned_cols=140  Identities=9%  Similarity=0.005  Sum_probs=82.7

Q ss_pred             hhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           16 AHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      ++-|+.+|....+- ++-+...|......=- .|..++...+|+...   | ....|-.....+-..|++..|..++.+.
T Consensus       532 ~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~a  610 (913)
T KOG0495|consen  532 IECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQA  610 (913)
T ss_pred             HHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            34445555555443 2334455555544444 677777777777665   3 3444555555555567777777777776


Q ss_pred             HHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           91 LKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        91 ~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+..- -+...|-+-++--.....++.|+.++.....  ..|+..+|..-++.---.|+.++|.+++++
T Consensus       611 f~~~p-nseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe  676 (913)
T KOG0495|consen  611 FEANP-NSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEE  676 (913)
T ss_pred             HHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHH
Confidence            55321 1344455556666666677777777766554  346666776666666666777777766643

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

Probab=95.87  E-value=0.096  Score=41.94  Aligned_cols=127  Identities=13%  Similarity=0.009  Sum_probs=81.4

Q ss_pred             CCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CC-------------------------------hhHHHHHHHHHHcC
Q 045917           31 LDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PP-------------------------------LFAYNTLIRAYAKT   77 (162)
Q Consensus        31 ~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~-------------------------------~~~~~~li~~~~~~   77 (162)
                      -+|++..|..+.+..- ..-+++|+++++... .-                               ..+|=..=.+..+.
T Consensus       453 k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALql  532 (777)
T KOG1128|consen  453 KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQL  532 (777)
T ss_pred             CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHH
Confidence            3677888888887777 667778888777543 10                               00111111122223


Q ss_pred             CCchHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHh
Q 045917           78 SCSIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKAL  156 (162)
Q Consensus        78 ~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~  156 (162)
                      ++.+.|.+.|..-..  ..|| ...||++-.++.+.++-.+|...+.+..+.+ .-+..+|...+..-.+-|.+++|.+.
T Consensus       533 ek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A  609 (777)
T KOG1128|consen  533 EKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKA  609 (777)
T ss_pred             hhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHH
Confidence            455555555544432  3343 4558888888888888888888888877776 44677788888888888888888887


Q ss_pred             hccc
Q 045917          157 FDEM  160 (162)
Q Consensus       157 ~~~m  160 (162)
                      +..|
T Consensus       610 ~~rl  613 (777)
T KOG1128|consen  610 YHRL  613 (777)
T ss_pred             HHHH
Confidence            7655

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

Probab=95.85  E-value=0.22  Score=40.89  Aligned_cols=126  Identities=10%  Similarity=0.016  Sum_probs=94.2

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC---CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL---PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      +++..|.+-...+.+.-  |+ ..|...++++.   .|+.++|..+++...    .|..|..++-..|...++.++|..+
T Consensus        23 ~qfkkal~~~~kllkk~--Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKKH--PN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             HHHHHHHHHHHHHHHHC--CC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHH
Confidence            34555655554443321  22 23667777777   899999999999876    6889999999999999999999999


Q ss_pred             HHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           87 FDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        87 ~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      |.+..+  .-|+..-...++.+|.+.+++.+-.++--++-+. ++.+++.+.++++.+.
T Consensus       100 Ye~~~~--~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slil  155 (932)
T KOG2053|consen  100 YERANQ--KYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLIL  155 (932)
T ss_pred             HHHHHh--hCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHH
Confidence            999854  5577777888999999999888777766555553 4456777777777665

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.76  E-value=0.38  Score=37.74  Aligned_cols=129  Identities=12%  Similarity=0.024  Sum_probs=84.2

Q ss_pred             hcCCCchhHHHHHHHhhC---CC---ChHHHHHHhhhhC---CC-hhHHHHHHHHHHcC----C----CchHHHHHHHHH
Q 045917           29 TSLDHNTYIISRFILTSL---PI---SLHFTRSLFNNVM---PP-LFAYNTLIRAYAKT----S----CSIESIKLFDEM   90 (162)
Q Consensus        29 ~~~~~~~~~~~~ll~~~~---~~---~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~----~----~~~~a~~~~~~m   90 (162)
                      .+.+.+...|...+++..   .+   ....|..+|++..   |+ ...|..+-.++...    .    ++..+.+.....
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            445677888999998866   22   3778888998886   65 34444433333222    1    112222322222


Q ss_pred             HHc-CCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           91 LKT-GLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        91 ~~~-~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ... ....+...|..+--.....|++++|...++.....+  |+...|..+-..|...|+.++|.+.+++
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~  478 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYST  478 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            221 122344566666555556789999999999988875  6788888899999999999999988764

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

Probab=95.75  E-value=0.41  Score=39.31  Aligned_cols=97  Identities=9%  Similarity=0.038  Sum_probs=82.3

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      +.-.|--+-.+|...|++++|+++|........--+...|-.+-..+-..|..++|.+.+..+.... +-+...--+|-.
T Consensus       413 ~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Las  491 (895)
T KOG2076|consen  413 DVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLAS  491 (895)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHH
Confidence            4566888899999999999999999999887666667778888899999999999999999988763 234666678888


Q ss_pred             HHHhcCChhHHHHhhccc
Q 045917          143 MYAACKEIDFAKALFDEM  160 (162)
Q Consensus       143 ~y~~~g~~~~a~~~~~~m  160 (162)
                      .|-..|+.|+|.+++..|
T Consensus       492 l~~~~g~~EkalEtL~~~  509 (895)
T KOG2076|consen  492 LYQQLGNHEKALETLEQI  509 (895)
T ss_pred             HHHhcCCHHHHHHHHhcc
Confidence            999999999999998875

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

Probab=95.75  E-value=0.021  Score=31.04  Aligned_cols=51  Identities=16%  Similarity=-0.071  Sum_probs=28.1

Q ss_pred             HhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+.+.|++++|...++.+.+.. +-+...+..+-.++...|++++|...|++
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~   56 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYER   56 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4445566666666666655543 22455555555566666666666665554

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=95.69  E-value=0.13  Score=33.06  Aligned_cols=89  Identities=12%  Similarity=0.191  Sum_probs=66.5

Q ss_pred             HHHHHhcCCCch--hHHHHHHHhhC-CCChHHHHHHhhhhC----------CChhHHHHHHHHHHcCCC-chHHHHHHHH
Q 045917           24 ALFLKTSLDHNT--YIISRFILTSL-PISLHFTRSLFNNVM----------PPLFAYNTLIRAYAKTSC-SIESIKLFDE   89 (162)
Q Consensus        24 ~~~~~~~~~~~~--~~~~~ll~~~~-~~~~~~a~~~~~~m~----------~~~~~~~~li~~~~~~~~-~~~a~~~~~~   89 (162)
                      ..|++.+..++.  ...|.++.... .+.+....++++.+.          .+..+|++++.+..+..- ---+..+|+-
T Consensus        26 ~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~  105 (145)
T PF13762_consen   26 PYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNF  105 (145)
T ss_pred             HHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHH
Confidence            334555555543  44688888888 888888888888776          456678999998877655 3446688888


Q ss_pred             HHHcCCCCCCccHHHHHHHhhhh
Q 045917           90 MLKTGLRPDNLTYPFVVKASDQC  112 (162)
Q Consensus        90 m~~~~~~p~~~t~~~li~~~~~~  112 (162)
                      |++.+.+++..-|..+|+++.+.
T Consensus       106 Lk~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen  106 LKKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHcC
Confidence            88888888888899999987654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.66  E-value=0.31  Score=35.03  Aligned_cols=120  Identities=4%  Similarity=-0.068  Sum_probs=78.7

Q ss_pred             HHHHHHhhCCCChHHHHHHhhhhC------CChhHHHHHHHHHHc-CC-CchHHHHHHHHHHH-cCCCCCCccHHHHHHH
Q 045917           38 ISRFILTSLPISLHFTRSLFNNVM------PPLFAYNTLIRAYAK-TS-CSIESIKLFDEMLK-TGLRPDNLTYPFVVKA  108 (162)
Q Consensus        38 ~~~ll~~~~~~~~~~a~~~~~~m~------~~~~~~~~li~~~~~-~~-~~~~a~~~~~~m~~-~~~~p~~~t~~~li~~  108 (162)
                      |..|++.  +..+.+|.++|+...      .|......+++.... .+ .+..-.++.+-+.. .|-.++..+...+|+.
T Consensus       134 Y~~LVk~--N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~  211 (292)
T PF13929_consen  134 YWDLVKR--NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEI  211 (292)
T ss_pred             HHHHHHh--hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHH
Confidence            6655544  555667777777322      456666666666655 22 23333344454443 2566777777788888


Q ss_pred             hhhhccchhhhHHHHHHHHH-hcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          109 SDQCLLIGVGGSVHSLIFKV-GLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       109 ~~~~~~~~~a~~i~~~~~~~-~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ++..+++.+..+++...... +..-|...|..+|+.-.+.|+.+-...+.++
T Consensus       212 L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  212 LAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            88888888888887776554 5566788888888888888888877776543

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

Probab=95.64  E-value=0.46  Score=33.09  Aligned_cols=147  Identities=8%  Similarity=-0.112  Sum_probs=109.4

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--C----ChhHHHHHHHHHHcCC
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--P----PLFAYNTLIRAYAKTS   78 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~----~~~~~~~li~~~~~~~   78 (162)
                      +..++..-|..+.|.+-|+...+.... +-.+.|.-=..+| .|++++|...|+...  |    ...+|..+--+..+.|
T Consensus        75 ~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~g  153 (250)
T COG3063          75 RAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAG  153 (250)
T ss_pred             HHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcC
Confidence            445566667888888888877654322 2233455555666 899999999999876  3    3567888888888999


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHH
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      +++.|.+.|++-.+..- -...+.-.+.+...+.|++..|...++.....+. ++.......++.=-+.|+.+.+.+
T Consensus       154 q~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~  228 (250)
T COG3063         154 QFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQR  228 (250)
T ss_pred             CchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999766421 2344566788888899999999999988877765 777777777777777888777654

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

Probab=95.59  E-value=0.15  Score=38.91  Aligned_cols=92  Identities=15%  Similarity=0.141  Sum_probs=69.6

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcC-CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhH-HHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTG-LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYI-GNTLL  141 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~-~~~ll  141 (162)
                      +..|...|+.-.+..-++.|..+|-+..+.| +.+++..++++++.++. |+...|..+|+--.+.  -||... .+..+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            5668888888888888999999999998888 68899999999998864 5667777777654333  244433 35677


Q ss_pred             HHHHhcCChhHHHHhhc
Q 045917          142 RMYAACKEIDFAKALFD  158 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~  158 (162)
                      ..+.+.++-+.|..+|+
T Consensus       474 ~fLi~inde~naraLFe  490 (660)
T COG5107         474 LFLIRINDEENARALFE  490 (660)
T ss_pred             HHHHHhCcHHHHHHHHH
Confidence            77778888888888776

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=95.58  E-value=0.38  Score=31.73  Aligned_cols=85  Identities=12%  Similarity=-0.001  Sum_probs=47.6

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC--CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD--NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL  141 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll  141 (162)
                      ...+..+-..+...|++++|...|++..+..-.++  ...+..+...+.+.|++++|...+....+.. +-+...+..+-
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            33455555556666777777777776654332222  2345556666666777777777666665542 12344445555


Q ss_pred             HHHHhcCC
Q 045917          142 RMYAACKE  149 (162)
Q Consensus       142 ~~y~~~g~  149 (162)
                      .+|...|+
T Consensus       114 ~~~~~~g~  121 (172)
T PRK02603        114 VIYHKRGE  121 (172)
T ss_pred             HHHHHcCC
Confidence            55555555

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.54  E-value=0.036  Score=30.77  Aligned_cols=57  Identities=9%  Similarity=-0.021  Sum_probs=43.6

Q ss_pred             HHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           72 RAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      ..|.+.+++++|.++++.+...+- .+...+...-..+.+.|++++|...++...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            457788999999999999876522 255556667778888899999999988888764

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

Probab=95.53  E-value=0.26  Score=37.68  Aligned_cols=139  Identities=10%  Similarity=0.045  Sum_probs=93.0

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCC-C---c-hhHHHHHHHhhCCCChHHHHHHhhhhC---CChhHHHHHHHHH--HcCC
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLD-H---N-TYIISRFILTSLPISLHFTRSLFNNVM---PPLFAYNTLIRAY--AKTS   78 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~-~---~-~~~~~~ll~~~~~~~~~~a~~~~~~m~---~~~~~~~~li~~~--~~~~   78 (162)
                      +|.+.+++.+|+.++....+..-. |   . ....+.++++|...+++..+....+..   | ...|-.+..+.  .+.+
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~nld~Me~~l~~l~~~~~-~s~~l~LF~~L~~Y~~k   93 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNNLDLMEKQLMELRQQFG-KSAYLPLFKALVAYKQK   93 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhhHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHhh
Confidence            345667889999988777554322 2   2 455688888888667777777777666   4 33444444443  3568


Q ss_pred             CchHHHHHHHHHHHc--CCCC------------CCccHHHHHHHhhhhccchhhhHHHHHHHHHh----cCcchhHHHHH
Q 045917           79 CSIESIKLFDEMLKT--GLRP------------DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG----LHSDKYIGNTL  140 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~--~~~p------------~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~----~~~~~~~~~~l  140 (162)
                      +..+|.+.+..-.+.  +-.|            |..-=+..+.+....|++.+++.+...+...-    +.-+..+|+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~  173 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRA  173 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHH
Confidence            889998888776554  3222            11112445667778999999999888876543    34788999998


Q ss_pred             HHHHHhcC
Q 045917          141 LRMYAACK  148 (162)
Q Consensus       141 l~~y~~~g  148 (162)
                      +-+|+++=
T Consensus       174 vlmlsrSY  181 (549)
T PF07079_consen  174 VLMLSRSY  181 (549)
T ss_pred             HHHHhHHH
Confidence            88877653

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

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=95.52  E-value=0.77  Score=34.91  Aligned_cols=150  Identities=10%  Similarity=-0.022  Sum_probs=92.7

Q ss_pred             HHHHHHHhh--chhhhcchhHHHH-HhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHH---HHHHHHcC
Q 045917            6 IETLIQLSK--TAHHHHQLPALFL-KTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNT---LIRAYAKT   77 (162)
Q Consensus         6 ~~~~l~~~~--~~~~a~~~~~~~~-~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~---li~~~~~~   77 (162)
                      +..++..|.  +-..+-+.+-.+. ...++-+......+-+.+. .|+.++|...|+... .|+++...   .--.+++.
T Consensus       200 wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~e  279 (564)
T KOG1174|consen  200 WIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQE  279 (564)
T ss_pred             HHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhc
Confidence            344444443  3333444444443 3446778899999999999 999999999999887 44433222   12233456


Q ss_pred             CCchHHHHHHHHHHHcC------------------------------CCCCCccHHHHH---HHhhhhccchhhhHHHHH
Q 045917           78 SCSIESIKLFDEMLKTG------------------------------LRPDNLTYPFVV---KASDQCLLIGVGGSVHSL  124 (162)
Q Consensus        78 ~~~~~a~~~~~~m~~~~------------------------------~~p~~~t~~~li---~~~~~~~~~~~a~~i~~~  124 (162)
                      |+.++...+...+....                              +..|......+|   ..+...++.++|.-.|+.
T Consensus       280 g~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~  359 (564)
T KOG1174|consen  280 GGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRT  359 (564)
T ss_pred             cCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHH
Confidence            66666666655543321                              222333333332   233345566666666666


Q ss_pred             HHHHhcCcchhHHHHHHHHHHhcCChhHHHHh
Q 045917          125 IFKVGLHSDKYIGNTLLRMYAACKEIDFAKAL  156 (162)
Q Consensus       125 ~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~  156 (162)
                      ..... +-+...|..|+++|...|++.+|.-.
T Consensus       360 Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~  390 (564)
T KOG1174|consen  360 AQMLA-PYRLEIYRGLFHSYLAQKRFKEANAL  390 (564)
T ss_pred             HHhcc-hhhHHHHHHHHHHHHhhchHHHHHHH
Confidence            65543 34688999999999999999998754

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

Probab=95.50  E-value=0.27  Score=40.96  Aligned_cols=124  Identities=9%  Similarity=0.015  Sum_probs=87.8

Q ss_pred             hcCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC---CC---hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC---
Q 045917           29 TSLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM---PP---LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP---   97 (162)
Q Consensus        29 ~~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p---   97 (162)
                      .+..| +...+-.|+..+. .+++++|..+.++..   |+   ..-+..+  .+.+.++..++.-+  .+... +..   
T Consensus        24 ~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~--l~~q~~~~~~~~lv--~~l~~-~~~~~~   98 (906)
T PRK14720         24 NNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGI--LSLSRRPLNDSNLL--NLIDS-FSQNLK   98 (906)
T ss_pred             ccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHH--HHHhhcchhhhhhh--hhhhh-cccccc
Confidence            33444 4677888899997 999999999988654   44   3333333  44555555555555  22211 122   


Q ss_pred             ----------------CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           98 ----------------DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        98 ----------------~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                                      +......+..+|-+.|+.+++..+++.+.+.. +-|+.+.|.+-..|+.. ++++|.+++.+
T Consensus        99 ~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~K  174 (906)
T PRK14720         99 WAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKK  174 (906)
T ss_pred             hhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHH
Confidence                            22566777888888999999999999999987 45788999999999999 99999887653

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.22  E-value=0.44  Score=34.67  Aligned_cols=114  Identities=16%  Similarity=0.077  Sum_probs=69.8

Q ss_pred             CCChHHHHHHhhhhC--CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHH
Q 045917           47 PISLHFTRSLFNNVM--PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSL  124 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~  124 (162)
                      .+++..+..+.++.+  .+..+.+..=....+.|+.+.|..=|++..+-+---....|+..+-.| +.|+...|.+...+
T Consensus       125 e~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSE  203 (459)
T KOG4340|consen  125 EGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISE  203 (459)
T ss_pred             cccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHH
Confidence            556666666666655  233333333333456788888888888876654333455676655544 66778888888888


Q ss_pred             HHHHhcC-------------cchh--------HHHHHHHH-------HHhcCChhHHHHhhcccC
Q 045917          125 IFKVGLH-------------SDKY--------IGNTLLRM-------YAACKEIDFAKALFDEMP  161 (162)
Q Consensus       125 ~~~~~~~-------------~~~~--------~~~~ll~~-------y~~~g~~~~a~~~~~~m~  161 (162)
                      +.++|+.             ||+.        ..+.++.+       +.+.|+.+.|.+.+-+||
T Consensus       204 IieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmP  268 (459)
T KOG4340|consen  204 IIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMP  268 (459)
T ss_pred             HHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCC
Confidence            8777642             2211        12334443       347889999988888776

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

Probab=95.07  E-value=1  Score=36.31  Aligned_cols=142  Identities=11%  Similarity=0.028  Sum_probs=74.8

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCCCchHHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTSCSIESIKLFDE   89 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (162)
                      |+...|+.+++..-... +.+..+|-+.++.-+ +..++.|..+|....   |+...|---++.---.++.++|.+++.+
T Consensus       598 gdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe  676 (913)
T KOG0495|consen  598 GDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEE  676 (913)
T ss_pred             CCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHH
Confidence            45555555555554432 225556666666666 677777777777665   5555554444444445556666666544


Q ss_pred             HHHc------------------------------C---CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhH
Q 045917           90 MLKT------------------------------G---LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYI  136 (162)
Q Consensus        90 m~~~------------------------------~---~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~  136 (162)
                      -.+.                              |   ++-...-|-.|.+---+.|.+-.|+.+++.....+ +.+...
T Consensus       677 ~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~l  755 (913)
T KOG0495|consen  677 ALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALL  755 (913)
T ss_pred             HHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchh
Confidence            3221                              1   11112223333333333445555555555544443 345666


Q ss_pred             HHHHHHHHHhcCChhHHHHhh
Q 045917          137 GNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       137 ~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      |-..|++=.+.|+.+.|..+.
T Consensus       756 wle~Ir~ElR~gn~~~a~~lm  776 (913)
T KOG0495|consen  756 WLESIRMELRAGNKEQAELLM  776 (913)
T ss_pred             HHHHHHHHHHcCCHHHHHHHH
Confidence            666666666677666665543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.04  E-value=0.5  Score=35.21  Aligned_cols=116  Identities=8%  Similarity=0.062  Sum_probs=71.4

Q ss_pred             hHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHH-HHHHcCCCchHHHHHHHHHHHcCCC
Q 045917           23 PALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLI-RAYAKTSCSIESIKLFDEMLKTGLR   96 (162)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~~~~   96 (162)
                      +..++..-..-|...+| +-++++ .|...+|+++|-.+.    .|.++|..++ ++|.+.++++.|.+++-.+-.    
T Consensus       382 lnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t----  456 (557)
T KOG3785|consen  382 LNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT----  456 (557)
T ss_pred             HHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC----
Confidence            33333333334444444 334555 788888888888776    5677776654 577788899988888766532    


Q ss_pred             CCCccHHH---HHHHhhhhccchhhhHHHHHHHHHhcCcchhH-------HHHHHHHHHh
Q 045917           97 PDNLTYPF---VVKASDQCLLIGVGGSVHSLIFKVGLHSDKYI-------GNTLLRMYAA  146 (162)
Q Consensus        97 p~~~t~~~---li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~-------~~~ll~~y~~  146 (162)
                       +...|+.   +.+-|-+.+.+--|-+.|..+....  |++.-       +..++...+.
T Consensus       457 -~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD--P~pEnWeGKRGACaG~f~~l~~  513 (557)
T KOG3785|consen  457 -PSERFSLLQLIANDCYKANEFYYAAKAFDELEILD--PTPENWEGKRGACAGLFRQLAN  513 (557)
T ss_pred             -chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC--CCccccCCccchHHHHHHHHHc
Confidence             2223322   3467778888877777787777653  33333       3445555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=95.04  E-value=0.94  Score=37.85  Aligned_cols=148  Identities=8%  Similarity=-0.048  Sum_probs=91.3

Q ss_pred             HhhchhhhcchhHHHHHhcCCCch----hHHHHHHHhhC-CCChHHHHHHhhhhC--------CC--hhHHHHHHHHHHc
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHNT----YIISRFILTSL-PISLHFTRSLFNNVM--------PP--LFAYNTLIRAYAK   76 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~-~~~~~~a~~~~~~m~--------~~--~~~~~~li~~~~~   76 (162)
                      ..|++++|...++.....-...+.    ...+.+-..+. .|++++|...+.+..        +.  ..++..+-..+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            346778888877776543111121    22333444455 999999999888764        11  2334445556777


Q ss_pred             CCCchHHHHHHHHHHHc----CCCC---CCccHHHHHHHhhhhccchhhhHHHHHHHHHh--cCc--chhHHHHHHHHHH
Q 045917           77 TSCSIESIKLFDEMLKT----GLRP---DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG--LHS--DKYIGNTLLRMYA  145 (162)
Q Consensus        77 ~~~~~~a~~~~~~m~~~----~~~p---~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~--~~~--~~~~~~~ll~~y~  145 (162)
                      .|++++|...+++..+.    +...   ....+..+-..+...|++++|...+.......  ..+  ....+..+-..+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            89999999999886442    2211   11223344455667799999998887764421  111  2334445666788


Q ss_pred             hcCChhHHHHhhcc
Q 045917          146 ACKEIDFAKALFDE  159 (162)
Q Consensus       146 ~~g~~~~a~~~~~~  159 (162)
                      ..|+.+.|.+.+++
T Consensus       624 ~~G~~~~A~~~l~~  637 (903)
T PRK04841        624 ARGDLDNARRYLNR  637 (903)
T ss_pred             HcCCHHHHHHHHHH
Confidence            89999999887765

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

Probab=95.03  E-value=0.26  Score=35.54  Aligned_cols=93  Identities=12%  Similarity=0.108  Sum_probs=59.3

Q ss_pred             hHHHHHhcCCCchhHHHHHHHhhCCCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccH
Q 045917           23 PALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  102 (162)
                      ++.|+..|+.-|..+|+.||+.+-.|.+           .....|....-+|.+..  +=+.+++++|...|+-||..+-
T Consensus        95 Lk~m~eyGVerDl~vYk~LlnvfPKgkf-----------iP~nvfQ~~F~HYP~QQ--~C~I~vLeqME~hGVmPdkE~e  161 (406)
T KOG3941|consen   95 LKYMKEYGVERDLDVYKGLLNVFPKGKF-----------IPQNVFQKVFLHYPQQQ--NCAIKVLEQMEWHGVMPDKEIE  161 (406)
T ss_pred             HHHHHHhcchhhHHHHHHHHHhCccccc-----------ccHHHHHHHHhhCchhh--hHHHHHHHHHHHcCCCCchHHH
Confidence            3444455555555555555443321111           23334455555555532  3467999999999999999999


Q ss_pred             HHHHHHhhhhcc-chhhhHHHHHHHHH
Q 045917          103 PFVVKASDQCLL-IGVGGSVHSLIFKV  128 (162)
Q Consensus       103 ~~li~~~~~~~~-~~~a~~i~~~~~~~  128 (162)
                      -.|++++++-+- ..+...+.-.|.+.
T Consensus       162 ~~lvn~FGr~~~p~~K~~Rm~yWmPkf  188 (406)
T KOG3941|consen  162 DILVNAFGRWNFPTKKVKRMLYWMPKF  188 (406)
T ss_pred             HHHHHHhccccccHHHHHHHHHhhhhh
Confidence            999999998764 55666777777664

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.99  E-value=0.15  Score=37.13  Aligned_cols=96  Identities=13%  Similarity=0.141  Sum_probs=72.2

Q ss_pred             hcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--C--------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC
Q 045917           29 TSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--P--------PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP   97 (162)
Q Consensus        29 ~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~--------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p   97 (162)
                      .|.+.++.+...++..-. ..+++++...+=..+  |        +.++|--++.   + =++++++-+...=.+-|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll---k-y~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL---K-YDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH---c-cChHHHHHHHhCcchhcccc
Confidence            455666677777777666 778888877665554  2        2333333333   2 36778999988888999999


Q ss_pred             CCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           98 DNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        98 ~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      |..+++.+|+.+.+.+++.+|.++...|...
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999999988777654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.91  E-value=0.42  Score=34.08  Aligned_cols=93  Identities=12%  Similarity=-0.116  Sum_probs=67.7

Q ss_pred             hHHHHHHHhhC-CCChHHHHHHhhhhC---CCh----hHHHHHHHHHHcCCCchHHHHHHHHHHHcCC--CCCCccHHHH
Q 045917           36 YIISRFILTSL-PISLHFTRSLFNNVM---PPL----FAYNTLIRAYAKTSCSIESIKLFDEMLKTGL--RPDNLTYPFV  105 (162)
Q Consensus        36 ~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~t~~~l  105 (162)
                      ..|...+..+. .|++++|...|+.+.   |+.    ..+--+-..|...|++++|...|+...+.--  ......+-.+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            45777777767 899999999999887   653    3555566778889999999999999975321  1112222234


Q ss_pred             HHHhhhhccchhhhHHHHHHHHH
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      ...+...|+.++|..+++.+.+.
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            45566789999999999888775

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

Probab=94.88  E-value=0.6  Score=36.61  Aligned_cols=128  Identities=13%  Similarity=0.042  Sum_probs=92.0

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-------CC----hhHHHHHHHHHHcCCCch
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-------PP----LFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-------~~----~~~~~~li~~~~~~~~~~   81 (162)
                      ++++.|.+.+.+...- .+-||...+-+=-... .+.+.+|...|+...       +.    ..+++.+=..|.+.++.+
T Consensus       394 ~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~  472 (611)
T KOG1173|consen  394 NNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYE  472 (611)
T ss_pred             ccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHH
Confidence            4566777777665432 2446777766655555 888999999988664       11    223555556677789999


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      +|+..|++-... .+-|..|++++--.+...|+++.|...+....  .+.|+-.+.+.++....
T Consensus       473 eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  473 EAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHH
Confidence            999999987654 34577788888888889999999998877654  45788888888887654

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

Probab=94.83  E-value=0.38  Score=38.89  Aligned_cols=113  Identities=12%  Similarity=-0.063  Sum_probs=87.2

Q ss_pred             hcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHH
Q 045917           29 TSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVV  106 (162)
Q Consensus        29 ~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  106 (162)
                      .|....-.+.+--+..+. .|+-..|.++-.+.+ ||-..|--=+.+++..+++++-+++-+.++      ++.-|.-++
T Consensus       678 ~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFV  751 (829)
T KOG2280|consen  678 FGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFV  751 (829)
T ss_pred             hccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHH
Confidence            444433344455555556 899999999999999 999999999999999999998887755553      255567799


Q ss_pred             HHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHh
Q 045917          107 KASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKAL  156 (162)
Q Consensus       107 ~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~  156 (162)
                      .+|.+.|+..+|.+++..+..         +.-.+.+|.+.|++.+|.++
T Consensus       752 e~c~~~~n~~EA~KYiprv~~---------l~ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  752 EACLKQGNKDEAKKYIPRVGG---------LQEKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HHHHhcccHHHHhhhhhccCC---------hHHHHHHHHHhccHHHHHHH
Confidence            999999999999988754321         12677899999999988775

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=94.83  E-value=0.54  Score=29.29  Aligned_cols=87  Identities=14%  Similarity=-0.010  Sum_probs=59.5

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhH--HHHHHHhhC-CCChHHHHHHhhhhC---CC---hhHH-HHHHHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYI--ISRFILTSL-PISLHFTRSLFNNVM---PP---LFAY-NTLIRAYA   75 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~-~~~~~~a~~~~~~m~---~~---~~~~-~~li~~~~   75 (162)
                      ....+...|+.++|..+|+.....|.......  +-.+=..+. .|++++|..+|++..   |+   .... ..+--++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            34556677899999999999999887654322  222333444 999999999999876   54   2222 22223556


Q ss_pred             cCCCchHHHHHHHHHHH
Q 045917           76 KTSCSIESIKLFDEMLK   92 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~   92 (162)
                      ..|+.++|++.+-....
T Consensus        87 ~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA  103 (120)
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            67999999988766543

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

Probab=94.81  E-value=0.9  Score=36.44  Aligned_cols=143  Identities=11%  Similarity=0.047  Sum_probs=96.5

Q ss_pred             HHHHHHhh--chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-----CCChHHHHHHhhhhC------CChhHHHHHHHH
Q 045917            7 ETLIQLSK--TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-----PISLHFTRSLFNNVM------PPLFAYNTLIRA   73 (162)
Q Consensus         7 ~~~l~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-----~~~~~~a~~~~~~m~------~~~~~~~~li~~   73 (162)
                      ..++.+.|  .++.|+.+|.+.++ |++|...  -.+--.|+     .|....|..++++..      --...||+.|.-
T Consensus       555 tkfi~rygg~klEraRdLFEqaL~-~Cpp~~a--KtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~k  631 (835)
T KOG2047|consen  555 TKFIKRYGGTKLERARDLFEQALD-GCPPEHA--KTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKK  631 (835)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHH--HHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            34455555  57899999999988 7775432  22222333     788899999999876      235578988887


Q ss_pred             HHcCCCchHHHHHHHHHHHcCCCCCCccHHHH---HHHhhhhccchhhhHHHHHHHHH-hcCcchhHHHHHHHHHHhcCC
Q 045917           74 YAKTSCSIESIKLFDEMLKTGLRPDNLTYPFV---VKASDQCLLIGVGGSVHSLIFKV-GLHSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l---i~~~~~~~~~~~a~~i~~~~~~~-~~~~~~~~~~~ll~~y~~~g~  149 (162)
                      .+..=-+....++|++..+.  -||...-...   .+.-++.|..+.|+.++..-.+- ....+...|.+.=..=.+.|+
T Consensus       632 aae~yGv~~TR~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  632 AAEIYGVPRTREIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             HHHHhCCcccHHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            77776677788888887664  5665544333   34456778888998888776553 223456667777777778888


Q ss_pred             hhHHH
Q 045917          150 IDFAK  154 (162)
Q Consensus       150 ~~~a~  154 (162)
                      =+...
T Consensus       710 edT~k  714 (835)
T KOG2047|consen  710 EDTYK  714 (835)
T ss_pred             HHHHH
Confidence            44433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.74  E-value=0.19  Score=27.79  Aligned_cols=46  Identities=7%  Similarity=0.009  Sum_probs=25.6

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      .++++.|..+++.+.    .+...|...=..+.+.|++++|...|+...+
T Consensus         8 ~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    8 QEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             CCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            556666666666554    2344444455555556666666666665543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.57  E-value=0.091  Score=38.93  Aligned_cols=137  Identities=15%  Similarity=0.144  Sum_probs=83.3

Q ss_pred             hcchhHHHHHhcCCCchhHHHHHHHhhC--CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           19 HHQLPALFLKTSLDHNTYIISRFILTSL--PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        19 a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      |++.+...=..+..-|+.--..=+.+|.  ..+++++...++.++     -|.+.+| +-.+++..|...+|.++|-...
T Consensus       342 AqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is  420 (557)
T KOG3785|consen  342 AQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRIS  420 (557)
T ss_pred             HHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhc
Confidence            4555554444444444433333333333  777888888877776     4444444 4567777899999999987663


Q ss_pred             HcCCCCCCccHHH-HHHHhhhhccchhhhHHHHHHHHHhcCcchhHH-HHHHHHHHhcCChhHHHHhhccc
Q 045917           92 KTGLRPDNLTYPF-VVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIG-NTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        92 ~~~~~p~~~t~~~-li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~-~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ...+ -|..+|-+ |.+.|.+.+..+.|+.++-.+   .-..+.... ..+-+-+-+++++=-|-+.|+++
T Consensus       421 ~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~---~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~l  487 (557)
T KOG3785|consen  421 GPEI-KNKILYKSMLARCYIRNKKPQLAWDMMLKT---NTPSERFSLLQLIANDCYKANEFYYAAKAFDEL  487 (557)
T ss_pred             Chhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhc---CCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence            3333 45666644 557778888888887765443   222233333 33444666788887777777765

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

Probab=94.56  E-value=1.7  Score=34.45  Aligned_cols=138  Identities=11%  Similarity=0.013  Sum_probs=75.0

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHH--HHHHHH--cCCCchHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNT--LIRAYA--KTSCSIESIKLFD   88 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~--li~~~~--~~~~~~~a~~~~~   88 (162)
                      ++.++|.+.-..+..-+ +-++..+..=+-+.. .+++++|..+.+.-. -..+++.  +=.+|+  +.++.++|+..++
T Consensus        26 ~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~-~~~~~~~~~fEKAYc~Yrlnk~Dealk~~~  103 (652)
T KOG2376|consen   26 GEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNG-ALLVINSFFFEKAYCEYRLNKLDEALKTLK  103 (652)
T ss_pred             hHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcc-hhhhcchhhHHHHHHHHHcccHHHHHHHHh
Confidence            35666666666666555 333344444444444 677777776555433 1111121  233333  3566676666655


Q ss_pred             HHHHcCCCCCCc-cHHHHHHHhhhhccchhhhHHHHHHHHHhc----------------------------CcchhHHHH
Q 045917           89 EMLKTGLRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIFKVGL----------------------------HSDKYIGNT  139 (162)
Q Consensus        89 ~m~~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~~~~~----------------------------~~~~~~~~~  139 (162)
                           |..++.. +-..-...+-+.+++++|..+++++.+++.                            .| ..+|..
T Consensus       104 -----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~-e~syel  177 (652)
T KOG2376|consen  104 -----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVP-EDSYEL  177 (652)
T ss_pred             -----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCC-cchHHH
Confidence                 4444443 333444556677777777777777644321                            11 223443


Q ss_pred             H---HHHHHhcCChhHHHHhhcc
Q 045917          140 L---LRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       140 l---l~~y~~~g~~~~a~~~~~~  159 (162)
                      +   -..++..|++.+|++++..
T Consensus       178 ~yN~Ac~~i~~gky~qA~elL~k  200 (652)
T KOG2376|consen  178 LYNTACILIENGKYNQAIELLEK  200 (652)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHH
Confidence            3   3456689999999988754

>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=94.55  E-value=0.14  Score=28.00  Aligned_cols=64  Identities=14%  Similarity=0.014  Sum_probs=41.8

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhc-cchhhhHHHHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCL-LIGVGGSVHSLIFKV  128 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~-~~~~a~~i~~~~~~~  128 (162)
                      ...|..+=..+...|++++|+..|++..+.. +-+...|..+-.++.+.| ++++|.+.+....+.
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            4456666667777788888888887766542 224445666666777777 677777777665543

...

>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=94.46  E-value=0.47  Score=31.71  Aligned_cols=63  Identities=13%  Similarity=-0.029  Sum_probs=35.7

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC--ccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN--LTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      ..+..+-..|.+.|+.+.|++.|.++.+....|..  ..+-.+|+.+...+++..+.........
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34556666666667777777766666554333322  2234455566666666666665555433

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.

>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=94.41  E-value=0.017  Score=36.86  Aligned_cols=127  Identities=8%  Similarity=0.017  Sum_probs=82.8

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHH
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      +..+...+........+..+...+...++...+.++..|+ .+..+...++++...  .+-...++..+-+.|.++++.-
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~--~yd~~~~~~~c~~~~l~~~a~~   91 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN--NYDLDKALRLCEKHGLYEEAVY   91 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS--SS-CTHHHHHHHTTTSHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc--ccCHHHHHHHHHhcchHHHHHH
Confidence            3344445567777888888887777778889999999999 877788888888533  2444566777777888888888


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      +|..+....--.+         .+...++++.|.+....      .+++.+|..+++.+...+..
T Consensus        92 Ly~~~~~~~~al~---------i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   92 LYSKLGNHDEALE---------ILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             HHHCCTTHTTCSS---------TSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTCT
T ss_pred             HHHHcccHHHHHH---------HHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCcc
Confidence            7777543211111         13455666666644322      34578888888877666543

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.

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

Probab=94.21  E-value=0.31  Score=37.77  Aligned_cols=152  Identities=13%  Similarity=0.035  Sum_probs=93.4

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCc------hhHHHHHHHhhC-C----CChHHHHHHhhhhC---CChhHHHHHHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHN------TYIISRFILTSL-P----ISLHFTRSLFNNVM---PPLFAYNTLIRAY   74 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~ll~~~~-~----~~~~~a~~~~~~m~---~~~~~~~~li~~~   74 (162)
                      +++-.|+-+...+.+..-.+.+-...      ...|...+..++ .    ...+.|.++++.+.   |+...|...-.-+
T Consensus       197 ~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lfl~~~gR~  276 (468)
T PF10300_consen  197 FVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALFLFFEGRL  276 (468)
T ss_pred             hcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            33334555566555554433332222      234555555555 3    35788999999988   9988876655444


Q ss_pred             Hc-CCCchHHHHHHHHHHHcCCC-C--CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH-HHHhcCC
Q 045917           75 AK-TSCSIESIKLFDEMLKTGLR-P--DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR-MYAACKE  149 (162)
Q Consensus        75 ~~-~~~~~~a~~~~~~m~~~~~~-p--~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~-~y~~~g~  149 (162)
                      .+ .|++++|.+.|++....... |  ....+--+.-.+.-..++++|...+..+.+..- -+..+|..+.. +|...|+
T Consensus       277 ~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y~~a~c~~~l~~  355 (468)
T PF10300_consen  277 ERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAYLAAACLLMLGR  355 (468)
T ss_pred             HHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhcc
Confidence            43 69999999999976432111 1  111222233345567899999999999887532 34555555444 5556888


Q ss_pred             h-------hHHHHhhcccC
Q 045917          150 I-------DFAKALFDEMP  161 (162)
Q Consensus       150 ~-------~~a~~~~~~m~  161 (162)
                      .       ++|.++|.+.+
T Consensus       356 ~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  356 EEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             chhhhhhHHHHHHHHHHHH
Confidence            8       88888887754

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>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=94.14  E-value=0.16  Score=28.62  Aligned_cols=61  Identities=20%  Similarity=0.154  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHc--CCC---CC-CccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKT--GLR---PD-NLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~---p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      +|+.+=..|...|++++|++.|++..+.  ...   |+ ..++..+-..+...|++++|.+.+++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555666666666777776666665432  111   11 3345556666666777777777666544

...

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=94.13  E-value=0.18  Score=40.97  Aligned_cols=101  Identities=11%  Similarity=-0.008  Sum_probs=70.7

Q ss_pred             CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHH
Q 045917           47 PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHS  123 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~  123 (162)
                      .+.+.+|..+++.++   ..+--|..+-.+|+..|+++-|.++|-+--         -|+-.|..|.+.|++++|.++-.
T Consensus       745 akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~  815 (1636)
T KOG3616|consen  745 AKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAE  815 (1636)
T ss_pred             hhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHH
Confidence            455666777777766   233347888899999999999999987642         25567888999999999988765


Q ss_pred             HHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          124 LIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       124 ~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +..  |.+.....|-+--.-.-+.|++.+|++++-
T Consensus       816 e~~--~~e~t~~~yiakaedldehgkf~eaeqlyi  848 (1636)
T KOG3616|consen  816 ECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYI  848 (1636)
T ss_pred             Hhc--CchhHHHHHHHhHHhHHhhcchhhhhheeE
Confidence            533  334445556555555667777777777653

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.12  E-value=0.65  Score=35.56  Aligned_cols=59  Identities=12%  Similarity=0.034  Sum_probs=36.6

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC---CCh----hHHHHHHHHHHcCCCchHHHHHHHHHHHc
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM---PPL----FAYNTLIRAYAKTSCSIESIKLFDEMLKT   93 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (162)
                      +..++.+=..|. .|++++|...|+..-   |+.    .+|..+-.+|.+.|+.++|++.+++..+.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            444555555666 677777777776643   442    34666666677777777777776666553

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

Probab=94.10  E-value=0.49  Score=34.02  Aligned_cols=74  Identities=12%  Similarity=0.131  Sum_probs=60.1

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHH-----cCCCCCCccHHH
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLK-----TGLRPDNLTYPF  104 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~t~~~  104 (162)
                      ..++..+...+. .|+++.+...+++.-    -+...|..+|.+|.+.|+...|...|+.+++     .|+.|...+...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            344566777777 888888888888776    5788899999999999999999999999866     488888877776


Q ss_pred             HHHH
Q 045917          105 VVKA  108 (162)
Q Consensus       105 li~~  108 (162)
                      ..+.
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            6666

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.05  E-value=1.6  Score=31.51  Aligned_cols=108  Identities=8%  Similarity=-0.007  Sum_probs=66.5

Q ss_pred             chhhhcchhHHHHH-hcCCCchhHHHHHHHhhC---CCChHHHHHHhhhhC------CChhHHHHHHHHHHcCCCchHHH
Q 045917           15 TAHHHHQLPALFLK-TSLDHNTYIISRFILTSL---PISLHFTRSLFNNVM------PPLFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        15 ~~~~a~~~~~~~~~-~~~~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~------~~~~~~~~li~~~~~~~~~~~a~   84 (162)
                      -+.+|..+++.... ..+-.|+.+...+++.-.   ...+..-.++.+-+.      ++..+...+|..++..+++.+-+
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            33444444443221 335566666777776665   122222222222222      67777788888888888888888


Q ss_pred             HHHHHHHHc-CCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           85 KLFDEMLKT-GLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        85 ~~~~~m~~~-~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      +++..-... +..-|..-|..+|+.....|+..-.+++.
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI  261 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKII  261 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHh
Confidence            888776544 56667888888888888888766554443

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

Probab=93.94  E-value=0.61  Score=37.63  Aligned_cols=146  Identities=14%  Similarity=-0.008  Sum_probs=95.3

Q ss_pred             hhHHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCC
Q 045917            3 SRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTS   78 (162)
Q Consensus         3 ~~~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~   78 (162)
                      ...+..++.++|-...|..++..+         ..|...+.+|. .|+..+|..+...--   ||...|..+-.......
T Consensus       401 q~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s  471 (777)
T KOG1128|consen  401 QRLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPS  471 (777)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChH
Confidence            456777888888888888877764         34677788888 888888887766543   77777777766666666


Q ss_pred             CchHHHHHHHHH-HHc----C-------------------CCCCC---ccHHHHHHHhhhhccchhhhHHHHHHHHHhcC
Q 045917           79 CSIESIKLFDEM-LKT----G-------------------LRPDN---LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH  131 (162)
Q Consensus        79 ~~~~a~~~~~~m-~~~----~-------------------~~p~~---~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~  131 (162)
                      -+++|.++.+.- .+.    |                   ++.+.   .+|-.+=-+..+.++++.+-+.|..-...  .
T Consensus       472 ~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~  549 (777)
T KOG1128|consen  472 LYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--E  549 (777)
T ss_pred             HHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--C
Confidence            666666666552 110    1                   11111   11211112223456666666666555443  4


Q ss_pred             cc-hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          132 SD-KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       132 ~~-~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      || ...||++-.+|.+.|+-.+|.+.+.|
T Consensus       550 Pd~~eaWnNls~ayi~~~~k~ra~~~l~E  578 (777)
T KOG1128|consen  550 PDNAEAWNNLSTAYIRLKKKKRAFRKLKE  578 (777)
T ss_pred             CCchhhhhhhhHHHHHHhhhHHHHHHHHH
Confidence            55 67899999999999999999988765

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

Probab=93.77  E-value=2  Score=31.63  Aligned_cols=80  Identities=10%  Similarity=-0.042  Sum_probs=66.5

Q ss_pred             CCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhh
Q 045917           32 DHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASD  110 (162)
Q Consensus        32 ~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  110 (162)
                      .|+.--|-.-+.+++ .+++++-+.+-+. ..+++.|-.++..|.+.|+..+|......          .++..-++.|.
T Consensus       205 v~dkrfw~lki~aLa~~~~w~eL~~fa~s-kKsPIGyepFv~~~~~~~~~~eA~~yI~k----------~~~~~rv~~y~  273 (319)
T PF04840_consen  205 VPDKRFWWLKIKALAENKDWDELEKFAKS-KKSPIGYEPFVEACLKYGNKKEASKYIPK----------IPDEERVEMYL  273 (319)
T ss_pred             CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-CCCCCChHHHHHHHHHCCCHHHHHHHHHh----------CChHHHHHHHH
Confidence            478888999999999 9999998887654 45668999999999999999999988766          33466788889


Q ss_pred             hhccchhhhHHH
Q 045917          111 QCLLIGVGGSVH  122 (162)
Q Consensus       111 ~~~~~~~a~~i~  122 (162)
                      +.|++.+|.+.-
T Consensus       274 ~~~~~~~A~~~A  285 (319)
T PF04840_consen  274 KCGDYKEAAQEA  285 (319)
T ss_pred             HCCCHHHHHHHH
Confidence            999998886653

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

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=93.76  E-value=0.93  Score=34.76  Aligned_cols=65  Identities=9%  Similarity=-0.051  Sum_probs=55.0

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc----cHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL----TYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      .+...|+.+=.+|.+.|++++|+..|++-.+  +.|+..    +|..+-.+|...|+.++|...++...+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5678899999999999999999999999765  457754    5889999999999999999988887664

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

Probab=93.52  E-value=0.79  Score=32.93  Aligned_cols=151  Identities=8%  Similarity=-0.056  Sum_probs=84.0

Q ss_pred             HHHHhhchhhhcchhHHHHHhc--CCCc---hhHHHHHHHhhCCCChHHHHHHhhhhC--------CC--hhHHHHHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTS--LDHN---TYIISRFILTSLPISLHFTRSLFNNVM--------PP--LFAYNTLIRA   73 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~--~~~~---~~~~~~ll~~~~~~~~~~a~~~~~~m~--------~~--~~~~~~li~~   73 (162)
                      .+...+++++|-+.|.......  ..-.   ...|......|...++++|...++...        |+  ...+..+=..
T Consensus        44 ~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~lA~~  123 (282)
T PF14938_consen   44 CFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKGDPDEAIECYEKAIEIYREAGRFSQAAKCLKELAEI  123 (282)
T ss_dssp             HHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3444456666666655543222  1111   122333333333336666666666543        22  3345556666


Q ss_pred             HHcC-CCchHHHHHHHHHHHc----CCCCC--CccHHHHHHHhhhhccchhhhHHHHHHHHHhc-----Ccchh-HHHHH
Q 045917           74 YAKT-SCSIESIKLFDEMLKT----GLRPD--NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-----HSDKY-IGNTL  140 (162)
Q Consensus        74 ~~~~-~~~~~a~~~~~~m~~~----~~~p~--~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-----~~~~~-~~~~l  140 (162)
                      |-.. |++++|++.|++-.+.    + .+.  ...+..+...+.+.|++++|.++++.+...-.     ..+.. .+-..
T Consensus       124 ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a  202 (282)
T PF14938_consen  124 YEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKA  202 (282)
T ss_dssp             HCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHH
Confidence            7777 8999999999886432    3 111  23345667788889999999999998876432     11221 22334


Q ss_pred             HHHHHhcCChhHHHHhhccc
Q 045917          141 LRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       141 l~~y~~~g~~~~a~~~~~~m  160 (162)
                      +-++...|++-.|.+.|++.
T Consensus       203 ~l~~L~~~D~v~A~~~~~~~  222 (282)
T PF14938_consen  203 ILCHLAMGDYVAARKALERY  222 (282)
T ss_dssp             HHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            44667789999999888763

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.36  E-value=0.65  Score=27.74  Aligned_cols=60  Identities=13%  Similarity=0.092  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      ++.+-++.+....+.|+.....+.+++|-+.+++..|..+++.++.+ +..+...|..++.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            34444555555677888888888888888888888888888776632 1223445655554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.35  E-value=2.6  Score=32.55  Aligned_cols=95  Identities=5%  Similarity=-0.084  Sum_probs=54.8

Q ss_pred             CChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           48 ISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        48 ~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      |+++.|.++-++. .+...|..|=....+.|+++-|.+.|.+.++         |..|+--|.-.|+.+.-.++-.....
T Consensus       332 g~L~~A~~~a~~~-~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  332 GNLDIALEIAKEL-DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             T-HHHHHHHCCCC-STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhc-CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            4444444433332 4566888888888888888888888777643         55555555666666666665555444


Q ss_pred             HhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          128 VGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       128 ~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      .|-      ++.-..++.-.|+++++.+++.
T Consensus       402 ~~~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  402 RGD------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             TT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             ccC------HHHHHHHHHHcCCHHHHHHHHH
Confidence            432      3444455555666666666554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.09  E-value=2.4  Score=30.49  Aligned_cols=130  Identities=8%  Similarity=-0.016  Sum_probs=75.6

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHH-----HHH
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIR-----AYA   75 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~-----~~~   75 (162)
                      +..+...+.+.-....+..+.+...+.++...+.|.+.-- .|+.+.|...|++.+     .|-.+++.++.     .|.
T Consensus       184 ~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~l  263 (366)
T KOG2796|consen  184 ANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHL  263 (366)
T ss_pred             HHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhhee
Confidence            3333334455555666777766666677777777777777 888888888888665     44444444432     223


Q ss_pred             cCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHH
Q 045917           76 KTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNT  139 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~  139 (162)
                      -.+++..|...|.+....+- .|.+..|+=.-...-.|++.+|.+..+.+...  .|...+-++
T Consensus       264 g~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es  324 (366)
T KOG2796|consen  264 GQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHES  324 (366)
T ss_pred             cccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhh
Confidence            35677777777777654311 12222232222223357788888877777654  344444443

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

Probab=93.06  E-value=0.93  Score=32.77  Aligned_cols=83  Identities=13%  Similarity=0.031  Sum_probs=56.9

Q ss_pred             HHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917           74 YAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      ..+.+++.+|+..|.+-.+  +.|+ .+-|..=..+|.+.|.++.|.+-.+....-. +-....|..|=.+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            3456788888888888765  4554 4445666788888888888866655544322 1225667777778888888888


Q ss_pred             HHHhhcc
Q 045917          153 AKALFDE  159 (162)
Q Consensus       153 a~~~~~~  159 (162)
                      |.+.|.+
T Consensus       168 A~~aykK  174 (304)
T KOG0553|consen  168 AIEAYKK  174 (304)
T ss_pred             HHHHHHh
Confidence            8887654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=93.06  E-value=1.6  Score=34.36  Aligned_cols=66  Identities=12%  Similarity=0.008  Sum_probs=53.9

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      .+...|.++--.....|++++|...+++.....  |+...|..+-+.+...|+.++|...+....+..
T Consensus       418 ~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        418 VLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            345677777555666799999999999987755  788889999999999999999999988876643

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

Probab=92.89  E-value=0.17  Score=24.03  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHhcCChhHHHHhhcc
Q 045917          136 IGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       136 ~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +|..|-+.|.+.|++++|.++|++
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            356777888888888888888765

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.85  E-value=0.89  Score=32.56  Aligned_cols=95  Identities=13%  Similarity=0.046  Sum_probs=60.0

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH-----
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL-----  141 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll-----  141 (162)
                      .+.+++...-.|++.-.++++.+..+..-+-+..-.+.|.+...+.|+.+.+...|+.+.+..-..|-.+.+.++     
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            445555555667777777888887776555566666666666677788888888887776544334434333333     


Q ss_pred             HHHHhcCChhHHHHhhcccC
Q 045917          142 RMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~m~  161 (162)
                      ..|.-.+++..|.+.|++++
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~  279 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEIL  279 (366)
T ss_pred             hheecccchHHHHHHHhhcc
Confidence            34455666666666666554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.80  E-value=0.52  Score=28.45  Aligned_cols=57  Identities=12%  Similarity=0.079  Sum_probs=28.6

Q ss_pred             HHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           85 KLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      +-++.+....+.|+.....+.+++|.+.+++..|.++++.+..+ +.+....|..++.
T Consensus        31 rglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   31 RGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            33344444556666666666666666666666666666665443 2222235555443

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.65  E-value=1.7  Score=27.51  Aligned_cols=124  Identities=8%  Similarity=-0.011  Sum_probs=66.7

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHH
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a   83 (162)
                      .++..+...+........+..+.+.+ ..++...|.++..|+ .. .......++. .++.+....+++.|-+.+-++++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-~~~~yd~~~~~~~c~~~~l~~~~   88 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-KSNHYDIEKVGKLCEKAKLYEEA   88 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-ccccCCHHHHHHHHHHcCcHHHH
Confidence            34555555566666777777776665 366777888888877 42 2333344441 13344444566666666666666


Q ss_pred             HHHHHHHHHcCCCCCCccHHHHHHHhhhh-ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           84 IKLFDEMLKTGLRPDNLTYPFVVKASDQC-LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        84 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~-~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      .-++..+..         +...++.+... ++.+.|.++...      ..+...|..++..+.+
T Consensus        89 ~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l~  137 (140)
T smart00299       89 VELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALLD  137 (140)
T ss_pred             HHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHHc
Confidence            666655522         11122222222 455555554433      2255677776666553

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

Probab=92.55  E-value=1.6  Score=36.87  Aligned_cols=122  Identities=11%  Similarity=0.000  Sum_probs=75.5

Q ss_pred             hHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHH--
Q 045917           36 YIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVK--  107 (162)
Q Consensus        36 ~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~--  107 (162)
                      ..|..|=..|. ..+...|.+-|+..-    .+..++......|+...+++.|..+.-.-  ....| -...++..-.  
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~--~qka~a~~~k~nW~~rG~  570 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRA--AQKAPAFACKENWVQRGP  570 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHH--hhhchHHHHHhhhhhccc
Confidence            45666666666 456677777777654    56778888999999999999999883221  11111 1111122211  


Q ss_pred             HhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+-..+++.++..=|+...+.. +.|...|..|-.+|.++|++.-|.++|++.
T Consensus       571 yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kA  622 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKA  622 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhh
Confidence            1223344444443333333332 456788889999999999999999999763

>PRK15331 chaperone protein SicA; Provisional

Probab=91.97  E-value=2.5  Score=27.95  Aligned_cols=90  Identities=8%  Similarity=-0.139  Sum_probs=63.5

Q ss_pred             HHHHHHhhCCCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhc
Q 045917           38 ISRFILTSLPISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCL  113 (162)
Q Consensus        38 ~~~ll~~~~~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~  113 (162)
                      |..--+.|..|++++|+.+|.-..    -+..=|-.|=..+-..+++++|.+.|...-..+. -|...+--.-..+...|
T Consensus        41 Y~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         41 YAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhC
Confidence            444444444999999999999876    3333455555556667999999999988655432 34444555667777889


Q ss_pred             cchhhhHHHHHHHHH
Q 045917          114 LIGVGGSVHSLIFKV  128 (162)
Q Consensus       114 ~~~~a~~i~~~~~~~  128 (162)
                      +.+.|+..|......
T Consensus       120 ~~~~A~~~f~~a~~~  134 (165)
T PRK15331        120 KAAKARQCFELVNER  134 (165)
T ss_pred             CHHHHHHHHHHHHhC
Confidence            999999988887763

>PRK04841 transcriptional regulator MalT; Provisional

Probab=91.87  E-value=6.9  Score=32.88  Aligned_cols=148  Identities=7%  Similarity=-0.040  Sum_probs=88.4

Q ss_pred             HhhchhhhcchhHHHHHhcC------CCc-hhHHHHHH-HhhC-CCChHHHHHHhhhhC---C--C----hhHHHHHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTSL------DHN-TYIISRFI-LTSL-PISLHFTRSLFNNVM---P--P----LFAYNTLIRA   73 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~------~~~-~~~~~~ll-~~~~-~~~~~~a~~~~~~m~---~--~----~~~~~~li~~   73 (162)
                      ..++.+++...+......--      .+. ......+. ..+. .|++++|...+++..   +  +    ....+.+-..
T Consensus       421 ~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~  500 (903)
T PRK04841        421 SQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEV  500 (903)
T ss_pred             HCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHH
Confidence            34567777777766543211      111 11112222 2334 899999999888753   2  2    1234555556


Q ss_pred             HHcCCCchHHHHHHHHHHHcCCC---CC--CccHHHHHHHhhhhccchhhhHHHHHHHHH----hcC--c-chhHHHHHH
Q 045917           74 YAKTSCSIESIKLFDEMLKTGLR---PD--NLTYPFVVKASDQCLLIGVGGSVHSLIFKV----GLH--S-DKYIGNTLL  141 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~---p~--~~t~~~li~~~~~~~~~~~a~~i~~~~~~~----~~~--~-~~~~~~~ll  141 (162)
                      +...|++++|...+.+.....-.   +.  ..+...+-..+...|+++.|...+......    +..  + ....+..+-
T Consensus       501 ~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la  580 (903)
T PRK04841        501 HHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRA  580 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHH
Confidence            67789999999999887643111   11  123344556677889999999988775442    211  1 123344455


Q ss_pred             HHHHhcCChhHHHHhhcc
Q 045917          142 RMYAACKEIDFAKALFDE  159 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+...|++++|...+++
T Consensus       581 ~~~~~~G~~~~A~~~~~~  598 (903)
T PRK04841        581 QLLWEWARLDEAEQCARK  598 (903)
T ss_pred             HHHHHhcCHHHHHHHHHH
Confidence            567778999999887765

>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=91.86  E-value=2.5  Score=27.78  Aligned_cols=111  Identities=15%  Similarity=0.117  Sum_probs=61.8

Q ss_pred             hHHHHHHHhhC----CCChHHHHHHhhhhC---C---ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHH
Q 045917           36 YIISRFILTSL----PISLHFTRSLFNNVM---P---PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFV  105 (162)
Q Consensus        36 ~~~~~ll~~~~----~~~~~~a~~~~~~m~---~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  105 (162)
                      .+.+.|+..+.    .++.++++.+++.+.   |   ...++...+.  ..+|++.+|..+|++..+..  |... |..-
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~--i~r~~w~dA~rlLr~l~~~~--~~~p-~~kA   82 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLH--IVRGDWDDALRLLRELEERA--PGFP-YAKA   82 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHH--HHhCCHHHHHHHHHHHhccC--CCCh-HHHH
Confidence            34555666554    678888888888887   4   3444555543  66889999999999986543  3333 3333


Q ss_pred             HHHhhhhccchhhhHHH-HHHHHHhcCcchhHHHHHHHHHHhcCChhHHH
Q 045917          106 VKASDQCLLIGVGGSVH-SLIFKVGLHSDKYIGNTLLRMYAACKEIDFAK  154 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~-~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~  154 (162)
                      +.++|-...-+..++.+ ..+...+-  |..+ ..|++.+-+..+...|.
T Consensus        83 LlA~CL~~~~D~~Wr~~A~evle~~~--d~~a-~~Lv~~Ll~~~~~~~a~  129 (160)
T PF09613_consen   83 LLALCLYALGDPSWRRYADEVLESGA--DPDA-RALVRALLARADLEPAH  129 (160)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhcCC--ChHH-HHHHHHHHHhccccchh
Confidence            44444333333334433 33444432  3333 45555555555544443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=91.74  E-value=2.2  Score=26.94  Aligned_cols=106  Identities=13%  Similarity=0.032  Sum_probs=61.6

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC  112 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  112 (162)
                      ...++..+. .+........++.+.    .+...+|.+|..|++.+ ..+.++.++.      .++.......++.|.+.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            345666666 677777777777664    44556777888777653 3444444442      24555566677777777


Q ss_pred             ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc-CChhHHHHhhcc
Q 045917          113 LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC-KEIDFAKALFDE  159 (162)
Q Consensus       113 ~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~-g~~~~a~~~~~~  159 (162)
                      +-++++..++..+..         +...+..+... ++++.|.+.+.+
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~  121 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK  121 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh
Confidence            766666666544321         22233333333 666666666544

>PRK15331 chaperone protein SicA; Provisional

Probab=91.68  E-value=1.4  Score=29.07  Aligned_cols=82  Identities=10%  Similarity=-0.093  Sum_probs=57.9

Q ss_pred             HcCCCchHHHHHHHHHHHcCCCCCCccH-HHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHH
Q 045917           75 AKTSCSIESIKLFDEMLKTGLRPDNLTY-PFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~-~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a  153 (162)
                      -..|++++|..+|+-+...+  |...-| ..|-..+-..+++++|...+......+. -|+...-..=.+|...|+.+.|
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            35799999999999986633  222334 4444455556889999999887766543 3444455566899999999999


Q ss_pred             HHhhcc
Q 045917          154 KALFDE  159 (162)
Q Consensus       154 ~~~~~~  159 (162)
                      +..|..
T Consensus       125 ~~~f~~  130 (165)
T PRK15331        125 RQCFEL  130 (165)
T ss_pred             HHHHHH
Confidence            998753

>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=91.58  E-value=1.6  Score=27.93  Aligned_cols=83  Identities=10%  Similarity=-0.066  Sum_probs=45.6

Q ss_pred             CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           47 PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      +|++.....-+-.+..+..-....+....+.|+-+.-.++++++.. .-.+++...-.+-.+|.+.|+..++.++....-
T Consensus        69 C~NlKrVi~C~~~~n~~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   69 CGNLKRVIECYAKRNKLSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             -S-THHHHHHHHHTT---HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHhcchHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            4445554444444444444455566677777777777777777653 233455555666777777777777777777777


Q ss_pred             HHhc
Q 045917          127 KVGL  130 (162)
Q Consensus       127 ~~~~  130 (162)
                      ++|.
T Consensus       148 ekG~  151 (161)
T PF09205_consen  148 EKGL  151 (161)
T ss_dssp             HTT-
T ss_pred             Hhch
Confidence            7665

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

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=91.52  E-value=3.5  Score=31.59  Aligned_cols=110  Identities=14%  Similarity=0.009  Sum_probs=70.5

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHH----HHc-------C-----------------
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEM----LKT-------G-----------------   94 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~-------~-----------------   94 (162)
                      .++.++|.--|+...    -+...|.-++.+|...|++++|+-+-++-    .++       |                 
T Consensus       347 ~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf  426 (564)
T KOG1174|consen  347 LERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKF  426 (564)
T ss_pred             ccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHH
Confidence            788999998898877    36888999999999999999988665542    111       1                 


Q ss_pred             ------CCCCCc-cHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           95 ------LRPDNL-TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        95 ------~~p~~~-t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                            +.|+.. ..+.+.+-|...|..+++..+.+.-...  .||....+.|=+.+...+.+.+|+.-|.
T Consensus       427 ~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~  495 (564)
T KOG1174|consen  427 AEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYY  495 (564)
T ss_pred             HHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHH
Confidence                  111111 1223334444455555555555544432  5677777777777777777777776553

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.37  E-value=3  Score=27.68  Aligned_cols=41  Identities=5%  Similarity=-0.036  Sum_probs=30.3

Q ss_pred             chhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC
Q 045917           21 QLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM   61 (162)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~   61 (162)
                      +..+.+.+.+++|++..+..+++.+. .|++..-..++.--.
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~V   56 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHV   56 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcc
Confidence            34555667888888889999999888 888777766665433

>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=91.31  E-value=0.12  Score=32.86  Aligned_cols=25  Identities=12%  Similarity=0.051  Sum_probs=13.9

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      ....+.++..|++.++.++.+++++
T Consensus        42 ~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   42 PDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHcc
Confidence            4455556666666555555555544

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.

>PLN02789 farnesyltranstransferase

Probab=91.26  E-value=4.7  Score=29.75  Aligned_cols=138  Identities=7%  Similarity=-0.086  Sum_probs=81.2

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CC-ChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCc
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PI-SLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~-~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~   80 (162)
                      -.++...+..++|..+...+.+.... +..+|+..=..+. .| .++++...++.+.    .+...|+.--..+.+.|+.
T Consensus        44 ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~  122 (320)
T PLN02789         44 RAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPD  122 (320)
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCch
Confidence            34444455666777777666544311 1223333333333 44 5678888877765    4556677554444455542


Q ss_pred             --hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc
Q 045917           81 --IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC  147 (162)
Q Consensus        81 --~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~  147 (162)
                        ++++++++++.+..- -|..+|+.---.+...|+++++.+.+..+.+.+. .+...|+..-..+.+.
T Consensus       123 ~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~  189 (320)
T PLN02789        123 AANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRS  189 (320)
T ss_pred             hhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhc
Confidence              567778777765322 3555666666666677788888888888887764 3566666655444444

>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=91.06  E-value=0.51  Score=20.55  Aligned_cols=23  Identities=26%  Similarity=0.163  Sum_probs=17.9

Q ss_pred             HHHHHHHHHhcCChhHHHHhhcc
Q 045917          137 GNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       137 ~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ...+-..+...|++++|.+++++
T Consensus         4 ~~~la~~~~~~G~~~eA~~~l~~   26 (26)
T PF07721_consen    4 RLALARALLAQGDPDEAERLLRR   26 (26)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHhC
Confidence            44566788889999999888764

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

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

Probab=90.63  E-value=0.43  Score=22.91  Aligned_cols=25  Identities=28%  Similarity=0.226  Sum_probs=20.0

Q ss_pred             hHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          135 YIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       135 ~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+++.|-..|...|++++|.+++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~   27 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEE   27 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHH
Confidence            4678888889999999999888765

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

Probab=90.59  E-value=0.76  Score=21.69  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=12.4

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHH
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDE   89 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~   89 (162)
                      |+.|=..|.+.|++++|.++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44455555555666666665555

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

Probab=90.13  E-value=8.8  Score=31.02  Aligned_cols=93  Identities=14%  Similarity=0.197  Sum_probs=52.4

Q ss_pred             CChhHHHH--HHHHHHcCCCchHHHHHHHHHHHcCCCCCCcc-HHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHH
Q 045917           62 PPLFAYNT--LIRAYAKTSCSIESIKLFDEMLKTGLRPDNLT-YPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGN  138 (162)
Q Consensus        62 ~~~~~~~~--li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~  138 (162)
                      |.+..|+.  +..++-+.|+++.|...++.-..  -.|+.+- |.+=.+.+...|++++|...+.+..+... +|+.+=+
T Consensus       367 PttllWt~y~laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INs  443 (700)
T KOG1156|consen  367 PTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINS  443 (700)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHH
Confidence            44555554  55566667777777777666543  1222111 11112566667777777777776666543 4555544


Q ss_pred             HHHHHHHhcCChhHHHHhh
Q 045917          139 TLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       139 ~ll~~y~~~g~~~~a~~~~  157 (162)
                      --.+-..+.++.++|.++.
T Consensus       444 KcAKYmLrAn~i~eA~~~~  462 (700)
T KOG1156|consen  444 KCAKYMLRANEIEEAEEVL  462 (700)
T ss_pred             HHHHHHHHccccHHHHHHH
Confidence            4555555666666666654

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

Probab=90.12  E-value=5.7  Score=30.96  Aligned_cols=125  Identities=11%  Similarity=0.021  Sum_probs=85.5

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC--C---------ChhHHHHHHHHHHc----CCCchHHHHHHHHHHHcCCCCC
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM--P---------PLFAYNTLIRAYAK----TSCSIESIKLFDEMLKTGLRPD   98 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~---------~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~   98 (162)
                      |.....++...+ .|+=+.+.+.+++-.  .         -...|..++..+..    ..+.+.|.+++.++.+  --|+
T Consensus       188 Pp~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~--~yP~  265 (468)
T PF10300_consen  188 PPKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK--RYPN  265 (468)
T ss_pred             CHHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH--hCCC
Confidence            344566666777 888888888888664  2         23446666655544    4577888899998865  4588


Q ss_pred             CccHHHHH-HHhhhhccchhhhHHHHHHHHHh--c-CcchhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917           99 NLTYPFVV-KASDQCLLIGVGGSVHSLIFKVG--L-HSDKYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus        99 ~~t~~~li-~~~~~~~~~~~a~~i~~~~~~~~--~-~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      ..-|...- +.+...|++++|.+.++......  . +.....+.-+.-++.-.+++++|.+.|.++.
T Consensus       266 s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~  332 (468)
T PF10300_consen  266 SALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLL  332 (468)
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence            77764432 44556789999999998654311  1 2334555667777889999999999988764

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

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

Probab=90.00  E-value=12  Score=32.36  Aligned_cols=84  Identities=11%  Similarity=-0.069  Sum_probs=61.7

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhc
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCL  113 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~  113 (162)
                      +..|+.+-++=. .|.+.+|..-|=.. -|+..|..+|....+.|.+++-.+.+...+++.-+|...  +.||-+|++.+
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyika-dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~ 1180 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA-DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTN 1180 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhc-CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhc
Confidence            455777766666 67777766554322 567789999999999999999988887766666666554  46888899888


Q ss_pred             cchhhhHH
Q 045917          114 LIGVGGSV  121 (162)
Q Consensus       114 ~~~~a~~i  121 (162)
                      ++.+.+..
T Consensus      1181 rl~elE~f 1188 (1666)
T KOG0985|consen 1181 RLTELEEF 1188 (1666)
T ss_pred             hHHHHHHH
Confidence            87776654

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

Probab=89.99  E-value=5.8  Score=33.28  Aligned_cols=26  Identities=31%  Similarity=0.328  Sum_probs=16.4

Q ss_pred             cchhHHHHHHHHHHhcCChhHHHHhh
Q 045917          132 SDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       132 ~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      .|...+-.|-+.|-..|++-+|..+|
T Consensus       965 gd~AAcYhlaR~YEn~g~v~~Av~Ff  990 (1416)
T KOG3617|consen  965 GDKAACYHLARMYENDGDVVKAVKFF  990 (1416)
T ss_pred             ccHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            34555556666777777776666655

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.96  E-value=0.53  Score=23.35  Aligned_cols=26  Identities=23%  Similarity=0.126  Sum_probs=21.2

Q ss_pred             hHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          135 YIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       135 ~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .++..+-..|...|++++|.++|++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~   27 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRA   27 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35677888899999999999988764

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=89.84  E-value=5.3  Score=28.13  Aligned_cols=49  Identities=4%  Similarity=-0.168  Sum_probs=28.6

Q ss_pred             hhhhccchhhhHHHHHHHHH--hcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917          109 SDQCLLIGVGGSVHSLIFKV--GLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       109 ~~~~~~~~~a~~i~~~~~~~--~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      |.+.|.+..|..-++.+.+.  +.+......-.+..+|.+.|..++|..+.
T Consensus       185 Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~  235 (243)
T PRK10866        185 YTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVA  235 (243)
T ss_pred             HHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            33445554444445555442  22233444556778888899888887754

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

Probab=89.83  E-value=2.4  Score=30.74  Aligned_cols=92  Identities=17%  Similarity=0.092  Sum_probs=65.0

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDE   89 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (162)
                      ++++|.+.|....... +.|++-|..--.+|+ .|..+.|.+=.+...   | -.-+|..|=.+|...|++++|.+.|+.
T Consensus        96 ~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~aykK  174 (304)
T KOG0553|consen   96 DYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIEAYKK  174 (304)
T ss_pred             hHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHHHHHh
Confidence            4566666666665432 345666777777888 888888887776655   2 356788888888889999999999887


Q ss_pred             HHHcCCCCCCccHHHHHHHh
Q 045917           90 MLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        90 m~~~~~~p~~~t~~~li~~~  109 (162)
                      -.+  +.|+..+|-.=++..
T Consensus       175 aLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  175 ALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             hhc--cCCCcHHHHHHHHHH
Confidence            654  778777775544443

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

Probab=89.80  E-value=3.3  Score=34.43  Aligned_cols=102  Identities=13%  Similarity=0.125  Sum_probs=77.2

Q ss_pred             CCChHHHHHHhhhhC---CChhHHHHHHHHH--HcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHH
Q 045917           47 PISLHFTRSLFNNVM---PPLFAYNTLIRAY--AKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSV  121 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i  121 (162)
                      .+++..|..-.+...   |+. .|..++.++  .+.|+.++|..+++.....+.. |..|...+-..|.+.+..+++..+
T Consensus        22 ~~qfkkal~~~~kllkk~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKHPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             hHHHHHHHHHHHHHHHHCCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHH
Confidence            567777777666654   442 344444444  4579999999888887655554 888999999999999999999999


Q ss_pred             HHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917          122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      ++.....  -|+......+..+|++-+++.+
T Consensus       100 Ye~~~~~--~P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen  100 YERANQK--YPSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             HHHHHhh--CCcHHHHHHHHHHHHHHHHHHH
Confidence            9988765  4667777788888888887764

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

Probab=89.79  E-value=0.74  Score=33.12  Aligned_cols=77  Identities=12%  Similarity=0.050  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH-----HhcCcchhHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK-----VGLHSDKYIGNTL  140 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~-----~~~~~~~~~~~~l  140 (162)
                      ++..++..+...|+.+.+.+.++++.+.. +-+...|..++.+|.+.|+...|...++.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            34555666666666666666666665432 23555566777777777777777776666544     4666666666555


Q ss_pred             HHH
Q 045917          141 LRM  143 (162)
Q Consensus       141 l~~  143 (162)
                      -..
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.69  E-value=5.5  Score=28.46  Aligned_cols=92  Identities=15%  Similarity=0.079  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHc----CCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhc-Cc-chhHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKT----GLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-HS-DKYIGNT  139 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-~~-~~~~~~~  139 (162)
                      .|+.-+..+ +.|++..|...|.+-.+.    ...||.  +-.|-+++...|++++|..+|..+.+.-. .| -+...--
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA--~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNA--YYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchh--HHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            477777655 456688888888887654    233443  33477888888888888888877766421 11 1344555


Q ss_pred             HHHHHHhcCChhHHHHhhccc
Q 045917          140 LLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       140 ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |-.+..+.|+.++|..+|++.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHH
Confidence            666777888888888887653

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.66  E-value=5.1  Score=31.36  Aligned_cols=51  Identities=16%  Similarity=0.001  Sum_probs=29.7

Q ss_pred             HcCCCchHHHHHHHHHHHcC-CCCCCccHHHHHHHhhhhccchhhhHHHHHH
Q 045917           75 AKTSCSIESIKLFDEMLKTG-LRPDNLTYPFVVKASDQCLLIGVGGSVHSLI  125 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~  125 (162)
                      -+.|+.++|.+.|++|.+.. ..-+.-.-..|++++-..+...++..+...=
T Consensus       270 rklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  270 RKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            34577777777777765332 1112223455677777777777776666553

The molecular function of this protein is uncertain.

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

Probab=89.65  E-value=6.7  Score=31.65  Aligned_cols=128  Identities=15%  Similarity=0.066  Sum_probs=82.2

Q ss_pred             CCchhHHH--HHHHhhC-CCChHHHHHHhhhhC---CCh-hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHH
Q 045917           32 DHNTYIIS--RFILTSL-PISLHFTRSLFNNVM---PPL-FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPF  104 (162)
Q Consensus        32 ~~~~~~~~--~ll~~~~-~~~~~~a~~~~~~m~---~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  104 (162)
                      +|++..|+  -+.+.|- .|+++.|+...+..-   |+. ..|-+=-+.+.+.|+++.|...+++-.+.+. ||...=+-
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsK  444 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSK  444 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHH
Confidence            45555554  4556666 999999999999887   432 2233334777889999999999998865432 33221113


Q ss_pred             HHHHhhhhccchhhhHHHHHHHHHhc--C---cchhHHHHHH---HHHHhcCChhHHHHhhccc
Q 045917          105 VVKASDQCLLIGVGGSVHSLIFKVGL--H---SDKYIGNTLL---RMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       105 li~~~~~~~~~~~a~~i~~~~~~~~~--~---~~~~~~~~ll---~~y~~~g~~~~a~~~~~~m  160 (162)
                      -.+-..+..+.++|.++.....+.|.  .   -+.....-++   .+|.+.|.+..|.+=|.++
T Consensus       445 cAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  445 CAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            44455567889999999988888774  0   0111111122   3567788888887766654

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

Probab=89.61  E-value=9.3  Score=30.57  Aligned_cols=118  Identities=10%  Similarity=0.019  Sum_probs=79.9

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhh--------hhC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcC--CCCCC---
Q 045917           37 IISRFILTSL-PISLHFTRSLFN--------NVM---PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTG--LRPDN---   99 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~--------~m~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~---   99 (162)
                      +.-+++.... .|+++.|.+++.        ...   ..+.+-.+++..+.+.++-..|-.++.+-...-  -.+..   
T Consensus       378 v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l  457 (652)
T KOG2376|consen  378 VLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIAL  457 (652)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHH
Confidence            4444555556 899999999888        333   345566777778888888888888887754321  11222   


Q ss_pred             -ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHh
Q 045917          100 -LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKAL  156 (162)
Q Consensus       100 -~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~  156 (162)
                       .++.-+...--+.|+.++|..+++++.+.. ++|..+...++.+|++. +.+.|..+
T Consensus       458 ~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l  513 (652)
T KOG2376|consen  458 LSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESL  513 (652)
T ss_pred             HhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHH
Confidence             223333444456789999999999999864 57899999999999875 34555444

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=89.53  E-value=4  Score=26.18  Aligned_cols=84  Identities=13%  Similarity=0.008  Sum_probs=55.4

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHH---HHhhhhccchhhh
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVV---KASDQCLLIGVGG  119 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li---~~~~~~~~~~~a~  119 (162)
                      .|+++.|.+.|...-    .....||.--.++.-.|+.++|++=+.+-.+..-.-......+.+   .-|...|+.+.|+
T Consensus        56 ~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd~AR  135 (175)
T KOG4555|consen   56 AGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDDAAR  135 (175)
T ss_pred             ccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchHHHH
Confidence            788888888888765    456778888888888888888888777766542222222222222   2334457777787


Q ss_pred             HHHHHHHHHhc
Q 045917          120 SVHSLIFKVGL  130 (162)
Q Consensus       120 ~i~~~~~~~~~  130 (162)
                      .=|+...+.|.
T Consensus       136 ~DFe~AA~LGS  146 (175)
T KOG4555|consen  136 ADFEAAAQLGS  146 (175)
T ss_pred             HhHHHHHHhCC
Confidence            77777777764

>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=89.45  E-value=2.8  Score=25.59  Aligned_cols=40  Identities=13%  Similarity=0.287  Sum_probs=32.0

Q ss_pred             ChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           49 SLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        49 ~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      +++++++.+++-.    -|..++..|..+|..++|++++.+..+
T Consensus        28 ~~~~~e~~L~~~~----~~~eL~~lY~~kg~h~~AL~ll~~l~~   67 (108)
T PF10366_consen   28 DLEEVEEVLKEHG----KYQELVDLYQGKGLHRKALELLKKLAD   67 (108)
T ss_pred             CHHHHHHHHHHcC----CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence            4555555555533    799999999999999999999999876

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.

>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF

Probab=89.38  E-value=0.61  Score=29.60  Aligned_cols=32  Identities=22%  Similarity=0.476  Sum_probs=25.9

Q ss_pred             cCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHh
Q 045917           76 KTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  109 (162)
                      +-|.-.+|..+|++|++.|-+||.  |+.|+..+
T Consensus       107 ~ygsk~DaY~VF~kML~~G~pPdd--W~~Ll~~a  138 (140)
T PF11663_consen  107 AYGSKTDAYAVFRKMLERGNPPDD--WDALLKEA  138 (140)
T ss_pred             hhccCCcHHHHHHHHHhCCCCCcc--HHHHHHHh
Confidence            346678999999999999999984  67777654

The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.36  E-value=4.3  Score=26.39  Aligned_cols=71  Identities=11%  Similarity=0.133  Sum_probs=43.0

Q ss_pred             HHHHHHHhhC----CCChHHHHHHhhhhC------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHH
Q 045917           37 IISRFILTSL----PISLHFTRSLFNNVM------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVV  106 (162)
Q Consensus        37 ~~~~ll~~~~----~~~~~~a~~~~~~m~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  106 (162)
                      +.+.|++...    ..++++++.+++.+.      +...++-..+.  ..+|++.+|..+|++..+.+..+   .|..-+
T Consensus         9 iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~--i~rg~w~eA~rvlr~l~~~~~~~---p~~kAL   83 (153)
T TIGR02561         9 LLGGLIEVLMYALRSADPYDAQAMLDALRVLRPNLKELDMFDGWLL--IARGNYDEAARILRELLSSAGAP---PYGKAL   83 (153)
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHHH--HHcCCHHHHHHHHHhhhccCCCc---hHHHHH
Confidence            3455555444    677788888888776      33445555543  56788888888888886654221   244444


Q ss_pred             HHhhhh
Q 045917          107 KASDQC  112 (162)
Q Consensus       107 ~~~~~~  112 (162)
                      .++|-.
T Consensus        84 ~A~CL~   89 (153)
T TIGR02561        84 LALCLN   89 (153)
T ss_pred             HHHHHH
Confidence            444433

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

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.17  E-value=6.4  Score=28.13  Aligned_cols=92  Identities=9%  Similarity=-0.008  Sum_probs=69.7

Q ss_pred             HHHHHHHhhCCCChHHHHHHhhhhC---C-ChhHHHH---HHHHHHcCCCchHHHHHHHHHHHcC-CCCC-CccHHHHHH
Q 045917           37 IISRFILTSLPISLHFTRSLFNNVM---P-PLFAYNT---LIRAYAKTSCSIESIKLFDEMLKTG-LRPD-NLTYPFVVK  107 (162)
Q Consensus        37 ~~~~ll~~~~~~~~~~a~~~~~~m~---~-~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~-~~p~-~~t~~~li~  107 (162)
                      .|+.-++.|-.|++..|...|....   | ++++-|+   |-.++...|+.++|-.+|..+.+.- -.|- +.+.--|-.
T Consensus       144 ~Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         144 LYNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            6999999888888999999999886   3 2344333   5678888999999999999987642 2221 133445556


Q ss_pred             HhhhhccchhhhHHHHHHHHH
Q 045917          108 ASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      ...+.|+.++|...++.+.+.
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            777889999999999998875

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=89.00  E-value=7  Score=28.33  Aligned_cols=97  Identities=9%  Similarity=-0.014  Sum_probs=60.1

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh---ccchhhhHHHHHHHHHhcCcchhHHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC---LLIGVGGSVHSLIFKVGLHSDKYIGNT  139 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~---~~~~~a~~i~~~~~~~~~~~~~~~~~~  139 (162)
                      |...|-.|=..|.+.|+...|..-|++-.+. -.+|...+..+-+++...   .+-.++..+++++.+.. +-|+....-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL-~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            5667777778888888888888888776542 112233333333333322   23456777777777653 234555555


Q ss_pred             HHHHHHhcCChhHHHHhhcccC
Q 045917          140 LLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       140 ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      |-..+...|++.+|...|+.|.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL  254 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLL  254 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHH
Confidence            6667777888888887777663

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

Probab=88.77  E-value=6.4  Score=33.06  Aligned_cols=94  Identities=6%  Similarity=-0.111  Sum_probs=65.4

Q ss_pred             CchhHHHHHHHhhC---CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHc---------CCCCCCc
Q 045917           33 HNTYIISRFILTSL---PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKT---------GLRPDNL  100 (162)
Q Consensus        33 ~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------~~~p~~~  100 (162)
                      -|+.|--++++...   .|+.+.|.+-.+-++ +-..|..|-+.|.+.++++-|.--+..|.+.         ...|+. 
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik-S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e-  801 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK-SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEE-  801 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHh-hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcc-
Confidence            47788888888544   999999987776655 4457999999999999998888888777543         223432 


Q ss_pred             cHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917          101 TYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       101 t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      +=.-..--....|.+++|+.+++...+.
T Consensus       802 ~eakvAvLAieLgMlEeA~~lYr~ckR~  829 (1416)
T KOG3617|consen  802 DEAKVAVLAIELGMLEEALILYRQCKRY  829 (1416)
T ss_pred             hhhHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            2112222234678888888888776554

>PLN02789 farnesyltranstransferase

Probab=88.69  E-value=7.9  Score=28.56  Aligned_cols=118  Identities=5%  Similarity=-0.070  Sum_probs=62.4

Q ss_pred             HHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCC-CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhcc
Q 045917           41 FILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTS-CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLL  114 (162)
Q Consensus        41 ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~  114 (162)
                      +-..+. .+..+.|..+.+.+.   |+ ...|+.-=..+.+.| +++++++.++++.+..- -+..+|+.---.+.+.|.
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHHHHcCc
Confidence            333344 566677777777665   32 334544433444444 46777777777655322 223334432222233333


Q ss_pred             --chhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          115 --IGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       115 --~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                        .+++..+...+.+.. +-+..+|+.---++.+.|+++++.+.++++
T Consensus       122 ~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~  168 (320)
T PLN02789        122 DAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQL  168 (320)
T ss_pred             hhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence              234455555555543 245666666666666677777777766654

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

Probab=88.18  E-value=1.5  Score=20.87  Aligned_cols=27  Identities=33%  Similarity=0.427  Sum_probs=17.6

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      .+++.+-..|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            356666667777777777777776653

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=88.03  E-value=9.7  Score=28.79  Aligned_cols=126  Identities=13%  Similarity=0.013  Sum_probs=66.5

Q ss_pred             hhHHHHHHHH---hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC----------CCChHHHHHHhhhhC---CChhH
Q 045917            3 SRQIETLIQL---SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL----------PISLHFTRSLFNNVM---PPLFA   66 (162)
Q Consensus         3 ~~~~~~~l~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----------~~~~~~a~~~~~~m~---~~~~~   66 (162)
                      ...+.-+|.+   .|+-+.|.+++..+....-.+++.++..+-..|-          ...++.|...|.+-=   ||.++
T Consensus       182 ~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~  261 (374)
T PF13281_consen  182 KFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYS  261 (374)
T ss_pred             HHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccc
Confidence            4456666777   6777888888877665566666666665554433          112455555555432   33222


Q ss_pred             ---HHHHHHHHHcCCC-chHHHHHH---HHH-HHcC---CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           67 ---YNTLIRAYAKTSC-SIESIKLF---DEM-LKTG---LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        67 ---~~~li~~~~~~~~-~~~a~~~~---~~m-~~~~---~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                         +-+++...+.... ..+..++-   ..+ .+.|   -..|.+.+.++++++.-.|+.++|.+..+.+.+.
T Consensus       262 GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  262 GINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             hHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence               2223333322111 11222222   121 1223   2345555667777777777777777777777765

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

Probab=87.68  E-value=8.4  Score=27.68  Aligned_cols=126  Identities=13%  Similarity=0.054  Sum_probs=77.3

Q ss_pred             hHHHHHHHhhC-C-CChHHHHHHhhhhC------C----ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccH-
Q 045917           36 YIISRFILTSL-P-ISLHFTRSLFNNVM------P----PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTY-  102 (162)
Q Consensus        36 ~~~~~ll~~~~-~-~~~~~a~~~~~~m~------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~-  102 (162)
                      ..+..+=..|- . |+++.|...|++..      .    -...+.-+...+.+.|++++|.++|++....-...+..-| 
T Consensus       115 ~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  115 KCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            34555556676 6 88888888888764      1    2344667778899999999999999998765443332211 


Q ss_pred             -----HHHHHHhhhhccchhhhHHHHHHHHH--hcCcc--hhHHHHHHHHHHh--cCChhHHHHhhcccC
Q 045917          103 -----PFVVKASDQCLLIGVGGSVHSLIFKV--GLHSD--KYIGNTLLRMYAA--CKEIDFAKALFDEMP  161 (162)
Q Consensus       103 -----~~li~~~~~~~~~~~a~~i~~~~~~~--~~~~~--~~~~~~ll~~y~~--~g~~~~a~~~~~~m~  161 (162)
                           -..+-.+...|+...|...++.....  ++..+  -.....||.+|-.  ...+..|.+-|+.+.
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence                 11222344567888888888776542  33222  4456677777764  445566666666654

>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=87.54  E-value=5.6  Score=25.52  Aligned_cols=57  Identities=9%  Similarity=-0.071  Sum_probs=40.1

Q ss_pred             HHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          102 YPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       102 ~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +...++.....|.-+.-.++...+.+.+ ++++...-.+-.+|.+.|+..++..++.+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~  145 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKE  145 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            4456677788888888888888887643 57888888899999999999999888754

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

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.53  E-value=1.9  Score=31.70  Aligned_cols=96  Identities=6%  Similarity=-0.049  Sum_probs=70.1

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHc---CCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHH
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKT---GLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGN  138 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~  138 (162)
                      ....+-...+..-....+++++...+-..+.+   ...|++..+ ++++-|-+ -+.+++..+...-+.-|+-||.++.+
T Consensus        62 ~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   62 VSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             cceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHHc-cChHHHHHHHhCcchhccccchhhHH
Confidence            34555666666666678899999888887654   344554433 34444333 24567777777778899999999999


Q ss_pred             HHHHHHHhcCChhHHHHhhcc
Q 045917          139 TLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       139 ~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+++.+.+.+++.+|.++.-.
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~  160 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTE  160 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHH
Confidence            999999999999999887543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=87.35  E-value=4.7  Score=24.42  Aligned_cols=82  Identities=12%  Similarity=0.056  Sum_probs=53.6

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC---CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL---PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      +-++|..|-+++...+-.   .-...||+..+   .|++++|..+.+... ||..+|-++-.  .+.|-.++...-+.+|
T Consensus        20 cHqEA~tIAdwL~~~~~~---~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rl   94 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES---EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRL   94 (115)
T ss_pred             HHHHHHHHHHHHhcCCch---HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHH
Confidence            456778888888766543   22344555444   899999999999888 99999888744  4556666565556666


Q ss_pred             HHcCCCCCCccH
Q 045917           91 LKTGLRPDNLTY  102 (162)
Q Consensus        91 ~~~~~~p~~~t~  102 (162)
                      ..+|- |...+|
T Consensus        95 a~sg~-p~lq~F  105 (115)
T TIGR02508        95 AASGD-PRLQTF  105 (115)
T ss_pred             HhCCC-HHHHHH
Confidence            55543 433434

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=86.90  E-value=1.8  Score=21.34  Aligned_cols=26  Identities=27%  Similarity=0.372  Sum_probs=13.3

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      |..+-..|...|++++|.++|++..+
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34444455555555555555555543

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

Probab=86.50  E-value=5.3  Score=31.63  Aligned_cols=105  Identities=12%  Similarity=0.011  Sum_probs=78.1

Q ss_pred             ChHHHHHHhhhhC------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHH
Q 045917           49 SLHFTRSLFNNVM------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSV  121 (162)
Q Consensus        49 ~~~~a~~~~~~m~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i  121 (162)
                      .+.+..++|=++.      +|.-....|=-.|.-.|++++|.+-|+...+  ++| |...||-|=-+++...+.++|...
T Consensus       409 ~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsA  486 (579)
T KOG1125|consen  409 HLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISA  486 (579)
T ss_pred             HHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHH
Confidence            3445556665554      4555666666667778999999999999866  556 456689999999999999999999


Q ss_pred             HHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHHHHhh
Q 045917          122 HSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       122 ~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      +....+.  +|+ +.+.-.|=-+|...|.+++|..-|
T Consensus       487 Y~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  487 YNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHH
Confidence            9888765  455 555556666788888888887665

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

Probab=86.22  E-value=8.6  Score=26.32  Aligned_cols=123  Identities=9%  Similarity=-0.033  Sum_probs=81.9

Q ss_pred             hcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcC---CCCCC
Q 045917           29 TSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTG---LRPDN   99 (162)
Q Consensus        29 ~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~   99 (162)
                      ....|+...--.|-.... .|+..+|...|++.-     .|....-.+-++....+++..|...++++-+..   -.|| 
T Consensus        83 ~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd-  161 (251)
T COG4700          83 LAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD-  161 (251)
T ss_pred             HhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC-
Confidence            345566666666666677 888888888888765     566666666667777788888888888876543   2333 


Q ss_pred             ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHH
Q 045917          100 LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                       +.-.+-..+...|...+|+..|+.....  -|+...-...-..+++.|+.++|..
T Consensus       162 -~~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         162 -GHLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             -chHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence             3334557777778888888888887764  3554444444455667776666543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.09  E-value=6.2  Score=28.80  Aligned_cols=112  Identities=10%  Similarity=0.087  Sum_probs=67.7

Q ss_pred             hhhhcchhHHHHHhc-C--CCchhHHHHHHHhhC---CCChHHHHHHhhhhC------CC-hhHHHHHHHHHHcCCC--c
Q 045917           16 AHHHHQLPALFLKTS-L--DHNTYIISRFILTSL---PISLHFTRSLFNNVM------PP-LFAYNTLIRAYAKTSC--S   80 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~-~--~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~------~~-~~~~~~li~~~~~~~~--~   80 (162)
                      ...|..+|+.|++.= +  .++-+.+..++..-.   .-..+.++..|+.+.      .| ...-+.++....-..+  .
T Consensus       119 ~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v  198 (297)
T PF13170_consen  119 IQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKV  198 (297)
T ss_pred             HHHHHHHHHHHHHhCccccCccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHH
Confidence            456789999997643 3  355566777776644   222566777777665      23 3444444444333333  4


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHH-HHhhhhcc---chhhhHHHHHHHH
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVV-KASDQCLL---IGVGGSVHSLIFK  127 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li-~~~~~~~~---~~~a~~i~~~~~~  127 (162)
                      ..+.++++.+++.|+++....|+.+- -+....+.   .+...++.+.+.+
T Consensus       199 ~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~~~~i~ev~~~L~~  249 (297)
T PF13170_consen  199 ARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKIVEEIKEVIDELKE  249 (297)
T ss_pred             HHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHHHHHHHHHHHHHhh
Confidence            47889999999999999888887652 33333333   3444445555543

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=85.85  E-value=14  Score=28.40  Aligned_cols=120  Identities=12%  Similarity=0.009  Sum_probs=73.3

Q ss_pred             hHHHHHHHhhC---CCChHHHHHHhhhhC---CChhH-------------HHHHHHHHHcCCCchHHHHHHHHHHHc---
Q 045917           36 YIISRFILTSL---PISLHFTRSLFNNVM---PPLFA-------------YNTLIRAYAKTSCSIESIKLFDEMLKT---   93 (162)
Q Consensus        36 ~~~~~ll~~~~---~~~~~~a~~~~~~m~---~~~~~-------------~~~li~~~~~~~~~~~a~~~~~~m~~~---   93 (162)
                      ..+...++..+   ..+.+.+..-|++-.   |+...             |..==+-..+.|++.+|.+.|.+-.+.   
T Consensus       202 n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~  281 (486)
T KOG0550|consen  202 NAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPS  281 (486)
T ss_pred             hhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCcc
Confidence            34566666666   788888888888765   44322             222223446689999999999997653   


Q ss_pred             CCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH--HHHhcCChhHHHHhhc
Q 045917           94 GLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR--MYAACKEIDFAKALFD  158 (162)
Q Consensus        94 ~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~--~y~~~g~~~~a~~~~~  158 (162)
                      .+.|+...|-..-....+.|+.++|..-.....+-.   ...+.-.+.+  ++...++|++|.+-|+
T Consensus       282 n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD---~syikall~ra~c~l~le~~e~AV~d~~  345 (486)
T KOG0550|consen  282 NKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID---SSYIKALLRRANCHLALEKWEEAVEDYE  345 (486)
T ss_pred             ccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555556555666778888888877665554321   1222222332  4445666666666554

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

Probab=85.74  E-value=3.6  Score=27.70  Aligned_cols=29  Identities=10%  Similarity=0.037  Sum_probs=19.1

Q ss_pred             CcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          131 HSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       131 ~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .|+..+|..++..+...|+.++|.+...+
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~  169 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLAR  169 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            56666666666666666666666666554

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

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=85.69  E-value=7.5  Score=25.15  Aligned_cols=84  Identities=8%  Similarity=0.039  Sum_probs=67.1

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcC---C--CCCCccHHHHHHHhhhhcc-chhhhHHHHHHHHHhcCcchhHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTG---L--RPDNLTYPFVVKASDQCLL-IGVGGSVHSLIFKVGLHSDKYIG  137 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~--~p~~~t~~~li~~~~~~~~-~~~a~~i~~~~~~~~~~~~~~~~  137 (162)
                      ..-.|.+++..+..+++...+.+++.+....   +  ..+..+|.+++++..+... ---+..++..+.+.+.++++.-|
T Consensus        39 ~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy  118 (145)
T PF13762_consen   39 TIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDY  118 (145)
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            4558889999898899999999988884321   1  3577889999999977665 34566789999998899999999


Q ss_pred             HHHHHHHHhc
Q 045917          138 NTLLRMYAAC  147 (162)
Q Consensus       138 ~~ll~~y~~~  147 (162)
                      ..++.+..+.
T Consensus       119 ~~li~~~l~g  128 (145)
T PF13762_consen  119 SCLIKAALRG  128 (145)
T ss_pred             HHHHHHHHcC
Confidence            9999987765

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

Probab=85.65  E-value=6  Score=31.05  Aligned_cols=95  Identities=18%  Similarity=0.063  Sum_probs=72.4

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc-cHHHHHHHhhhhccchhhhHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL-TYPFVVKASDQCLLIGVGGSV  121 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~li~~~~~~~~~~~a~~i  121 (162)
                      .|+++.|...|-+..    +|.+.|+.=..+|+..|++++|+.=-.+  ...+.|++. -|+-.=.++.-.|++++|..-
T Consensus        15 ~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k--~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~~a   92 (539)
T KOG0548|consen   15 SGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATK--TRRLNPDWAKGYSRKGAALFGLGDYEEAILA   92 (539)
T ss_pred             cccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHH--HHhcCCchhhHHHHhHHHHHhcccHHHHHHH
Confidence            899999999999876    7888999999999999999988754333  334667643 356666666667888988888


Q ss_pred             HHHHHHHhcCcchhHHHHHHHHH
Q 045917          122 HSLIFKVGLHSDKYIGNTLLRMY  144 (162)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~ll~~y  144 (162)
                      +..-.+.. +.+...++.|..++
T Consensus        93 y~~GL~~d-~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   93 YSEGLEKD-PSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHhhcC-CchHHHHHhHHHhh
Confidence            87766543 34577888888888

>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=85.16  E-value=6.6  Score=24.05  Aligned_cols=75  Identities=11%  Similarity=0.005  Sum_probs=48.7

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC---CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL---PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      +.++|..|.+++...+-.-   -...+|+..+   .|++++|...=.... ||..+|-++  +-.+.|-.+++..-+..+
T Consensus        21 cH~EA~tIa~wL~~~~~~~---E~v~lIr~~sLmNrG~Yq~ALl~~~~~~~pdL~p~~AL--~a~klGL~~~~e~~l~rl   95 (116)
T PF09477_consen   21 CHQEANTIADWLEQEGEME---EVVALIRLSSLMNRGDYQEALLLPQCHCYPDLEPWAAL--CAWKLGLASALESRLTRL   95 (116)
T ss_dssp             -HHHHHHHHHHHHHTTTTH---HHHHHHHHHHHHHTT-HHHHHHHHTTS--GGGHHHHHH--HHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCcHH---HHHHHHHHHHHHhhHHHHHHHHhcccCCCccHHHHHHH--HHHhhccHHHHHHHHHHH
Confidence            6788999999998877522   2345555444   899999944444444 999999887  446677777777777767


Q ss_pred             HHcC
Q 045917           91 LKTG   94 (162)
Q Consensus        91 ~~~~   94 (162)
                      -.+|
T Consensus        96 a~~g   99 (116)
T PF09477_consen   96 ASSG   99 (116)
T ss_dssp             CT-S
T ss_pred             HhCC
Confidence            5443

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=84.58  E-value=16  Score=28.00  Aligned_cols=117  Identities=13%  Similarity=0.046  Sum_probs=76.4

Q ss_pred             HHHHHHhhC---CCChHHHHHHhhhhC----CChhHHHHHHHHHHc--CCCchHHHHHHHHHHHcCCCCCCcc--HHHHH
Q 045917           38 ISRFILTSL---PISLHFTRSLFNNVM----PPLFAYNTLIRAYAK--TSCSIESIKLFDEMLKTGLRPDNLT--YPFVV  106 (162)
Q Consensus        38 ~~~ll~~~~---~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~~t--~~~li  106 (162)
                      |-+|-.++.   .|+-..|.+.=.+-.    .|....--++.+-..  .|+.++|.+-|+.|...   |...-  ...|.
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLy  161 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLY  161 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHH
Confidence            445555555   677777777666554    566655555555444  58999999999998753   21111  12233


Q ss_pred             HHhhhhccchhhhHHHHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          107 KASDQCLLIGVGGSVHSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       107 ~~~~~~~~~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      -..-+.|+.+.|.++-+.....  .|. ...+..++...|..|+++.|.++.+.
T Consensus       162 leAqr~GareaAr~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~  213 (531)
T COG3898         162 LEAQRLGAREAARHYAERAAEK--APQLPWAARATLEARCAAGDWDGALKLVDA  213 (531)
T ss_pred             HHHHhcccHHHHHHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHHHHHHH
Confidence            3334677777777776665443  233 57788999999999999999998764

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=84.42  E-value=1.3  Score=20.65  Aligned_cols=24  Identities=21%  Similarity=0.164  Sum_probs=19.7

Q ss_pred             cchhHHHHHHHHHHhcCChhHHHH
Q 045917          132 SDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus       132 ~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      -+...|..|=..|...|++++|++
T Consensus        11 ~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen   11 NNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             CCHHHHHHHHHHHHHCcCHHhhcC
Confidence            457888888889999999988863

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

Probab=84.26  E-value=3  Score=21.27  Aligned_cols=31  Identities=16%  Similarity=0.204  Sum_probs=16.8

Q ss_pred             cCCCchHHHHHHHHHHHcCCCCCCccHHHHH
Q 045917           76 KTSCSIESIKLFDEMLKTGLRPDNLTYPFVV  106 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  106 (162)
                      +.|-..++..++++|.+.|+..+...+..++
T Consensus        14 ~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L   44 (48)
T PF11848_consen   14 RRGLISEVKPLLDRLQQAGFRISPKLIEEIL   44 (48)
T ss_pred             HcCChhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence            3455555555666665555555555554444

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

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

Probab=84.18  E-value=23  Score=29.39  Aligned_cols=118  Identities=12%  Similarity=-0.066  Sum_probs=83.6

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc-cHHHHHHHhhh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL-TYPFVVKASDQ  111 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~li~~~~~  111 (162)
                      |...-..+. .+..++|..-+.+..    -....|.-.=..+...|...+|...|..-..  +.|+.+ ..+++-+.+.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHH
Confidence            334444555 777788876666665    2333343333345557888888888877654  556544 46778888888


Q ss_pred             hccchhhhH--HHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          112 CLLIGVGGS--VHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       112 ~~~~~~a~~--i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      .|+-.-+..  +..++.+.+. .+...|-.|=..+-+.|+.+.|-..|+
T Consensus       731 ~G~~~la~~~~~L~dalr~dp-~n~eaW~~LG~v~k~~Gd~~~Aaecf~  778 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDP-LNHEAWYYLGEVFKKLGDSKQAAECFQ  778 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHccchHHHHHHHH
Confidence            998776666  8888888763 568889999999999999999988875

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=83.99  E-value=4.6  Score=30.22  Aligned_cols=73  Identities=10%  Similarity=0.029  Sum_probs=47.6

Q ss_pred             HHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917           72 RAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      +-|.+.|++++|.+.|..-..  +.| |.+++..-..+|.+.+.+..|+.=.......        -...+.+|++.+.-
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL--------d~~Y~KAYSRR~~A  174 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL--------DKLYVKAYSRRMQA  174 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh--------hHHHHHHHHHHHHH
Confidence            346778899999988876432  456 8888888888888888888776544433322        23345666655444


Q ss_pred             hHHH
Q 045917          151 DFAK  154 (162)
Q Consensus       151 ~~a~  154 (162)
                      .+++
T Consensus       175 R~~L  178 (536)
T KOG4648|consen  175 RESL  178 (536)
T ss_pred             HHHH
Confidence            4333

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=83.69  E-value=15  Score=26.86  Aligned_cols=136  Identities=10%  Similarity=0.006  Sum_probs=77.7

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C--ChhHHHHHHHHHHcCCCchHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P--PLFAYNTLIRAYAKTSCSIESIKLF   87 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~--~~~~~~~li~~~~~~~~~~~a~~~~   87 (162)
                      ++..+|..+++......-.. ...--.+..+|. .|+.+.|..+++.++   .  ....-.+-|..+.+.....+..++-
T Consensus       148 e~~~~a~~~~~~al~~~~~~-~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~l~  226 (304)
T COG3118         148 EDFGEAAPLLKQALQAAPEN-SEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQDLQ  226 (304)
T ss_pred             cchhhHHHHHHHHHHhCccc-chHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence            45566666666665443222 333445555666 888888888888887   1  1222223344444445555444554


Q ss_pred             HHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHH-hcCcchhHHHHHHHHHHhcCChhHH
Q 045917           88 DEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKV-GLHSDKYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        88 ~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~-~~~~~~~~~~~ll~~y~~~g~~~~a  153 (162)
                      ++.-..   | |...=-.+...+...|+.+.|.+.+-.+.+. .-.-|...-..|+..+...|..|-+
T Consensus       227 ~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         227 RRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             HHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHH
Confidence            444332   4 3333344566777778888777655444332 2234667778888888888865543

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

Probab=83.44  E-value=7.7  Score=30.50  Aligned_cols=51  Identities=14%  Similarity=-0.059  Sum_probs=33.6

Q ss_pred             HHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHH
Q 045917           73 AYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSL  124 (162)
Q Consensus        73 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~  124 (162)
                      .+.+.|++..|+.-|.++.... +-|...|+.-.-+|.+.|.+..|..=...
T Consensus       367 e~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~  417 (539)
T KOG0548|consen  367 EAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKK  417 (539)
T ss_pred             HHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4455678888888888776554 44566677777777777777666554333

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=83.41  E-value=7.1  Score=24.75  Aligned_cols=59  Identities=10%  Similarity=0.050  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      ..+.++....-++.|++-....-+.+|-+.+++..|..+++.+..+ +.+...+|-.+++
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v~  126 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYVK  126 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHHH
Confidence            3345555666678888888888888888888888888888777543 2233334554443

>PF13934 ELYS: Nuclear pore complex assembly

Probab=82.92  E-value=13  Score=25.86  Aligned_cols=107  Identities=10%  Similarity=-0.002  Sum_probs=62.2

Q ss_pred             HhcCCCchhHHHHHHHhhC---CCChHHHHHHhhhhC--CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccH
Q 045917           28 KTSLDHNTYIISRFILTSL---PISLHFTRSLFNNVM--PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        28 ~~~~~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  102 (162)
                      ..++++.   +...+++|-   .++++.|.+.+-+-.  |+.  ..-++..+...|+.+.|+.+++.+.-..-.+  ...
T Consensus        72 ~f~ip~~---~~~~~~g~W~LD~~~~~~A~~~L~~ps~~~~~--~~~Il~~L~~~~~~~lAL~y~~~~~p~l~s~--~~~  144 (226)
T PF13934_consen   72 AFGIPPK---YIKFIQGFWLLDHGDFEEALELLSHPSLIPWF--PDKILQALLRRGDPKLALRYLRAVGPPLSSP--EAL  144 (226)
T ss_pred             HhCCCHH---HHHHHHHHHHhChHhHHHHHHHhCCCCCCccc--HHHHHHHHHHCCChhHHHHHHHhcCCCCCCH--HHH
Confidence            4444444   677777777   777888887775533  221  2247788888899999999988764221111  222


Q ss_pred             HHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917          103 PFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus       103 ~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      ..++.. ..++.+.+|....+......   ....+..++....
T Consensus       145 ~~~~~~-La~~~v~EAf~~~R~~~~~~---~~~l~e~l~~~~~  183 (226)
T PF13934_consen  145 TLYFVA-LANGLVTEAFSFQRSYPDEL---RRRLFEQLLEHCL  183 (226)
T ss_pred             HHHHHH-HHcCCHHHHHHHHHhCchhh---hHHHHHHHHHHHH
Confidence            333344 44567777776655443311   1345666666555

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=82.69  E-value=19  Score=27.41  Aligned_cols=111  Identities=13%  Similarity=0.081  Sum_probs=71.0

Q ss_pred             CCChHHHHHHhhhhC-------------------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHH
Q 045917           47 PISLHFTRSLFNNVM-------------------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVK  107 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~-------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  107 (162)
                      .|++..|...|+...                   .-..+++.+..+|.+.+++..|+.-...-+..+- +|.-..--==.
T Consensus       221 ~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~-~N~KALyRrG~  299 (397)
T KOG0543|consen  221 EGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKALYRRGQ  299 (397)
T ss_pred             hchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhHHHHHHH
Confidence            677777777766532                   3355678888889999999999988888765321 22222222235


Q ss_pred             HhhhhccchhhhHHHHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHH-HHhhccc
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFA-KALFDEM  160 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a-~~~~~~m  160 (162)
                      ++...|+++.|+..|..+.+..  |+ ..+-+-|+.+--+..+.... .++|.+|
T Consensus       300 A~l~~~e~~~A~~df~ka~k~~--P~Nka~~~el~~l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  300 ALLALGEYDLARDDFQKALKLE--PSNKAARAELIKLKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHhhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777889999999999988863  44 44444555555554444433 5555544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.47  E-value=4.7  Score=24.19  Aligned_cols=46  Identities=11%  Similarity=0.062  Sum_probs=37.7

Q ss_pred             chhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          115 IGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       115 ~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .-+.++-...+......|++.+..+-++++-+.+++..|.++|+-.
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~v   68 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAI   68 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3345555666666678999999999999999999999999999854

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

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

Probab=82.39  E-value=27  Score=28.97  Aligned_cols=131  Identities=11%  Similarity=0.027  Sum_probs=66.6

Q ss_pred             hhhhcchhHHHHHhcCCCchhHHHHHHHhhC----CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHH
Q 045917           16 AHHHHQLPALFLKTSLDHNTYIISRFILTSL----PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLF   87 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~----~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~   87 (162)
                      .+++..-+....-.+++.++.++..+...+.    .++.+++ .+.-.+.    |.-..+.+.+.          -+..+
T Consensus       243 ~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~-~Lllli~es~i~Re~~~d~ils----------lm~~~  311 (799)
T KOG4162|consen  243 PKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEV-ILLLLIEESLIPRENIEDAILS----------LMLLL  311 (799)
T ss_pred             chHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHH-HHHHHHHhhccccccHHHHHHH----------HHHHH
Confidence            3444445555555666777777777666554    5556655 2222211    22122222111          01223


Q ss_pred             HHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           88 DEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        88 ~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +++....+.-|...|-.+--+....|+++.+-+.|+.....-+ .....|..+-..|+.+|.-..|..+.+
T Consensus       312 ~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~  381 (799)
T KOG4162|consen  312 RKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLR  381 (799)
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHH
Confidence            3333334445555566666666666666666666665544322 344556666666666666666655544

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=82.06  E-value=11  Score=29.13  Aligned_cols=83  Identities=10%  Similarity=-0.028  Sum_probs=61.5

Q ss_pred             CCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhh
Q 045917           32 DHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASD  110 (162)
Q Consensus        32 ~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  110 (162)
                      ..++..|..|=+... .|+++-|+..|....    -|..++-.|.-.|+.+.-.++-+.-...|-      ++..+.++.
T Consensus       344 ~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~----d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~  413 (443)
T PF04053_consen  344 LDDPEKWKQLGDEALRQGNIELAEECYQKAK----DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAAL  413 (443)
T ss_dssp             CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT-----HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc----CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHH
Confidence            457889999999999 999999999999977    677778888888988777777666554432      666777777


Q ss_pred             hhccchhhhHHHHH
Q 045917          111 QCLLIGVGGSVHSL  124 (162)
Q Consensus       111 ~~~~~~~a~~i~~~  124 (162)
                      -.|+.++..+++..
T Consensus       414 ~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  414 LLGDVEECVDLLIE  427 (443)
T ss_dssp             HHT-HHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHH
Confidence            77887777666543

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=81.60  E-value=1.7  Score=26.26  Aligned_cols=44  Identities=14%  Similarity=0.130  Sum_probs=31.5

Q ss_pred             hhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          117 VGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       117 ~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +.++-+..+......|++.+..+.|+++.+.+++..|.++|+-.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~i   71 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGI   71 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            33444445555567899999999999999999999999999754

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

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

Probab=81.25  E-value=15  Score=25.22  Aligned_cols=115  Identities=8%  Similarity=0.039  Sum_probs=62.5

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C---ChhHHHHHHHHHHcCC
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P---PLFAYNTLIRAYAKTS   78 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~---~~~~~~~li~~~~~~~   78 (162)
                      +...+...|+..+|...|++...--+..|+...-.+-+... .+++..|...+++.-   |   ++.+.-.+-+.|+..|
T Consensus        95 La~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g  174 (251)
T COG4700          95 LANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQG  174 (251)
T ss_pred             HHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHHHHHHHhcC
Confidence            34445555666666666666655555566555555555555 666666666666543   1   2223334445566666


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      +..+|..-|+....  .-|+...-.-.-..+.+.|+..++..=.
T Consensus       175 ~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         175 KYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             CchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            66666666666544  3344444333444455555555554433

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.87  E-value=22  Score=26.81  Aligned_cols=145  Identities=9%  Similarity=-0.061  Sum_probs=83.6

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CCh--hHHHHHHH--HHHcCCCchHH
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPL--FAYNTLIR--AYAKTSCSIES   83 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~--~~~~~li~--~~~~~~~~~~a   83 (162)
                      .|...+|-..|+++++- .|.|-..++.--++|+ .|+.+.-...++.+.    +|.  ++|-.-|.  ++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            34555666666666543 5666677777777888 888877777777765    444  23333333  33346888888


Q ss_pred             HHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH---HhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           84 IKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK---VGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        84 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~---~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+.-++-.+-+ +.|...-.+....+-..|++.++.+...+-..   .+.-.-..-|.-.--.|...+.++.|+.+||.
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            87766654321 22344445555555556677777665433211   11111122344444556677889999888874

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=80.67  E-value=3.2  Score=18.75  Aligned_cols=24  Identities=17%  Similarity=0.225  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHhhcc
Q 045917          136 IGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       136 ~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +|..+=..|...|++++|.+.|++
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~   26 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEK   26 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHH
Confidence            456667788889999999888765

...

>PRK10564 maltose regulon periplasmic protein; Provisional

Probab=80.13  E-value=2.9  Score=30.44  Aligned_cols=41  Identities=22%  Similarity=0.268  Sum_probs=28.3

Q ss_pred             CChhH-HHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccH
Q 045917           62 PPLFA-YNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        62 ~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  102 (162)
                      |++.+ ||.-|....+.||+++|+.+++|-++.|++--..||
T Consensus       254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tF  295 (303)
T PRK10564        254 NDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTF  295 (303)
T ss_pred             chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHH
Confidence            44333 677777778888888888888888777776544444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	162
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-06

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.4 bits (103), Expect = 6e-06
 Identities = 11/59 (18%), Positives = 23/59 (38%)

Query: 50  LHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKA 108
           +          +  L  YN ++  +A+     E + +   +   GL PD L+Y   ++ 
Sbjct: 151 VVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	162
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.92
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.64
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.63
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.28
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.23
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.23
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.2
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.2
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.18
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.17
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.12
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.11
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.08
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.08
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.08
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.08
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.08
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.07
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.07
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.07
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.07
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.06
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.05
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.04
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.03
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.02
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.0
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.98
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.98
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.91
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.89
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.88
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.84
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.82
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.82
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.8
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.8
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.8
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.79
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.78
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.78
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.77
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.76
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.71
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.71
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.66
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.65
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.63
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.6
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.57
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.56
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.55
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.55
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.53
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.53
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.52
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.45
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.45
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.45
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.44
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.43
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.43
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.43
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.42
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.41
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.39
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.37
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.37
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.36
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.35
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.31
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.31
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.31
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.28
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.27
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.25
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.22
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.22
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.22
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.2
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.19
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.19
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.17
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.15
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.14
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.14
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.13
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.13
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.13
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.12
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.1
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.09
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.09
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.08
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.08
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.07
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.07
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.05
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.05
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.05
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.03
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.03
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.02
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.02
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.01
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.01
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.01
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.01
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.99
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.99
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.98
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.98
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.98
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.97
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.97
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.95
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.93
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.92
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.91
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.89
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.89
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.88
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.88
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.83
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.83
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.82
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.81
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.81
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.81
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.81
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.78
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.77
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.76
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.74
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.72
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.72
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.7
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.7
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.69
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.68
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.68
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.68
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.66
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.66
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.66
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.65
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.63
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.57
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.56
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.56
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.56
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.55
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.53
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.46
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.45
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.44
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.42
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.4
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.39
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.39
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.38
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.37
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.32
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.28
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.27
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.24
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.15
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.09
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	97.04
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.01
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.0
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.98
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.98
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.95
4g1t_A	472	Interferon-induced protein with tetratricopeptide	96.94
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.9
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.89
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.84
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.78
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.77
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.71
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.66
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.59
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.55
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	96.54
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	96.51
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.46
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.41
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.33
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.2
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.1
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.08
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.4
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	95.4
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.3
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	94.72
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	94.68
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	94.47
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.25
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.83
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.6
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.44
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	93.02
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	92.72
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.56
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.5
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	92.41
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	92.11
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	92.03
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	91.9
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.6
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	91.52
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	91.4
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	91.15
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.05
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	90.68
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.64
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	90.57
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.53
2p58_C	116	Putative type III secretion protein YSCG; type III	90.34
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	89.68
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	89.48
1pc2_A	152	Mitochondria fission protein; unknown function; NM	88.99
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	87.86
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	87.28
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	87.23
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	86.68
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	86.63
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	85.33
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.07
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	84.56
2ion_A	152	PDCD4, programmed cell death 4, PDCD4; alpha-helic	84.41
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.75
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	82.68
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	81.41
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	81.0
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.38

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

Probab=100.00  E-value=5.2e-36  Score=226.60  Aligned_cols=157  Identities=10%  Similarity=0.052  Sum_probs=149.0

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCC---------hHHHHHHhhhhC-----CChhHHHH
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PIS---------LHFTRSLFNNVM-----PPLFAYNT   69 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~---------~~~a~~~~~~m~-----~~~~~~~~   69 (162)
                      ..+..+.+.|++++|.++|+.|++.|+.||..+||+||.+|+ .+.         ++.|.++|++|.     ||..|||+
T Consensus        31 ~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~  110 (501)
T 4g26_A           31 QKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTN  110 (501)
T ss_dssp             HHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            345556666899999999999999999999999999999998 654         688999999997     99999999


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCC
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~  149 (162)
                      +|.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++++.|.+.|+.||..+|++||++|++.|+
T Consensus       111 lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~  190 (501)
T 4g26_A          111 GARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKN  190 (501)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhcccC
Q 045917          150 IDFAKALFDEMP  161 (162)
Q Consensus       150 ~~~a~~~~~~m~  161 (162)
                      +++|.++|++|+
T Consensus       191 ~d~A~~ll~~Mr  202 (501)
T 4g26_A          191 ADKVYKTLQRLR  202 (501)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999996

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

Probab=99.96  E-value=4e-30  Score=194.52  Aligned_cols=145  Identities=7%  Similarity=0.033  Sum_probs=135.6

Q ss_pred             hHHHHHHHHhh------------chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChh
Q 045917            4 RQIETLIQLSK------------TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLF   65 (162)
Q Consensus         4 ~~~~~~l~~~~------------~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~   65 (162)
                      .++..++..|+            +++.|.++|+.|...|+.||..+||+||++|+ .|++++|.++|++|.     ||..
T Consensus        62 ~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~  141 (501)
T 4g26_A           62 YHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLR  141 (501)
T ss_dssp             HHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHH
T ss_pred             hHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccc
Confidence            35556666553            25678999999999999999999999999999 999999999999997     9999


Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      +||++|.+|++.|++++|.++|++|.+.|+.||..||++||++|++.|+.++|.+++++|.+.|..|+..||+.++..|+
T Consensus       142 tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~  221 (501)
T 4g26_A          142 SYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFK  221 (501)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHH
T ss_pred             eehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hcC
Q 045917          146 ACK  148 (162)
Q Consensus       146 ~~g  148 (162)
                      ..+
T Consensus       222 s~~  224 (501)
T 4g26_A          222 SEV  224 (501)
T ss_dssp             SHH
T ss_pred             cCc
Confidence            754

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

Probab=99.92  E-value=8.8e-26  Score=178.51  Aligned_cols=127  Identities=16%  Similarity=0.146  Sum_probs=118.2

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC--------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM--------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPF  104 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  104 (162)
                      -..+||+||++|| .|++++|.++|++|.        ||.+|||+||.+|++.|++++|.++|++|++.|+.||.+|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            3568999999999 999999999998763        9999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhccc-hhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          105 VVKASDQCLLI-GVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       105 li~~~~~~~~~-~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +|+++|+.|.. ++|.+++++|.+.|+.||..+|++++..+.+.+-++.+.+++.++
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            99999999985 789999999999999999999999999999988888887776554

>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=1.7e-22  Score=159.97  Aligned_cols=141  Identities=13%  Similarity=0.094  Sum_probs=120.7

Q ss_pred             hhHHHHHHHHhhchhhhcchhHHHH---HhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHHH
Q 045917            3 SRQIETLIQLSKTAHHHHQLPALFL---KTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIRA   73 (162)
Q Consensus         3 ~~~~~~~l~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~~   73 (162)
                      .+++++.+.++|++++|.++++.|.   +.|+.||..|||+||++|| .|++++|.++|++|.     ||.+|||++|.+
T Consensus       130 ynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~g  209 (1134)
T 3spa_A          130 LLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC  209 (1134)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            5788889999999999999998876   4689999999999999999 999999999999997     999999999999


Q ss_pred             HHcCCCc-hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc------hhHHHHHHHHHHh
Q 045917           74 YAKTSCS-IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD------KYIGNTLLRMYAA  146 (162)
Q Consensus        74 ~~~~~~~-~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~------~~~~~~ll~~y~~  146 (162)
                      +++.|+. ++|.++|++|.+.|+.||..||++++.++.+.+-++.++++     ..++.|+      ..+..-|.+.|++
T Consensus       210 lcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv-----~P~f~p~~~~~~~~~t~~LL~dl~s~  284 (1134)
T 3spa_A          210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV-----KPTFSLPPQLPPPVNTSKLLRDVYAK  284 (1134)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG-----CCCCCCCCCCCCCCCCCTTTHHHHCC
T ss_pred             HHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh-----CcccCCCCCCcccccchHHHHHHHcc
Confidence            9999985 78999999999999999999999999887776555555444     2344444      5566667778876


Q ss_pred             cC
Q 045917          147 CK  148 (162)
Q Consensus       147 ~g  148 (162)
                      .+
T Consensus       285 d~  286 (1134)
T 3spa_A          285 DG  286 (1134)
T ss_dssp             CS
T ss_pred             CC
Confidence            65

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

Probab=99.64  E-value=4.8e-15  Score=113.28  Aligned_cols=151  Identities=9%  Similarity=-0.021  Sum_probs=79.2

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~   81 (162)
                      ...+...|+.++|.++++.+.+.+ +.+..+++.+...|. .|++++|...|+.+.    .+..+|+.+...|.+.|+++
T Consensus       414 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  492 (597)
T 2xpi_A          414 AHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQ  492 (597)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHH
Confidence            334444455555555555544332 224445555555555 555555555555543    33555555555555555555


Q ss_pred             HHHHHHHHHHHc----CCCCC--CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHH
Q 045917           82 ESIKLFDEMLKT----GLRPD--NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus        82 ~a~~~~~~m~~~----~~~p~--~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      +|.++|+++.+.    +..|+  ..+|..+...|.+.|++++|..+++.+.+.+ +.+..+|..+..+|.+.|++++|.+
T Consensus       493 ~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~  571 (597)
T 2xpi_A          493 TAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAIT  571 (597)
T ss_dssp             HHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            555555555443    44454  3455555555555555555555555555443 2345555555555555555555555


Q ss_pred             hhcc
Q 045917          156 LFDE  159 (162)
Q Consensus       156 ~~~~  159 (162)
                      .|++
T Consensus       572 ~~~~  575 (597)
T 2xpi_A          572 HLHE  575 (597)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

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

Probab=99.63  E-value=4.9e-15  Score=113.24  Aligned_cols=152  Identities=11%  Similarity=-0.001  Sum_probs=79.2

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCc
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~   80 (162)
                      +...+...|+.++|.++++.+.+. .+.++.+++.+...|. .|++++|..+|+++.    .+..+|+.++.+|.+.|++
T Consensus       345 l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  423 (597)
T 2xpi_A          345 HLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEH  423 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            344444555555555555555432 2334455555555555 555555555555543    2344555555555555555


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ++|.++|+++.+.+ +.+..+|+.+..+|.+.|++++|.+++..+.+.. +.+..+|+.+..+|.+.|++++|.++|+++
T Consensus       424 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  501 (597)
T 2xpi_A          424 DQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNA  501 (597)
T ss_dssp             HHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            55555555554432 2244555555555555555555555555554432 224455555555555555555555555443

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

Probab=99.28  E-value=2.9e-10  Score=80.37  Aligned_cols=150  Identities=8%  Similarity=-0.072  Sum_probs=115.1

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCch-hHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchH
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNT-YIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~   82 (162)
                      .+...+...++.+.|.+.++.+...+..|+. ..+..+-..+. .|++++|...++. +.+...+..+...|.+.|++++
T Consensus        70 ~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-~~~~~~~~~l~~~~~~~g~~~~  148 (291)
T 3mkr_A           70 MFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-GDSLECMAMTVQILLKLDRLDL  148 (291)
T ss_dssp             HHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-CCSHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3445556667788889999888877765654 44444446666 9999999999998 6667788889999999999999


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHH----HHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFV----VKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~l----i~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      |...|+++.+..  |+.. ...+    +..+...|++++|..+++.+.+. .+.+...++.+-.+|.+.|++++|.+.|+
T Consensus       149 A~~~l~~~~~~~--p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~  224 (291)
T 3mkr_A          149 ARKELKKMQDQD--EDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQ  224 (291)
T ss_dssp             HHHHHHHHHHHC--TTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhhC--cCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            999999998753  6543 2223    33334458899999999998887 45678889999999999999999999887


Q ss_pred             c
Q 045917          159 E  159 (162)
Q Consensus       159 ~  159 (162)
                      +
T Consensus       225 ~  225 (291)
T 3mkr_A          225 E  225 (291)
T ss_dssp             H
T ss_pred             H
Confidence            6

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.23  E-value=7.3e-10  Score=75.74  Aligned_cols=151  Identities=7%  Similarity=-0.030  Sum_probs=107.7

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~   82 (162)
                      ..+...|+.++|.+.++.+.+.. +.++..+..+-..|. .|++++|...|++..    .+...|..+...|...|++++
T Consensus        45 ~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~  123 (252)
T 2ho1_A           45 LGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEE  123 (252)
T ss_dssp             HHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHH
Confidence            34455577788888887776653 334566777777777 888888888888765    356677777788888888888


Q ss_pred             HHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           83 SIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        83 a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |.+.|++..+.+..| +...+..+...+...|++++|...+....+.. +.+...+..+...|.+.|++++|.+.|++.
T Consensus       124 A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  201 (252)
T 2ho1_A          124 AYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLF  201 (252)
T ss_dssp             HHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            888888876633344 34456667777778888888888887777654 234667777777888888888887777653

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

Probab=99.23  E-value=1.3e-09  Score=72.92  Aligned_cols=153  Identities=11%  Similarity=-0.048  Sum_probs=119.7

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcC-CC
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKT-SC   79 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~-~~   79 (162)
                      +...+...|+.++|.+.+....+.. +.++..+..+-..|. .|++++|...|+...    .+...|..+...+... |+
T Consensus        14 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~   92 (225)
T 2vq2_A           14 LAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNR   92 (225)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCc
Confidence            3445566688889998888887654 335667777888888 999999999998876    4677888888899999 99


Q ss_pred             chHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           80 SIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +++|...+++..+.+..|+ ...+..+...+...|++++|...+....+.. +.+...+..+..+|.+.|++++|.+.|+
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~  171 (225)
T 2vq2_A           93 PAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFK  171 (225)
T ss_dssp             HHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999877333333 4567777888888999999999988887764 3357788888889999999999998887


Q ss_pred             cc
Q 045917          159 EM  160 (162)
Q Consensus       159 ~m  160 (162)
                      +.
T Consensus       172 ~~  173 (225)
T 2vq2_A          172 KY  173 (225)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.20  E-value=2.7e-10  Score=82.83  Aligned_cols=123  Identities=10%  Similarity=0.024  Sum_probs=66.0

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHh
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  109 (162)
                      +.++..+-..|. .|++++|...|+.+.   | +..+|..+...+.+.|++++|.+.|+++.+. .+.+..++..+...+
T Consensus       237 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          237 AVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHH
Confidence            344555555555 555555555555543   2 2445555555555555666666555555443 223444555555555


Q ss_pred             hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          110 DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       110 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+.|++++|...++.+.+.. +.+...+..+..+|.+.|++++|.+.|++
T Consensus       316 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  364 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55566666655555554431 22345555566666666666666665554

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.20  E-value=1e-09  Score=79.73  Aligned_cols=123  Identities=9%  Similarity=-0.011  Sum_probs=88.4

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      .+..+-..+. .|++++|...|+...   | +..+|..+...|.+.|++++|.+.|+++.+.+ +.+..++..+...+.+
T Consensus       205 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~  283 (388)
T 1w3b_A          205 AYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHH
Confidence            3344444444 555555555555443   3 46677888888888888888888888887642 1234567888888888


Q ss_pred             hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917          112 CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      .|++++|...++.+.+.. +.+..++..+...|.+.|++++|.+.|+++.
T Consensus       284 ~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  332 (388)
T 1w3b_A          284 KGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKAL  332 (388)
T ss_dssp             HSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888999988888887763 4567888888888999999999988887653

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.18  E-value=1e-09  Score=80.99  Aligned_cols=85  Identities=9%  Similarity=-0.073  Sum_probs=45.4

Q ss_pred             HHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHH
Q 045917           74 YAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a  153 (162)
                      +...|++++|...|+++.+.. +.+...+..+...+.+.|++++|..++..+.+.. +.+..+|..+..+|...|++++|
T Consensus       153 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  230 (450)
T 2y4t_A          153 AFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELS  230 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            444445555555554444321 1233445555555666666666666666655543 23455666666666666666666


Q ss_pred             HHhhccc
Q 045917          154 KALFDEM  160 (162)
Q Consensus       154 ~~~~~~m  160 (162)
                      .+.|+++
T Consensus       231 ~~~~~~~  237 (450)
T 2y4t_A          231 LSEVREC  237 (450)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665543

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.17  E-value=1e-09  Score=80.97  Aligned_cols=149  Identities=8%  Similarity=-0.030  Sum_probs=85.6

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHH-----------
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTL-----------   70 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~l-----------   70 (162)
                      ..++..+|+.++|.+.+..+.+.. +.++.++..+...|. .|++++|...|+.+.   |+ ...+..+           
T Consensus       184 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~  262 (450)
T 2y4t_A          184 AECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIE  262 (450)
T ss_dssp             HHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHH
Confidence            344455566666666666655442 234555666666666 666666666666654   32 2233333           


Q ss_pred             -HHHHHcCCCchHHHHHHHHHHHcCCCCC-----CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHH
Q 045917           71 -IRAYAKTSCSIESIKLFDEMLKTGLRPD-----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMY  144 (162)
Q Consensus        71 -i~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y  144 (162)
                       ...+.+.|++++|...|+++.+.  .|+     ...+..+...+.+.|++++|...+..+.+.. +.+...|..+..+|
T Consensus       263 ~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~  339 (450)
T 2y4t_A          263 SAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAY  339 (450)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence             55566666666666666666542  233     2245555666666666666666666665542 23456666666666


Q ss_pred             HhcCChhHHHHhhcc
Q 045917          145 AACKEIDFAKALFDE  159 (162)
Q Consensus       145 ~~~g~~~~a~~~~~~  159 (162)
                      .+.|++++|.+.|++
T Consensus       340 ~~~~~~~~A~~~~~~  354 (450)
T 2y4t_A          340 LIEEMYDEAIQDYET  354 (450)
T ss_dssp             HHTTCHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHH
Confidence            677777776666654

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

Probab=99.12  E-value=6.1e-09  Score=70.51  Aligned_cols=149  Identities=7%  Similarity=-0.068  Sum_probs=101.5

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~   82 (162)
                      .++...|+.++|...++...+.. +.+...+..+-..+. .|++++|...|+...    .+...|..+...+...|++++
T Consensus        65 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  143 (243)
T 2q7f_A           65 NLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKL  143 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHH
Confidence            34445567777777777666543 234556666666666 777777777777665    356667777777777788888


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      |...+++..+.. +.+...+..+...+.+.|++++|...+....+.. +.+..++..+..+|.+.|++++|.+.|++
T Consensus       144 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  218 (243)
T 2q7f_A          144 ALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDK  218 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            888777766542 2245556667777777788888887777776653 23466777777788888888888777765

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.11  E-value=2.9e-09  Score=68.87  Aligned_cols=151  Identities=7%  Similarity=-0.044  Sum_probs=123.4

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~   81 (162)
                      ...+...|+.++|...++.+.+.. +.++..+..+-..+. .|++++|...++...    .+...|..+...+...|+++
T Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   93 (186)
T 3as5_A           15 GISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQVQKYD   93 (186)
T ss_dssp             HHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHH
Confidence            344555678888888887775442 335677888888888 999999999999876    46778888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +|.+.+++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+...|.+.|++++|.+.+++.
T Consensus        94 ~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  170 (186)
T 3as5_A           94 LAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKA  170 (186)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999987652 3456677888889999999999999999988764 346788999999999999999999998753

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.08  E-value=7.1e-09  Score=70.76  Aligned_cols=152  Identities=9%  Similarity=-0.031  Sum_probs=125.6

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC-----C-ChhHHHHHHHHHHcCC
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM-----P-PLFAYNTLIRAYAKTS   78 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~-~~~~~~~li~~~~~~~   78 (162)
                      +..++...|+.++|.+.+....+.. +.+...+..+-..|. .|++++|...|+...     | +...|..+...+...|
T Consensus        77 la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  155 (252)
T 2ho1_A           77 LAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMK  155 (252)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcC
Confidence            4455666789999999999887764 335677888888888 999999999999874     3 4677888889999999


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      ++++|...|++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+...|.+.|+.++|.+.++
T Consensus       156 ~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~  233 (252)
T 2ho1_A          156 KPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGL  233 (252)
T ss_dssp             CHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            9999999999987653 2346678888999999999999999999987753 3567788899999999999999999987


Q ss_pred             cc
Q 045917          159 EM  160 (162)
Q Consensus       159 ~m  160 (162)
                      ++
T Consensus       234 ~~  235 (252)
T 2ho1_A          234 QL  235 (252)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.08  E-value=9.6e-09  Score=72.46  Aligned_cols=153  Identities=6%  Similarity=-0.090  Sum_probs=115.4

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCc
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~   80 (162)
                      +..++...|+.++|...+....+.... +...+..+-..|. .|++++|...|+...    .+...|..+...+...|++
T Consensus       131 l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~  209 (330)
T 3hym_B          131 YGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEW  209 (330)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccH
Confidence            344555667788888888877665422 3445555667777 888888888888775    4567788888888889999


Q ss_pred             hHHHHHHHHHHHcC--------CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917           81 IESIKLFDEMLKTG--------LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus        81 ~~a~~~~~~m~~~~--------~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      ++|...+++..+..        ...+..++..+...+.+.|++++|...++...+.. +.+...+..+-.+|.+.|++++
T Consensus       210 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~  288 (330)
T 3hym_B          210 KTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFEN  288 (330)
T ss_dssp             HHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHH
Confidence            99999988876531        13345677888888888899999999888887764 3457788888889999999999


Q ss_pred             HHHhhccc
Q 045917          153 AKALFDEM  160 (162)
Q Consensus       153 a~~~~~~m  160 (162)
                      |.+.|++.
T Consensus       289 A~~~~~~a  296 (330)
T 3hym_B          289 AVDYFHTA  296 (330)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHHH
Confidence            99888765

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.08  E-value=5.5e-09  Score=73.62  Aligned_cols=149  Identities=5%  Similarity=-0.004  Sum_probs=124.4

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~   84 (162)
                      +...|+.++|...+..+.+.. +.++..+..+-..+. .|++++|...++...    .+...|..+...+...|++++|.
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            334467888888888887664 336778888888889 999999999999886    45788999999999999999999


Q ss_pred             HHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCc-----------chhHHHHHHHHHHhcCChhHH
Q 045917           85 KLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS-----------DKYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~-----------~~~~~~~ll~~y~~~g~~~~a  153 (162)
                      ..|++..+.. +.+..++..+...+.+.|++++|...++...+.....           +...|..+..+|.+.|+.++|
T Consensus       227 ~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  305 (327)
T 3cv0_A          227 DAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLV  305 (327)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHH
Confidence            9999987643 2356678889999999999999999999988765332           578899999999999999999


Q ss_pred             HHhhccc
Q 045917          154 KALFDEM  160 (162)
Q Consensus       154 ~~~~~~m  160 (162)
                      .+++++.
T Consensus       306 ~~~~~~~  312 (327)
T 3cv0_A          306 ELTYAQN  312 (327)
T ss_dssp             HHHTTCC
T ss_pred             HHHHHHH
Confidence            9998764

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

Probab=99.08  E-value=3.5e-09  Score=74.81  Aligned_cols=145  Identities=8%  Similarity=-0.045  Sum_probs=116.0

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHH---HHHHHHHHcCCC
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAY---NTLIRAYAKTSC   79 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~---~~li~~~~~~~~   79 (162)
                      ..++...|+.++|.+.++.      +.++..+..+...+. .|+.++|...|+.+.   |+....   ...+..+...|+
T Consensus       108 a~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~  181 (291)
T 3mkr_A          108 ASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEK  181 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTH
T ss_pred             HHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchH
Confidence            3455666888888888776      567788888889999 999999999999997   664322   233444556699


Q ss_pred             chHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH-HHHhhc
Q 045917           80 SIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF-AKALFD  158 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~-a~~~~~  158 (162)
                      +++|..+|+++.+. .+.+...++.+..++.+.|++++|+..++...+.. +-+..++..+...+...|+.++ +.++++
T Consensus       182 ~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~  259 (291)
T 3mkr_A          182 LQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLS  259 (291)
T ss_dssp             HHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            99999999999876 44577778889999999999999999999988764 3467889999999999999976 567766


Q ss_pred             c
Q 045917          159 E  159 (162)
Q Consensus       159 ~  159 (162)
                      +
T Consensus       260 ~  260 (291)
T 3mkr_A          260 Q  260 (291)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=99.08  E-value=1.3e-11  Score=91.44  Aligned_cols=141  Identities=11%  Similarity=0.027  Sum_probs=14.6

Q ss_pred             hHHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchH
Q 045917            4 RQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         4 ~~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~   82 (162)
                      .++-.++..+|++++|.++++.+      +++.+|..|..++. .|++++|...|... +|..+|..++.++...|++++
T Consensus         7 ~a~~~ll~~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika-~D~~~y~~V~~~ae~~g~~Ee   79 (449)
T 1b89_A            7 SAVQVLIEHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-DDPSSYMEVVQAANTSGNWEE   79 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC-CCHHHHHHHHHHHHhCCCHHH
Confidence            34556677778888888877776      33347888888888 88888888887543 555577777777777788887


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |...++..++.  .+++.+.+.++.+|.+.|++.++++++.       .|+..+|..+-+.|...|++++|...|+.+
T Consensus        80 Ai~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a  148 (449)
T 1b89_A           80 LVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV  148 (449)
T ss_dssp             -------------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT
T ss_pred             HHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence            77755544432  3445666677777777777777666653       245556666666666666666666666554

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

Probab=99.07  E-value=5.1e-09  Score=70.89  Aligned_cols=149  Identities=9%  Similarity=0.002  Sum_probs=117.3

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a   83 (162)
                      .+...|+.++|...++...+.. +.+...+..+-..+. .|++++|...|+...    .+...|..+...+...|++++|
T Consensus        32 ~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  110 (243)
T 2q7f_A           32 RGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEA  110 (243)
T ss_dssp             ----------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHH
Confidence            3445578899999999887643 335677778888888 999999999999876    4678889999999999999999


Q ss_pred             HHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           84 IKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        84 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+.+++..+.. +.+...+..+...+.+.|++++|...+....+.. +.+...+..+...|.+.|++++|.+.|++.
T Consensus       111 ~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  185 (243)
T 2q7f_A          111 KDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQFAAV  185 (243)
T ss_dssp             HHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999987653 2356677888899999999999999999988764 346788899999999999999999998763

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

Probab=99.07  E-value=3e-09  Score=72.55  Aligned_cols=149  Identities=9%  Similarity=-0.055  Sum_probs=93.0

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC--------hhHHHHHHHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP--------LFAYNTLIRAYA   75 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~--------~~~~~~li~~~~   75 (162)
                      ..+...|+.++|...+....+..  .++..+..+-..+. .|++++|...|+...   |+        ...|..+-..+.
T Consensus        13 ~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~   90 (258)
T 3uq3_A           13 NKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYH   90 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHH
Confidence            34445567777777777776666  56666666666667 777777777777654   22        466667777777


Q ss_pred             cCCCchHHHHHHHHHHHcC------------------------CCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhc
Q 045917           76 KTSCSIESIKLFDEMLKTG------------------------LRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL  130 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~------------------------~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~  130 (162)
                      ..|++++|...|++..+..                        ..| +...+..+...+...|++++|...+....+.. 
T Consensus        91 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-  169 (258)
T 3uq3_A           91 KLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-  169 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            7777777777777765521                        111 22334455556666666666666666665543 


Q ss_pred             CcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          131 HSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       131 ~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +.+...+..+-.+|.+.|++++|.+.|++
T Consensus       170 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          170 PEDARGYSNRAAALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            23455666666666666666666666654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.07  E-value=1.9e-08  Score=65.67  Aligned_cols=152  Identities=11%  Similarity=-0.090  Sum_probs=125.0

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSC   79 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~   79 (162)
                      .+-..+...|++++|.+.++...+.. +-++..+..+-..|. .|++++|...++...    .+...+..+-..+...++
T Consensus        10 ~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (184)
T 3vtx_A           10 DIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANFMIDE   88 (184)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHcCC
Confidence            34455667789999999999987764 335677888888888 999999999999886    456677777788889999


Q ss_pred             chHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           80 SIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ++.+...+.+..+.. +-+...+..+-..+.+.|++++|.+.++...+.. +.+...|..+-.+|.+.|++++|.+.|++
T Consensus        89 ~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  166 (184)
T 3vtx_A           89 KQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKK  166 (184)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999986642 2345567778889999999999999999988864 34678899999999999999999999875

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.07  E-value=2.1e-09  Score=72.63  Aligned_cols=144  Identities=6%  Similarity=-0.188  Sum_probs=64.5

Q ss_pred             HhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-C-----------CChHHHHHHhhhhC---C-ChhHHHHHHHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-P-----------ISLHFTRSLFNNVM---P-PLFAYNTLIRAYA   75 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~-----------~~~~~a~~~~~~m~---~-~~~~~~~li~~~~   75 (162)
                      ..|+.++|...++...+.. +.++..+..+-..+. .           |++++|...|+...   | +...|..+=..+.
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            3344455555554444332 122333444444444 4           55555555555443   2 2444444555555


Q ss_pred             cCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHH
Q 045917           76 KTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      ..|++++|...|++..+..  .+...+..+-..+...|++++|...++...+.. +.+...+..+-..|.+.|++++|.+
T Consensus       130 ~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~  206 (217)
T 2pl2_A          130 LLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAAR  206 (217)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------
T ss_pred             HcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHH
Confidence            5555555555555555444  444455555555555555555555555555432 2234455555555555555555555


Q ss_pred             hhcc
Q 045917          156 LFDE  159 (162)
Q Consensus       156 ~~~~  159 (162)
                      .|++
T Consensus       207 ~~~~  210 (217)
T 2pl2_A          207 AAAL  210 (217)
T ss_dssp             ----
T ss_pred             HHHH
Confidence            5543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.06  E-value=6.9e-09  Score=74.52  Aligned_cols=147  Identities=10%  Similarity=-0.071  Sum_probs=123.9

Q ss_pred             HhhchhhhcchhHHHHHhcCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTSLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      ..|+.++|...+..+.+..... ++.++..+-..|. .|++++|...|+...   | +...|..+...+.+.|++++|..
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            6788999999999987765432 5788888999999 999999999999876   4 57889999999999999999999


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCc----------chhHHHHHHHHHHhcCChhHHHH
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS----------DKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~----------~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      .|++..+.. +.+...+..+...+.+.|++++|...+....+.....          ...+|..+..+|.+.|+.++|.+
T Consensus       273 ~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  351 (368)
T 1fch_A          273 AYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  351 (368)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHH
Confidence            999987642 2345678889999999999999999999887754221          16789999999999999999999


Q ss_pred             hhcc
Q 045917          156 LFDE  159 (162)
Q Consensus       156 ~~~~  159 (162)
                      ++.+
T Consensus       352 ~~~~  355 (368)
T 1fch_A          352 ADAR  355 (368)
T ss_dssp             HHTT
T ss_pred             hHHH
Confidence            8763

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.05  E-value=3.4e-09  Score=64.89  Aligned_cols=121  Identities=11%  Similarity=-0.029  Sum_probs=84.8

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC  112 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  112 (162)
                      +..+-..+. .|++++|...|+.+.    .+...|..+...+...|++++|...++++.+.+ +.+...+..+...+...
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            445555666 777778877777765    356667777777777788888888887776543 22344566677777778


Q ss_pred             ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          113 LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       113 ~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |++++|...+..+.+.. +.+...+..+...|.+.|++++|.+.|+++
T Consensus        83 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  129 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKA  129 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHH
Confidence            88888888877776653 234667777778888888888888877654

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

Probab=99.04  E-value=5.9e-10  Score=82.64  Aligned_cols=128  Identities=9%  Similarity=0.004  Sum_probs=58.4

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLF   87 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~   87 (162)
                      ...++|++.+++++++       .|+..+|..+-..|. .|++++|...|..+.    .|.-+..++.+.|++++|.+.+
T Consensus       103 ~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a~----n~~~LA~~L~~Lg~yq~AVea~  171 (449)
T 1b89_A          103 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS----NFGRLASTLVHLGEYQAAVDGA  171 (449)
T ss_dssp             ------CHHHHTTTTT-------CC----------------CTTTHHHHHHHTT----CHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHhh----hHHHHHHHHHHhccHHHHHHHH
Confidence            3444444444444442       234445555555555 555555555555543    5666666666666666666666


Q ss_pred             HHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           88 DEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        88 ~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +++      .+..+|..++.+|...|+++.|......     +..++.-...++..|.+.|++++|.++++
T Consensus       172 ~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe  231 (449)
T 1b89_A          172 RKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLE  231 (449)
T ss_dssp             HHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHH
Confidence            655      2455666666666666666666433322     11222223456666777777777766654

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

Probab=99.03  E-value=2.4e-09  Score=77.16  Aligned_cols=148  Identities=11%  Similarity=-0.041  Sum_probs=75.2

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~   84 (162)
                      +...|+.++|.+.++.+.+.. +.++..+..+-..|. .|++++|...|+...   | +..+|..+...|...|++++|.
T Consensus        75 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~  153 (365)
T 4eqf_A           75 RLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDAC  153 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHH
Confidence            334455555555555554432 223445555555555 555555555555544   2 3445555555555555555555


Q ss_pred             HHHHHHHHcC------------------------------------------CCC---CCccHHHHHHHhhhhccchhhh
Q 045917           85 KLFDEMLKTG------------------------------------------LRP---DNLTYPFVVKASDQCLLIGVGG  119 (162)
Q Consensus        85 ~~~~~m~~~~------------------------------------------~~p---~~~t~~~li~~~~~~~~~~~a~  119 (162)
                      ..|++..+..                                          ..|   +..++..+...+.+.|++++|.
T Consensus       154 ~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~  233 (365)
T 4eqf_A          154 EALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAI  233 (365)
T ss_dssp             HHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHH
Confidence            5555543311                                          001   2344455555555555555555


Q ss_pred             HHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          120 SVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       120 ~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+....+.. +.+..+|..+-.+|.+.|++++|.+.|++
T Consensus       234 ~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  272 (365)
T 4eqf_A          234 DAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTR  272 (365)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5555555442 22345555555555555555555555543

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

Probab=99.02  E-value=6.7e-09  Score=74.79  Aligned_cols=152  Identities=10%  Similarity=-0.100  Sum_probs=123.8

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCC-CchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCc
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLD-HNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~   80 (162)
                      ..++...|+.++|.+.++.+.+.... +++.++..+-..|. .|++++|...|+...    .+..+|+.+-..|.+.|++
T Consensus       184 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  263 (365)
T 4eqf_A          184 SKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRS  263 (365)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            44556668899999999999877543 26788899999999 999999999999876    4688999999999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcC-----------cchhHHHHHHHHHHhcCC
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH-----------SDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~-----------~~~~~~~~ll~~y~~~g~  149 (162)
                      ++|...|++..+.. +.+..++..+...+.+.|++++|...++...+....           .+..+|..+-.+|...|+
T Consensus       264 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  342 (365)
T 4eqf_A          264 EEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQ  342 (365)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCc
Confidence            99999999987642 234667888999999999999999999998775421           136889999999999999


Q ss_pred             hhHHHHhhcc
Q 045917          150 IDFAKALFDE  159 (162)
Q Consensus       150 ~~~a~~~~~~  159 (162)
                      .+.+.++..+
T Consensus       343 ~~~a~~~~~~  352 (365)
T 4eqf_A          343 PELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            9999988764

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

Probab=99.00  E-value=3e-08  Score=66.10  Aligned_cols=153  Identities=9%  Similarity=-0.098  Sum_probs=124.6

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-C-CChHHHHHHhhhhC-----C-ChhHHHHHHHHHHcC
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-P-ISLHFTRSLFNNVM-----P-PLFAYNTLIRAYAKT   77 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~-~~~~~a~~~~~~m~-----~-~~~~~~~li~~~~~~   77 (162)
                      +..++...|+.++|.+.++...+.. +.+...+..+...+. . |++++|...|+...     | +...|..+...+...
T Consensus        48 l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  126 (225)
T 2vq2_A           48 RAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQ  126 (225)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHc
Confidence            4455566688999999998887764 335677888888888 9 99999999999874     2 257788899999999


Q ss_pred             CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917           78 SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus        78 ~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      |++++|...|++..+.. +.+...+..+...+.+.|++++|...+....+.....+...+..+...+...|+.+.|...+
T Consensus       127 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  205 (225)
T 2vq2_A          127 GQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYE  205 (225)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            99999999999987653 23466778888999999999999999999887653256777888888999999999999887


Q ss_pred             ccc
Q 045917          158 DEM  160 (162)
Q Consensus       158 ~~m  160 (162)
                      +.+
T Consensus       206 ~~~  208 (225)
T 2vq2_A          206 AQL  208 (225)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            754

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.98  E-value=1.9e-08  Score=67.85  Aligned_cols=149  Identities=12%  Similarity=0.021  Sum_probs=124.1

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcC---
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKT---   77 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~---   77 (162)
                      +...+...|+.++|...++...+.. +.++..+..+-..+. .|++++|...|+...   | +...|..+-..+...   
T Consensus        11 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~   89 (217)
T 2pl2_A           11 LGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEAYVALYRQ   89 (217)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhhh
Confidence            3445666789999999998887653 335666777777778 999999999999876   4 567888888889899   


Q ss_pred             --------CCchHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcC
Q 045917           78 --------SCSIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACK  148 (162)
Q Consensus        78 --------~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g  148 (162)
                              |++++|...|++..+.  .|+ ...+..+-..+...|++++|...++...+..  .+...+..+-.+|...|
T Consensus        90 ~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g  165 (217)
T 2pl2_A           90 AEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMG  165 (217)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHT
T ss_pred             hhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcC
Confidence                    9999999999998764  344 4567778888999999999999999999887  68889999999999999


Q ss_pred             ChhHHHHhhcc
Q 045917          149 EIDFAKALFDE  159 (162)
Q Consensus       149 ~~~~a~~~~~~  159 (162)
                      ++++|...|++
T Consensus       166 ~~~~A~~~~~~  176 (217)
T 2pl2_A          166 RLDEALAQYAK  176 (217)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            99999999875

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=98.98  E-value=2.1e-08  Score=72.01  Aligned_cols=151  Identities=11%  Similarity=-0.042  Sum_probs=100.4

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~   81 (162)
                      ...+...|+.++|...+..+.+.. +.++..+..+-..+. .|++++|...|+...    .+..+|..+...|...|+++
T Consensus        71 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~  149 (368)
T 1fch_A           71 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQR  149 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHH
Confidence            344556678888888888887653 345667777878888 999999999998876    46778888888888999999


Q ss_pred             HHHHHHHHHHHcCCC-----------------------------------------------C---CCccHHHHHHHhhh
Q 045917           82 ESIKLFDEMLKTGLR-----------------------------------------------P---DNLTYPFVVKASDQ  111 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~-----------------------------------------------p---~~~t~~~li~~~~~  111 (162)
                      +|...|+++.+..-.                                               |   +..++..+...+.+
T Consensus       150 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~  229 (368)
T 1fch_A          150 QACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNL  229 (368)
T ss_dssp             HHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHH
Confidence            999888887654211                                               1   23344445555555


Q ss_pred             hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          112 CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .|++++|...+....+.. +.+...+..+..+|.+.|++++|.+.|++
T Consensus       230 ~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  276 (368)
T 1fch_A          230 SGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRR  276 (368)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            555555555555555442 22345555555556666666666555544

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=98.97  E-value=2.8e-08  Score=70.04  Aligned_cols=143  Identities=9%  Similarity=-0.104  Sum_probs=81.9

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDE   89 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~   89 (162)
                      +.++|.+.++...+.. +.++..+..+-..+. .|++++|...|+...   | +...+..+-..|...|++++|...+++
T Consensus       106 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  184 (330)
T 3hym_B          106 KNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQ  184 (330)
T ss_dssp             CHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4555555555554332 223444555555555 666666666666554   2 244555566666666666666666666


Q ss_pred             HHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhc--------CcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           90 MLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL--------HSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        90 m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~--------~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+.. +.+...+..+...+...|++++|...+....+...        +.+..++..+-.+|.+.|++++|.+.|++
T Consensus       185 al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  261 (330)
T 3hym_B          185 ALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQ  261 (330)
T ss_dssp             HHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            65432 22345556666666667777777777666655321        22345666677777777777777766654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.95  E-value=2.2e-08  Score=74.79  Aligned_cols=150  Identities=9%  Similarity=-0.076  Sum_probs=126.6

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~   81 (162)
                      ...+...|+.++|...+....+....  +..+..+...+. .|++++|...|+...    .+...|..+...+...|+++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHH
Confidence            33445567899999999998877644  778888888888 999999999999875    46778999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +|...|++..+.. +.+...+..+...+...|++++|...+..+.+.. +.+...+..+...|.+.|++++|.+.|++.
T Consensus       322 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  398 (514)
T 2gw1_A          322 QAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLA  398 (514)
T ss_dssp             HHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999997753 2356678889999999999999999999988763 346788999999999999999999998764

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.91  E-value=1.1e-07  Score=71.58  Aligned_cols=148  Identities=8%  Similarity=-0.096  Sum_probs=124.9

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a   83 (162)
                      .+...|+.++|...+....+..  |+...+..+-..+. .|++++|...|+...    .+..+|..+-..+...|++++|
T Consensus       252 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  329 (537)
T 3fp2_A          252 FHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNA  329 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHH
Confidence            3344467889999998887764  44777888888888 999999999999886    4578899999999999999999


Q ss_pred             HHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           84 IKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        84 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ...|++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+-..|...|++++|.+.|++.
T Consensus       330 ~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          330 KEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            99999987753 2346678889999999999999999999998864 345778999999999999999999998763

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=98.91  E-value=7.1e-08  Score=67.87  Aligned_cols=148  Identities=8%  Similarity=-0.060  Sum_probs=95.3

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~   82 (162)
                      ..+...|++++|..+++.+.+.. +.++..+..+-..+. .|++++|...|+...    .+...|..+...+...|++++
T Consensus        29 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~  107 (327)
T 3cv0_A           29 LSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANA  107 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHH
Confidence            34556678888999888887654 335667777777788 999999999998876    357788888888888999999


Q ss_pred             HHHHHHHHHHcCCCCCCc-cHHHH--------------HH-HhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           83 SIKLFDEMLKTGLRPDNL-TYPFV--------------VK-ASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~-t~~~l--------------i~-~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      |...+++..+..  |+.. .+..+              .. .+...|++++|...+..+.+.. +.+...+..+...|.+
T Consensus       108 A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  184 (327)
T 3cv0_A          108 ALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNL  184 (327)
T ss_dssp             HHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHH
Confidence            999988876542  2211 12111              11 2445555666666555555442 2244555555555555


Q ss_pred             cCChhHHHHhhcc
Q 045917          147 CKEIDFAKALFDE  159 (162)
Q Consensus       147 ~g~~~~a~~~~~~  159 (162)
                      .|++++|.+.|++
T Consensus       185 ~~~~~~A~~~~~~  197 (327)
T 3cv0_A          185 SNNYDSAAANLRR  197 (327)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             hccHHHHHHHHHH
Confidence            6666655555543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.89  E-value=8.7e-08  Score=71.56  Aligned_cols=151  Identities=10%  Similarity=-0.027  Sum_probs=103.2

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~   81 (162)
                      ..++...|+.++|...+....+.. +.++..+..+-..+. .|++++|...|+...    .+...|..+-..+...|+++
T Consensus       311 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  389 (514)
T 2gw1_A          311 GQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFD  389 (514)
T ss_dssp             HHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHH
Confidence            344455567777777777766543 224556667777777 788888888777765    34667777777788888888


Q ss_pred             HHHHHHHHHHHcCC-CCC----CccHHHHHHHhhh---hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHH
Q 045917           82 ESIKLFDEMLKTGL-RPD----NLTYPFVVKASDQ---CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        82 ~a~~~~~~m~~~~~-~p~----~~t~~~li~~~~~---~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a  153 (162)
                      +|...|++..+..- .++    ...+..+...+..   .|++++|...+....+.. +.+...+..+..+|.+.|++++|
T Consensus       390 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A  468 (514)
T 2gw1_A          390 KALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEA  468 (514)
T ss_dssp             HHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHH
Confidence            88888877754311 111    2267777777777   788888888887777653 23466777778888888888888


Q ss_pred             HHhhcc
Q 045917          154 KALFDE  159 (162)
Q Consensus       154 ~~~~~~  159 (162)
                      .+.|++
T Consensus       469 ~~~~~~  474 (514)
T 2gw1_A          469 ITLFEE  474 (514)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877764

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

Probab=98.88  E-value=9e-08  Score=65.08  Aligned_cols=152  Identities=11%  Similarity=-0.072  Sum_probs=121.8

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcC--CCc----hhHHHHHHHhhC-CCChHHHHHHhhhhC---C-------------
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSL--DHN----TYIISRFILTSL-PISLHFTRSLFNNVM---P-------------   62 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-------------   62 (162)
                      +...+...|+.++|...+........  .++    +..+..+-..|. .|++++|...|+...   |             
T Consensus        44 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  123 (258)
T 3uq3_A           44 RAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEK  123 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHH
Confidence            44556666888999998888765432  222    567788888888 999999999988764   2             


Q ss_pred             --------------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           63 --------------PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        63 --------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                                    +...|..+-..+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+....+.
T Consensus       124 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  202 (258)
T 3uq3_A          124 ELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK  202 (258)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence                          24567778888999999999999999987653 235677888899999999999999999999886


Q ss_pred             hcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          129 GLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       129 ~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      . +.+...|..+-.+|.+.|++++|.+.|++
T Consensus       203 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          203 D-PNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             C-HHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4 34578899999999999999999998875

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.84  E-value=9.5e-08  Score=65.74  Aligned_cols=142  Identities=9%  Similarity=-0.098  Sum_probs=93.2

Q ss_pred             hchhhhcchhHHHHHhcCC---CchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLD---HNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~---~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      ++.++|...++.+.+....   .++..+..+-..+. .|++++|...|+...    .+...|..+-..|...|++++|.+
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~   98 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYE   98 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHH
Confidence            5667777777777654321   13455666666666 788888887777765    346777777777777788888888


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      .|++..+.. +.+...+..+...+.+.|++++|...+..+.+..  |+.......+..+...|++++|...++
T Consensus        99 ~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           99 AFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            877776542 2245566777777777777877777777776643  443444444455556677777776664

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.82  E-value=5.1e-08  Score=68.13  Aligned_cols=155  Identities=12%  Similarity=0.014  Sum_probs=119.5

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHh-------cCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC------------CChh
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKT-------SLDHNTYIISRFILTSL-PISLHFTRSLFNNVM------------PPLF   65 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------------~~~~   65 (162)
                      +...+...|+.++|...+....+.       ..+.....+..+-..|. .|++++|...|+...            ....
T Consensus        33 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  112 (311)
T 3nf1_A           33 LVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAA  112 (311)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHH
Confidence            445556668899999888887653       23334566777778888 999999999988764            2356


Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHc------CCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHH------hcCc
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKT------GLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKV------GLHS  132 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~------~~~~  132 (162)
                      .+..+-..|...|++++|...|++..+.      +-.| ....+..+...+...|++++|...+....+.      +..|
T Consensus       113 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  192 (311)
T 3nf1_A          113 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDP  192 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCH
Confidence            7888889999999999999999998654      2222 3445777888899999999999999888765      2123


Q ss_pred             -chhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          133 -DKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       133 -~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                       ...++..+-.+|.+.|++++|.+.|++.
T Consensus       193 ~~~~~~~~la~~~~~~g~~~~A~~~~~~a  221 (311)
T 3nf1_A          193 NVAKTKNNLASCYLKQGKFKQAETLYKEI  221 (311)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence             3567888999999999999999998764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.82  E-value=1.2e-07  Score=67.16  Aligned_cols=141  Identities=10%  Similarity=0.030  Sum_probs=83.8

Q ss_pred             hhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hh-HHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           17 HHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LF-AYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        17 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~-~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      ++|..+++.....-.+-+...|..+...+. .|++++|..+|+...   |+ .. .|..+...+.+.|++++|..+|++.
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  160 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            566666666655312234456777777777 788888888887765   43 32 6777777777777777777777777


Q ss_pred             HHcCCCCCCccHHHHHHHhh-hhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           91 LKTGLRPDNLTYPFVVKASD-QCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        91 ~~~~~~p~~~t~~~li~~~~-~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+..- ++...|........ ..|+.++|..+++...+.. +-+...|..+...+.+.|++++|..+|++
T Consensus       161 ~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~  228 (308)
T 2ond_A          161 REDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFER  228 (308)
T ss_dssp             HTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            65321 22222222211111 1466666666666665542 23456666666666666666666666654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.80  E-value=2e-07  Score=73.61  Aligned_cols=151  Identities=7%  Similarity=-0.046  Sum_probs=127.2

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSC   79 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~   79 (162)
                      -+-.++...|++++|.+.|+...+.. +-+...++.+=..|. .|++++|...|++..   | +...|+.+=..|...|+
T Consensus        14 nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l~~~g~   92 (723)
T 4gyw_A           14 NLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD   92 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            34566777899999999999987764 234677888888888 999999999999876   4 57889999999999999


Q ss_pred             chHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           80 SIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +++|.+.|++..+.  .|+ ...++.+-..+.+.|++++|...++...+.. +-+...+..+..+|...|++++|.+.++
T Consensus        93 ~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~~~~~  169 (723)
T 4gyw_A           93 VQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYDERMK  169 (723)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHHHHHH
Confidence            99999999998763  343 5678889999999999999999999988864 2357889999999999999999998876


Q ss_pred             c
Q 045917          159 E  159 (162)
Q Consensus       159 ~  159 (162)
                      +
T Consensus       170 k  170 (723)
T 4gyw_A          170 K  170 (723)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.80  E-value=4e-08  Score=67.58  Aligned_cols=155  Identities=10%  Similarity=-0.055  Sum_probs=117.5

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHh------cCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC--------C----Chh
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKT------SLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM--------P----PLF   65 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--------~----~~~   65 (162)
                      +..++...|+.++|...+......      +-.| ...++..+-..|. .|++++|...|+...        +    ...
T Consensus        49 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  128 (283)
T 3edt_B           49 LALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAK  128 (283)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            444555567889999888887654      2223 4566777888888 999999999988764        1    256


Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHc------CCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHh---------
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKT------GLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG---------  129 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~---------  129 (162)
                      +|..+-..|...|++++|...|++..+.      +-.| ...++..+...+...|++++|...+....+..         
T Consensus       129 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~  208 (283)
T 3edt_B          129 QLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVN  208 (283)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcc
Confidence            6888888999999999999999998654      1122 34567778899999999999999998876541         


Q ss_pred             ---------------------------------------cCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          130 ---------------------------------------LHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       130 ---------------------------------------~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                                                             .+.....+..+-..|.+.|++++|.+.|++.
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  278 (283)
T 3edt_B          209 GDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCA  278 (283)
T ss_dssp             SSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                                                   1223456788899999999999999998763

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.80  E-value=1.2e-07  Score=67.17  Aligned_cols=153  Identities=10%  Similarity=0.005  Sum_probs=118.1

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCc-hh-HHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHH-HHc
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHN-TY-IISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRA-YAK   76 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~-~~~   76 (162)
                      .+..++...|+.++|..+|+...+.  .|+ +. .|..+...+. .|++++|..+|+...   | +...|...... +..
T Consensus       104 ~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~  181 (308)
T 2ond_A          104 AYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYC  181 (308)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence            4555666778899999999998873  443 33 7888888888 999999999999876   3 33444433322 223


Q ss_pred             CCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh-cCc--chhHHHHHHHHHHhcCChhHH
Q 045917           77 TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG-LHS--DKYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~-~~~--~~~~~~~ll~~y~~~g~~~~a  153 (162)
                      .|+.++|..+|++..+.. +-+...|..++..+.+.|+.++|..+++...+.. ..|  ....|..++..+.+.|+.+.|
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            699999999999986642 2355677888899999999999999999998863 344  367899999999999999999


Q ss_pred             HHhhccc
Q 045917          154 KALFDEM  160 (162)
Q Consensus       154 ~~~~~~m  160 (162)
                      ..++++.
T Consensus       261 ~~~~~~a  267 (308)
T 2ond_A          261 LKVEKRR  267 (308)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.79  E-value=5.3e-08  Score=68.05  Aligned_cols=154  Identities=9%  Similarity=-0.055  Sum_probs=117.2

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHh------cCC-CchhHHHHHHHhhC-CCChHHHHHHhhhhC------------CChh
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKT------SLD-HNTYIISRFILTSL-PISLHFTRSLFNNVM------------PPLF   65 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~------~~~-~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------------~~~~   65 (162)
                      +..++...|+.++|...+......      +-. .....+..+-..|. .|++++|...|++..            ....
T Consensus        75 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  154 (311)
T 3nf1_A           75 LALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAK  154 (311)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            444555667888998888877654      222 34566777888888 999999999998764            1345


Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHc------CCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHh---------
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKT------GLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG---------  129 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~---------  129 (162)
                      .+..+-..+...|++++|.+.|++..+.      +-.| ...++..+...+...|++++|...+....+..         
T Consensus       155 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  234 (311)
T 3nf1_A          155 QLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVD  234 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            6788888999999999999999998654      1122 23457778889999999999999998877531         


Q ss_pred             ---------------------------------------cCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          130 ---------------------------------------LHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       130 ---------------------------------------~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                                                             .+.+..++..+-.+|.+.|++++|.+.|++
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  303 (311)
T 3nf1_A          235 DENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEA  303 (311)
T ss_dssp             ---CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                                                   123456788899999999999999999875

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=98.78  E-value=2.1e-07  Score=59.90  Aligned_cols=123  Identities=11%  Similarity=-0.060  Sum_probs=103.1

Q ss_pred             hHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhh
Q 045917           36 YIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASD  110 (162)
Q Consensus        36 ~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  110 (162)
                      ..+..+-..+. .|++++|...|+...    .+...+..+...+...|++++|...+++..+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34555666677 999999999999987    467788899999999999999999999987652 235567788888999


Q ss_pred             hhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          111 QCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       111 ~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ..|++++|...+....+.. +.+...+..+...|.+.|++++|.+.|++.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~  136 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIA  136 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence            9999999999999988764 356788889999999999999999998763

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.78  E-value=3.7e-07  Score=62.75  Aligned_cols=151  Identities=13%  Similarity=-0.005  Sum_probs=111.3

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~   81 (162)
                      ...+...|+.++|...+....+.. +.++..+..+-..|. .|++++|...|+...   | +...|..+-..|...|+++
T Consensus        50 ~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~  128 (275)
T 1xnf_A           50 GVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDK  128 (275)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHH
Confidence            344455578888999888887764 335677888888888 999999999999886   4 5788888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh-----------------------------c--
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG-----------------------------L--  130 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~-----------------------------~--  130 (162)
                      +|...|++..+.  .|+.......+..+...|+.++|...+.......                             +  
T Consensus       129 ~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  206 (275)
T 1xnf_A          129 LAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATD  206 (275)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcc
Confidence            999999998763  4555555555555666778888877775544321                             0  


Q ss_pred             Cc-----chhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          131 HS-----DKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       131 ~~-----~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .|     +...+..+-.+|.+.|++++|...|++.
T Consensus       207 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  241 (275)
T 1xnf_A          207 NTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLA  241 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccccccccHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            01     1466677778888888888888887653

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.78  E-value=2.3e-07  Score=65.93  Aligned_cols=80  Identities=11%  Similarity=-0.149  Sum_probs=36.9

Q ss_pred             HHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      ...|+.++|...+....+.. +.++..+..+-..+. .|++++|...|+...   | +...|..+-..+...|++++|..
T Consensus        14 ~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~   92 (359)
T 3ieg_A           14 LAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAED   92 (359)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHH
Confidence            33445555555555544432 122334444444444 555555555555443   2 33444444444445555555555


Q ss_pred             HHHHHH
Q 045917           86 LFDEML   91 (162)
Q Consensus        86 ~~~~m~   91 (162)
                      .|++..
T Consensus        93 ~~~~~~   98 (359)
T 3ieg_A           93 DFKKVL   98 (359)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>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=98.77  E-value=2.8e-07  Score=56.07  Aligned_cols=122  Identities=8%  Similarity=-0.063  Sum_probs=100.4

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSC   79 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~   79 (162)
                      .+...+...|+.++|..++..+.+.. +.++..+..+...+. .|++++|...|+...    .+...|..+...+...|+
T Consensus         6 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   84 (136)
T 2fo7_A            6 NLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGD   84 (136)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhcC
Confidence            34556667789999999999887764 335667777888888 999999999999886    457788889999999999


Q ss_pred             chHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           80 SIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      +++|...++++.+.. +.+...+..+...+.+.|+.++|...+..+.+.
T Consensus        85 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           85 YDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            999999999987653 234567788889999999999999999888765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.76  E-value=2.2e-07  Score=66.01  Aligned_cols=152  Identities=11%  Similarity=-0.082  Sum_probs=122.5

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C---C-hhHHHHH-------
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P---P-LFAYNTL-------   70 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~---~-~~~~~~l-------   70 (162)
                      +...+...|+.++|...++...+.. +.++..+..+-..+. .|++++|...|+...   |   + ...+..+       
T Consensus        43 ~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  121 (359)
T 3ieg_A           43 RATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQ  121 (359)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHH
Confidence            3445556688999999999887764 335577888888888 999999999999886   6   3 3344444       


Q ss_pred             -----HHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           71 -----IRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        71 -----i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                           ...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+...|.
T Consensus       122 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  199 (359)
T 3ieg_A          122 RLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYY  199 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence                 478888999999999999987653 2456677888899999999999999999988764 456888999999999


Q ss_pred             hcCChhHHHHhhccc
Q 045917          146 ACKEIDFAKALFDEM  160 (162)
Q Consensus       146 ~~g~~~~a~~~~~~m  160 (162)
                      ..|++++|.+.|++.
T Consensus       200 ~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          200 QLGDHELSLSEVREC  214 (359)
T ss_dssp             HHTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHH
Confidence            999999999998753

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.71  E-value=1.7e-07  Score=70.51  Aligned_cols=145  Identities=9%  Similarity=-0.046  Sum_probs=98.0

Q ss_pred             hhch-hhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcC---------C
Q 045917           13 SKTA-HHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKT---------S   78 (162)
Q Consensus        13 ~~~~-~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~---------~   78 (162)
                      .|+. ++|.+.++...+.. +-++..|..+-..|. .|++++|...|+...   |+...|..+-..|...         |
T Consensus       115 ~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g  193 (474)
T 4abn_A          115 TPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSR  193 (474)
T ss_dssp             SSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHH
T ss_pred             ccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhccCChhhhhh
Confidence            3566 77777777666543 223556666666777 777777777777765   6666777777777777         7


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh--------ccchhhhHHHHHHHHHhcC--cchhHHHHHHHHHHhcC
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC--------LLIGVGGSVHSLIFKVGLH--SDKYIGNTLLRMYAACK  148 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~--------~~~~~a~~i~~~~~~~~~~--~~~~~~~~ll~~y~~~g  148 (162)
                      ++++|...|++..+.. +-+...|..+-..+...        |++++|...++...+....  -+...|..+-.+|...|
T Consensus       194 ~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g  272 (474)
T 4abn_A          194 HVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEE  272 (474)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcC
Confidence            7777777777766542 12345566666777666        7777777777777665310  25667777777777888


Q ss_pred             ChhHHHHhhcc
Q 045917          149 EIDFAKALFDE  159 (162)
Q Consensus       149 ~~~~a~~~~~~  159 (162)
                      ++++|.+.|++
T Consensus       273 ~~~~A~~~~~~  283 (474)
T 4abn_A          273 SYGEALEGFSQ  283 (474)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            88887777754

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=98.71  E-value=8.5e-07  Score=66.67  Aligned_cols=152  Identities=9%  Similarity=-0.050  Sum_probs=108.0

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCc
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~   80 (162)
                      +..++...|+.++|...++...+.. +.++..+..+-..+. .|++++|...|+...    .+...|..+-..+...|++
T Consensus       316 l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  394 (537)
T 3fp2_A          316 RGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDF  394 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCH
Confidence            3444555677888888887776654 234566777777777 888888888888775    3466788888888888888


Q ss_pred             hHHHHHHHHHHHcCCC-CC----CccHHHHHHHhhhh----------ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           81 IESIKLFDEMLKTGLR-PD----NLTYPFVVKASDQC----------LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~-p~----~~t~~~li~~~~~~----------~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      ++|...|++..+..-. ++    ...+......+...          |++++|...+....+.. +.+...+..+-.+|.
T Consensus       395 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~  473 (537)
T 3fp2_A          395 DTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKL  473 (537)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            8888888887553211 11    11122333455556          88888888888887764 345778889999999


Q ss_pred             hcCChhHHHHhhcc
Q 045917          146 ACKEIDFAKALFDE  159 (162)
Q Consensus       146 ~~g~~~~a~~~~~~  159 (162)
                      +.|++++|.+.|++
T Consensus       474 ~~g~~~~A~~~~~~  487 (537)
T 3fp2_A          474 QMEKIDEAIELFED  487 (537)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHH
Confidence            99999999998875

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.66  E-value=7.6e-07  Score=61.17  Aligned_cols=150  Identities=9%  Similarity=-0.013  Sum_probs=102.3

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--C-C----hhHHHHHHHHHHcCC
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--P-P----LFAYNTLIRAYAKTS   78 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~-~----~~~~~~li~~~~~~~   78 (162)
                      ...+...|++++|...+....+... .++..+..+-..|. .|++++|...|+...  | +    ...|..+-..+...|
T Consensus        10 a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A           10 ADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            3445556788888888888765532 23445666666777 888888888888765  2 2    233777778888888


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH-HHHHhcCChhHHHHhh
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL-RMYAACKEIDFAKALF  157 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll-~~y~~~g~~~~a~~~~  157 (162)
                      ++++|.+.|++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+- ..|. .+++++|.+.|
T Consensus        89 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~-~~~~~~A~~~~  165 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYY-NKEYVKADSSF  165 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHH-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence            8888888888876642 2244667777888888888888888887766542 23455566665 4444 45888888877


Q ss_pred             ccc
Q 045917          158 DEM  160 (162)
Q Consensus       158 ~~m  160 (162)
                      ++.
T Consensus       166 ~~a  168 (272)
T 3u4t_A          166 VKV  168 (272)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.65  E-value=2.1e-07  Score=69.92  Aligned_cols=153  Identities=7%  Similarity=-0.119  Sum_probs=126.5

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-C---------CChHHHHHHhhhhC----CChhHHHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-P---------ISLHFTRSLFNNVM----PPLFAYNTLI   71 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~---------~~~~~a~~~~~~m~----~~~~~~~~li   71 (162)
                      +..++...|+.++|.+.++...+..  |+...+..+-..|. .         |++++|...|++..    .+...|..+-
T Consensus       143 lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg  220 (474)
T 4abn_A          143 LGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILG  220 (474)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4455666689999999999887765  55678888888888 8         99999999999876    4578899999


Q ss_pred             HHHHcC--------CCchHHHHHHHHHHHcCCC--CCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH
Q 045917           72 RAYAKT--------SCSIESIKLFDEMLKTGLR--PDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL  141 (162)
Q Consensus        72 ~~~~~~--------~~~~~a~~~~~~m~~~~~~--p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll  141 (162)
                      ..|...        |++++|...|++..+..-.  -+...|..+-..+...|++++|...++...+.. +-+...+..+-
T Consensus       221 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~  299 (474)
T 4abn_A          221 NAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQ  299 (474)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            999888        9999999999998774211  366778889999999999999999999988764 23567788999


Q ss_pred             HHHHhcCChhHHHHhhcccC
Q 045917          142 RMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~m~  161 (162)
                      .++...|++++|.+.+.+++
T Consensus       300 ~~~~~lg~~~eAi~~~~~~~  319 (474)
T 4abn_A          300 QLLEFLSRLTSLLESKGKTK  319 (474)
T ss_dssp             HHHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHHHHHHHHhcccc
Confidence            99999999999998877653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.63  E-value=8.4e-08  Score=65.95  Aligned_cols=147  Identities=12%  Similarity=0.009  Sum_probs=111.2

Q ss_pred             hchhhhcchhHHHHHh-------cCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC------------CChhHHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKT-------SLDHNTYIISRFILTSL-PISLHFTRSLFNNVM------------PPLFAYNTLIRA   73 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~-------~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------------~~~~~~~~li~~   73 (162)
                      |+.++|...++.....       ..+....++..+-..|. .|++++|...|++..            ....+|..+-..
T Consensus        15 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~   94 (283)
T 3edt_B           15 VPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVL   94 (283)
T ss_dssp             SCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHH
Confidence            4666676666555432       22234566777777888 999999999988764            235678889999


Q ss_pred             HHcCCCchHHHHHHHHHHHc------CC-CCCCccHHHHHHHhhhhccchhhhHHHHHHHHH------hcCc-chhHHHH
Q 045917           74 YAKTSCSIESIKLFDEMLKT------GL-RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV------GLHS-DKYIGNT  139 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~------~~-~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~------~~~~-~~~~~~~  139 (162)
                      |...|++++|.+.|++..+.      .- +....++..+...+...|++++|...+....+.      +-.| ...++..
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  174 (283)
T 3edt_B           95 YGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNN  174 (283)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            99999999999999997654      11 223556777888999999999999999888765      1123 3567888


Q ss_pred             HHHHHHhcCChhHHHHhhccc
Q 045917          140 LLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       140 ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +-.+|.+.|++++|.+.|++.
T Consensus       175 la~~~~~~g~~~~A~~~~~~~  195 (283)
T 3edt_B          175 LASCYLKQGKYQDAETLYKEI  195 (283)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            999999999999999998763

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.60  E-value=1.3e-06  Score=56.78  Aligned_cols=126  Identities=11%  Similarity=0.005  Sum_probs=103.7

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHH
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVK  107 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  107 (162)
                      -++.+|..+=..|. .|++++|...|+...   | +..+|..+-..|.+.|++++|...+........ -+...+..+-.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~   81 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGS   81 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            35677888888888 999999999999876   4 577899999999999999999999999866432 23445566667


Q ss_pred             HhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+...++++.+...+....+.. +.+...+..+-.+|.+.|++++|.+.|++.
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~  133 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKT  133 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHH
Confidence            7888899999999998887764 345778889999999999999999998763

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.57  E-value=1e-06  Score=66.79  Aligned_cols=139  Identities=10%  Similarity=0.038  Sum_probs=95.2

Q ss_pred             hhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC--hhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           18 HHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP--LFAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        18 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      +|..+++...+.-.+-+...|..+...+. .|++++|..+|+...   |+  ...|......+.+.|++++|..+|++..
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al  383 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAR  383 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            67777776654323345677777887777 889999998888876   43  2478888888888888888888888876


Q ss_pred             HcCCCCC-CccHHHHHHH-hhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           92 KTGLRPD-NLTYPFVVKA-SDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        92 ~~~~~p~-~~t~~~li~~-~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +.  .|+ ...|...... +...|+.++|..+++...+.. +-+...|..++..+.+.|+.++|..+|++
T Consensus       384 ~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~  450 (530)
T 2ooe_A          384 ED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFER  450 (530)
T ss_dssp             TC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             hc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHH
Confidence            54  232 2222111111 124677888888888776653 23567788888888888888888888765

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.56  E-value=1e-06  Score=59.31  Aligned_cols=138  Identities=14%  Similarity=-0.016  Sum_probs=108.9

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a   83 (162)
                      .+-..|+.++|...+....+...++++..+..+-..+. .|++++|...|+...   | +...|..+-..|...|++++|
T Consensus        16 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A   95 (228)
T 4i17_A           16 DALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNNQEY   95 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccHHHH
Confidence            44556789999999999988776567766666777777 999999999999886   4 467788899999999999999


Q ss_pred             HHHHHHHHHcCCCCCC--------ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc---hhHHHHHHHHHHhcCCh
Q 045917           84 IKLFDEMLKTGLRPDN--------LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD---KYIGNTLLRMYAACKEI  150 (162)
Q Consensus        84 ~~~~~~m~~~~~~p~~--------~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~---~~~~~~ll~~y~~~g~~  150 (162)
                      ...|++..+.  .|+.        ..|..+-..+...|++++|...+....+.  .|+   ...+..+-.+|...|+.
T Consensus        96 ~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~  169 (228)
T 4i17_A           96 IATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHH
Confidence            9999998763  3443        34566667777889999999999888765  344   56777788888887777

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.55  E-value=2.5e-06  Score=56.57  Aligned_cols=119  Identities=12%  Similarity=-0.095  Sum_probs=94.6

Q ss_pred             HHHhhC-CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhh
Q 045917           41 FILTSL-PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVG  118 (162)
Q Consensus        41 ll~~~~-~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a  118 (162)
                      +-..+. .|++++|...|+... |+...|..+-..|.+.|++++|...|++..+.. +.+...+..+-..+...|++++|
T Consensus        12 ~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A   90 (213)
T 1hh8_A           12 EGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLA   90 (213)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHHHH
Confidence            334455 899999999999887 888889999999999999999999999877643 23456677788888899999999


Q ss_pred             hHHHHHHHHHhcC--------------c-chhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          119 GSVHSLIFKVGLH--------------S-DKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       119 ~~i~~~~~~~~~~--------------~-~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ...+....+....              | ....+..+-.+|.+.|++++|.+.|++.
T Consensus        91 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  147 (213)
T 1hh8_A           91 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALA  147 (213)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9998888774311              1 2367888889999999999999988753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.55  E-value=4e-06  Score=58.87  Aligned_cols=150  Identities=9%  Similarity=-0.059  Sum_probs=114.3

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHH-HHHcCCCchH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIR-AYAKTSCSIE   82 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~-~~~~~~~~~~   82 (162)
                      ..+...|+.++|...++....... -++..+..+-..+. .|++++|...++...   |+......... .+...++.++
T Consensus       125 ~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~~~~~~  203 (287)
T 3qou_A          125 MQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQAADTP  203 (287)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhhcccCc
Confidence            344566889999999988876642 34566777777888 999999999999987   66443333332 3566788888


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcC-cchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH-SDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~-~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      |...+++..+.. +.+...+..+-..+...|++++|...+..+.+.... .+...+..+...|...|+.++|...|++
T Consensus       204 a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~  280 (287)
T 3qou_A          204 EIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRR  280 (287)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            999988876642 234566788889999999999999999999886432 2367899999999999999999887754

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.53  E-value=1.3e-05  Score=54.93  Aligned_cols=151  Identities=9%  Similarity=0.051  Sum_probs=100.1

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~   81 (162)
                      ..++...|+.++|...+....+.. +.++..+..+-..|. .|++++|...|+...   | +...|..+-..+...++++
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHH
Confidence            344455567777777777776643 224456777777777 888888888887776   3 3455555552333445888


Q ss_pred             HHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhcc---chhhhHHHHHHHHHh-cCcc------hhHHHHHHHHHHhcCCh
Q 045917           82 ESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLL---IGVGGSVHSLIFKVG-LHSD------KYIGNTLLRMYAACKEI  150 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~---~~~a~~i~~~~~~~~-~~~~------~~~~~~ll~~y~~~g~~  150 (162)
                      +|...|++..+.  .|+ ...+..+...+...++   .++|...+....+.. -.|+      ...|..+-..|.+.|++
T Consensus       160 ~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          160 KADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            888888887653  233 3455556666666777   777888887776642 1233      25677788888999999


Q ss_pred             hHHHHhhccc
Q 045917          151 DFAKALFDEM  160 (162)
Q Consensus       151 ~~a~~~~~~m  160 (162)
                      ++|.+.|++.
T Consensus       238 ~~A~~~~~~a  247 (272)
T 3u4t_A          238 VKADAAWKNI  247 (272)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988753

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.53  E-value=1.4e-06  Score=66.72  Aligned_cols=143  Identities=9%  Similarity=-0.040  Sum_probs=103.7

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      |+.++|.+.++...+.. +.+...+..+-..+. .|++++|...|++..    .+...|..+-..|...|++++|.+.|+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            56778888887775542 234566777777888 999999999999876    457788889999999999999999999


Q ss_pred             HHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc---CChhHHHHhhcc
Q 045917           89 EMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC---KEIDFAKALFDE  159 (162)
Q Consensus        89 ~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~---g~~~~a~~~~~~  159 (162)
                      +..+.. +.+...+..+-..+.+.|++++|.+.++...+.. +.+...+..+..+|...   |+.++|.+.+++
T Consensus        82 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~  153 (568)
T 2vsy_A           82 QASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRA  153 (568)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHH
Confidence            987642 2245677888899999999999999999988764 23577888999999999   999999988865

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.52  E-value=9.2e-07  Score=62.89  Aligned_cols=116  Identities=13%  Similarity=0.067  Sum_probs=53.9

Q ss_pred             HHHHhhchhhhcchhHHHHHhcC-CCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-----ChhHHHHHHHHHHc--
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSL-DHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-----PLFAYNTLIRAYAK--   76 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-----~~~~~~~li~~~~~--   76 (162)
                      ++...|+.++|.+++......+- .-+...+..++..+. .|+.+.|.+.++.|.   |     +-.+..-+..++..  
T Consensus       109 i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~~d~~~~~d~~l~~Laea~v~l~  188 (310)
T 3mv2_B          109 AQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIEDTVSGDNEMILNLAESYIKFA  188 (310)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCccccccchHHHHHHHHHHHHHH
Confidence            33344555555555554433332 123344444555555 666666666665555   3     12333333333111  


Q ss_pred             --CCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           77 --TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        77 --~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                        .++..+|..+|+++.+.  .|+..+-..+++++.+.|++++|+++++.+.
T Consensus       189 ~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          189 TNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence              22566666666665332  2332223334445555566666666555443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.45  E-value=3e-06  Score=60.25  Aligned_cols=136  Identities=10%  Similarity=-0.050  Sum_probs=101.6

Q ss_pred             hcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C---ChhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           19 HHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P---PLFAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        19 a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      |...++.....+ .++..+...+-..+. .|++++|.+++....   |   +...+-..+..+.+.|+++.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566666555444 445555555566666 999999999999872   3   56778889999999999999999999997


Q ss_pred             HcCCCC-----CCccHHHHHHHhhh--hc--cchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           92 KTGLRP-----DNLTYPFVVKASDQ--CL--LIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        92 ~~~~~p-----~~~t~~~li~~~~~--~~--~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +.  .|     +..+...+.++...  .|  +..+|..+|+++...  .|+...-..|+.++...|++++|++.++.
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~  236 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVEL  236 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHH
Confidence            64  45     36666777766333  34  799999999998654  35534445566699999999999999864

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.45  E-value=2.7e-06  Score=67.21  Aligned_cols=123  Identities=10%  Similarity=0.054  Sum_probs=106.4

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVK  107 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~  107 (162)
                      ++..++.|=..|. .|++++|...|++..   | +..+|+.+=..|.+.|++++|+..|++..+.  .|+ ...|..+-.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            4567888888888 999999999999876   4 5788999999999999999999999998764  354 567888999


Q ss_pred             HhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+.+.|++++|.+.++...+.. +-+...|..+-.+|.+.|++++|.+.|++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~  136 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRT  136 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999999999999988764 23578899999999999999999999875

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.45  E-value=1.6e-05  Score=54.87  Aligned_cols=106  Identities=11%  Similarity=0.019  Sum_probs=55.5

Q ss_pred             CCChHHHHHHhhhhC--CChhHHHHHHHHHHc----CCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh----hccch
Q 045917           47 PISLHFTRSLFNNVM--PPLFAYNTLIRAYAK----TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ----CLLIG  116 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~--~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~~~~~  116 (162)
                      .+++++|...|+...  .+...+..+-..|..    .+++++|...|++..+.+   +...+..+-..+..    .++.+
T Consensus        55 ~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~  131 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFK  131 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHH
Confidence            455666666665554  344455555555555    566666666665555443   34444445455554    55555


Q ss_pred             hhhHHHHHHHHHhcCcchhHHHHHHHHHHh----cCChhHHHHhhc
Q 045917          117 VGGSVHSLIFKVGLHSDKYIGNTLLRMYAA----CKEIDFAKALFD  158 (162)
Q Consensus       117 ~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~----~g~~~~a~~~~~  158 (162)
                      +|...+....+.+   +...+..+-..|..    .+++++|...|+
T Consensus       132 ~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~  174 (273)
T 1ouv_A          132 KAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYD  174 (273)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            5555555555443   23344444445554    555555555544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.44  E-value=3.1e-06  Score=59.49  Aligned_cols=153  Identities=8%  Similarity=-0.158  Sum_probs=112.7

Q ss_pred             HHHHHhhchhhhcchhHHHHHh----cCCCc-hhHHHHHHHhhC-CCChHHHHHHhhhhC---C---C----hhHHHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKT----SLDHN-TYIISRFILTSL-PISLHFTRSLFNNVM---P---P----LFAYNTLI   71 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~---~----~~~~~~li   71 (162)
                      .++...|+.++|...+......    |-++. ..+|+.+-..|. .|++++|...|+...   +   +    ..+|+.+-
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445567778887777666443    22222 467888888888 999999999988765   2   2    45788888


Q ss_pred             HHHHcC-CCchHHHHHHHHHHHcCCCC-C----CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcch------hHHHH
Q 045917           72 RAYAKT-SCSIESIKLFDEMLKTGLRP-D----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK------YIGNT  139 (162)
Q Consensus        72 ~~~~~~-~~~~~a~~~~~~m~~~~~~p-~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~------~~~~~  139 (162)
                      ..|... |++++|+..|++..+..-.. +    ..++..+-..+.+.|++++|...++...+.......      ..|..
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  204 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHH
Confidence            889886 99999999999875531111 1    245777888999999999999999998875432221      15677


Q ss_pred             HHHHHHhcCChhHHHHhhccc
Q 045917          140 LLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       140 ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +-.+|...|++++|...|++-
T Consensus       205 lg~~~~~~g~~~~A~~~~~~a  225 (292)
T 1qqe_A          205 KGLCQLAATDAVAAARTLQEG  225 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGG
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            788899999999999998764

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.43  E-value=2.9e-06  Score=55.02  Aligned_cols=149  Identities=11%  Similarity=0.046  Sum_probs=108.3

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CChhHHHHHHHH--HHcCCCc
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PPLFAYNTLIRA--YAKTSCS   80 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~--~~~~~~~   80 (162)
                      ...+...|+.++|...++...+.. +-++..+..+-..+. .|++++|...|+...   |+.. +..+...  +...++.
T Consensus        13 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~-~~~~~~~~~~~~~~~~   90 (176)
T 2r5s_A           13 VSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNS-YKSLIAKLELHQQAAE   90 (176)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHH-HHHHHHHHHHHHHHTS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChH-HHHHHHHHHHHhhccc
Confidence            344556688899988888775543 234566777777888 999999999999987   6333 3322221  1222334


Q ss_pred             hHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCc-chhHHHHHHHHHHhcCChhHHHHhhc
Q 045917           81 IESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS-DKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~-~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      .+|...+++..+.  .|+ ...+..+-..+...|++++|...+..+.+....+ +...+..+...|...|+.++|...|+
T Consensus        91 ~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~  168 (176)
T 2r5s_A           91 SPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYR  168 (176)
T ss_dssp             CHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             chHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            4578888887653  354 5667888889999999999999999988764322 35688999999999999999998886


Q ss_pred             c
Q 045917          159 E  159 (162)
Q Consensus       159 ~  159 (162)
                      +
T Consensus       169 ~  169 (176)
T 2r5s_A          169 R  169 (176)
T ss_dssp             H
T ss_pred             H
Confidence            5

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

Probab=98.43  E-value=6.2e-06  Score=49.37  Aligned_cols=110  Identities=9%  Similarity=-0.059  Sum_probs=79.4

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHh
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  109 (162)
                      ...+..+-..+. .|++++|...|++..    .+...|..+...+...|++++|...|+++.+.. +.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            455666667777 888999988888875    356778888888888899999999888887642 23455677788888


Q ss_pred             hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917          110 DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus       110 ~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      ...|++++|...+..+.+.. +.+...+..+-..+..
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHh
Confidence            88888888888888877653 2234445554444443

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=98.43  E-value=1e-05  Score=59.29  Aligned_cols=146  Identities=8%  Similarity=-0.007  Sum_probs=118.1

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCC-hHHHHHHhhhhC----CChhHHHHHHHHHHcCCC
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PIS-LHFTRSLFNNVM----PPLFAYNTLIRAYAKTSC   79 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~-~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~   79 (162)
                      +..++...|+.++|...++...+.. +-+...|+.+-..+. .|+ +++|...|+...    .+...|+.+=..+.+.|+
T Consensus       103 lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~~g~  181 (382)
T 2h6f_A          103 FRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRD  181 (382)
T ss_dssp             HHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHccC
Confidence            3445566678999999999887654 235667777777888 886 999999999887    467889999999999999


Q ss_pred             chHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh-cCChhHHH
Q 045917           80 SIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA-CKEIDFAK  154 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~-~g~~~~a~  154 (162)
                      +++|+..|++..+.. +-+...|..+-..+.+.|++++|...++.+.+... -+...|+.+-.+|.+ .|..++|.
T Consensus       182 ~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          182 PSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             CTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchHHH
Confidence            999999999997742 22556788888889999999999999999988753 468889999999999 77767773

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.42  E-value=4.7e-06  Score=65.40  Aligned_cols=146  Identities=10%  Similarity=-0.110  Sum_probs=117.4

Q ss_pred             hhchhhhcchhHHHHH------hcC-CCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCc
Q 045917           13 SKTAHHHHQLPALFLK------TSL-DHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~------~~~-~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~   80 (162)
                      .|+.++|.+.++....      ... +.+...+..+-..+. .|++++|...|+...   | +...|..+=..|...|++
T Consensus       404 ~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~  483 (681)
T 2pzi_A          404 LSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDY  483 (681)
T ss_dssp             TCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCH
T ss_pred             ccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCH
Confidence            4677888888887761      122 335566777777788 999999999999887   4 577888888899999999


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ++|.+.|++..+.. +-+...+..+-..+.+.|++++ ...++...+.. +-+...|..+-.+|.+.|++++|.+.|++.
T Consensus       484 ~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  560 (681)
T 2pzi_A          484 DSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEV  560 (681)
T ss_dssp             HHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            99999999987642 1245667888899999999999 99999988764 345778999999999999999999999875


Q ss_pred             C
Q 045917          161 P  161 (162)
Q Consensus       161 ~  161 (162)
                      .
T Consensus       561 l  561 (681)
T 2pzi_A          561 P  561 (681)
T ss_dssp             C
T ss_pred             c
Confidence            3

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

Probab=98.41  E-value=3.8e-06  Score=50.36  Aligned_cols=95  Identities=14%  Similarity=0.014  Sum_probs=80.5

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRM  143 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~  143 (162)
                      ...|..+...+...|++++|.+.|++..+.. +.+..++..+...+.+.|++++|...+..+.+.. +.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4577888889999999999999999987653 2355677888899999999999999999988764 3467888999999


Q ss_pred             HHhcCChhHHHHhhccc
Q 045917          144 YAACKEIDFAKALFDEM  160 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~m  160 (162)
                      |...|++++|.+.|++.
T Consensus        87 ~~~~~~~~~A~~~~~~~  103 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKA  103 (125)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHH
Confidence            99999999999998764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.39  E-value=4.4e-06  Score=63.34  Aligned_cols=153  Identities=10%  Similarity=0.011  Sum_probs=115.3

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCc--hhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHH-HHHHc
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHN--TYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLI-RAYAK   76 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li-~~~~~   76 (162)
                      .+..+....|+.++|..+++...+.  .|+  ...|......+. .|+++.|..+|+...   |+ ...|-... ..+..
T Consensus       326 ~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~  403 (530)
T 2ooe_A          326 AYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYC  403 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            4556667778999999999998874  443  247888888888 899999999999886   32 22222211 12336


Q ss_pred             CCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhc-Ccc--hhHHHHHHHHHHhcCChhHH
Q 045917           77 TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-HSD--KYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-~~~--~~~~~~ll~~y~~~g~~~~a  153 (162)
                      .|+.++|..+|+...+.. +-+...|..+++...+.|+.+.|..+++.....+. .|+  ..+|...+....+.|+.+.+
T Consensus       404 ~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~  482 (530)
T 2ooe_A          404 SKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  482 (530)
T ss_dssp             TCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHH
T ss_pred             cCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            899999999999876542 23467788899999999999999999999887632 232  44788889988899999999


Q ss_pred             HHhhccc
Q 045917          154 KALFDEM  160 (162)
Q Consensus       154 ~~~~~~m  160 (162)
                      .+++.++
T Consensus       483 ~~~~~r~  489 (530)
T 2ooe_A          483 LKVEKRR  489 (530)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.37  E-value=2.2e-06  Score=56.23  Aligned_cols=146  Identities=9%  Similarity=-0.120  Sum_probs=103.1

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----------CChhHHHHHHHHHHcCCCch
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----------PPLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----------~~~~~~~~li~~~~~~~~~~   81 (162)
                      .|++++|++.++.+.. ........+..+-..+. .|++++|...+++..          .....+..+-..|...|+++
T Consensus         5 ~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            5 AHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             --CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4677788875544432 22234566777777777 999999999988764          23556777888889999999


Q ss_pred             HHHHHHHHHHHc-CCCC-C----CccHHHHHHHhhhhccchhhhHHHHHHHHHhc-Ccc----hhHHHHHHHHHHhcCCh
Q 045917           82 ESIKLFDEMLKT-GLRP-D----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-HSD----KYIGNTLLRMYAACKEI  150 (162)
Q Consensus        82 ~a~~~~~~m~~~-~~~p-~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-~~~----~~~~~~ll~~y~~~g~~  150 (162)
                      +|.+.+++..+. .-.+ +    ...+..+-..+...|++++|...+....+..- ..+    ..++..+-..|...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            999999986543 1112 1    23466677888889999999999888764321 111    23457788899999999


Q ss_pred             hHHHHhhcc
Q 045917          151 DFAKALFDE  159 (162)
Q Consensus       151 ~~a~~~~~~  159 (162)
                      ++|.+.+++
T Consensus       164 ~~A~~~~~~  172 (203)
T 3gw4_A          164 LEAQQHWLR  172 (203)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988765

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.37  E-value=2.8e-05  Score=53.60  Aligned_cols=138  Identities=10%  Similarity=-0.065  Sum_probs=80.8

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHh----hC-CCChHHHHHHhhhhC--CChhHHHHHHHHHHc----CCCch
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILT----SL-PISLHFTRSLFNNVM--PPLFAYNTLIRAYAK----TSCSI   81 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~----~~-~~~~~~a~~~~~~m~--~~~~~~~~li~~~~~----~~~~~   81 (162)
                      .++.++|...+....+.+   ++..+..+-..    .. .++.++|...|+...  .+...+..+-..|..    .++++
T Consensus        55 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~  131 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFK  131 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHH
Confidence            455666666666665554   23333222222    22 566777777776665  455566666666666    67777


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhh----hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh----cCChhHH
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQ----CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA----CKEIDFA  153 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~----~g~~~~a  153 (162)
                      +|...|++..+.+   +...+..+-..+..    .++.++|...++...+.+   +...+..+-..|..    .+++++|
T Consensus       132 ~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A  205 (273)
T 1ouv_A          132 KAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEA  205 (273)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHH
T ss_pred             HHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            7777777766554   33444555555555    566667766666665543   34555556666666    6677766


Q ss_pred             HHhhcc
Q 045917          154 KALFDE  159 (162)
Q Consensus       154 ~~~~~~  159 (162)
                      ...|++
T Consensus       206 ~~~~~~  211 (273)
T 1ouv_A          206 LARYSK  211 (273)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.36  E-value=1.4e-05  Score=53.70  Aligned_cols=125  Identities=8%  Similarity=-0.113  Sum_probs=99.9

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC-----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHH
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM-----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFV  105 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~l  105 (162)
                      .++..+..+=..+. .|++++|...|+...     ++...+..+-..+...|++++|...|++..+.  .| +...+..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHH
Confidence            35566666666777 999999999999875     35666777888899999999999999998764  34 45567788


Q ss_pred             HHHhhhhccchhhhHHHHHHHHHhcCcch-------hHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKVGLHSDK-------YIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~~~~~~~-------~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      -..+...|++++|...+....+... .+.       ..|..+=..|.+.|++++|.+.|++.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~a  143 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHA  143 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHH
Confidence            8899999999999999999887642 234       45777777888999999999998764

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.35  E-value=9.8e-06  Score=51.27  Aligned_cols=121  Identities=11%  Similarity=-0.032  Sum_probs=85.9

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      .+..+-..+. .|++++|...|+...    .+...|..+-..+...|++++|...+++..+.. +.+...+..+...+..
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            3445555666 888888888888765    357777888888888888999988888876642 2345567777778888


Q ss_pred             hccchhhhHHHHHHHHHhcCcchhHH--HHHHHHHHhcCChhHHHHhhcc
Q 045917          112 CLLIGVGGSVHSLIFKVGLHSDKYIG--NTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~~~~~~~~~~--~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .|++++|...+....+... .+...+  -.+...+.+.|++++|.+.+.+
T Consensus        94 ~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  142 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEH  142 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence            8888888888888776532 233444  3344447778888888877654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.31  E-value=2.5e-05  Score=53.59  Aligned_cols=150  Identities=11%  Similarity=0.022  Sum_probs=109.7

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCC--chhHHHHHHHhhC-CCChHHHHHHhhhhC---CC----hhHHHHHHHHHHc--
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDH--NTYIISRFILTSL-PISLHFTRSLFNNVM---PP----LFAYNTLIRAYAK--   76 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~----~~~~~~li~~~~~--   76 (162)
                      .+-..|+.++|...+..+.+.....  .+..+..+-..|. .|++++|...|+...   |+    ...+..+-.++..  
T Consensus        24 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~  103 (261)
T 3qky_A           24 EFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLS  103 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhc
Confidence            3445578999999999987764221  1455666666777 999999999999886   53    3345556666777  


Q ss_pred             ------CCCchHHHHHHHHHHHcCCCCCC-ccH-----------------HHHHHHhhhhccchhhhHHHHHHHHHhcC-
Q 045917           77 ------TSCSIESIKLFDEMLKTGLRPDN-LTY-----------------PFVVKASDQCLLIGVGGSVHSLIFKVGLH-  131 (162)
Q Consensus        77 ------~~~~~~a~~~~~~m~~~~~~p~~-~t~-----------------~~li~~~~~~~~~~~a~~i~~~~~~~~~~-  131 (162)
                            .|++++|...|++..+..  |+. ...                 ..+-..+.+.|++++|...++.+.+.... 
T Consensus       104 ~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~  181 (261)
T 3qky_A          104 PPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDT  181 (261)
T ss_dssp             CCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTS
T ss_pred             ccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCC
Confidence                  899999999999987642  433 333                 34467788899999999999998876321 


Q ss_pred             -cchhHHHHHHHHHHhc----------CChhHHHHhhccc
Q 045917          132 -SDKYIGNTLLRMYAAC----------KEIDFAKALFDEM  160 (162)
Q Consensus       132 -~~~~~~~~ll~~y~~~----------g~~~~a~~~~~~m  160 (162)
                       .....+..+-.+|.+.          |++++|...|++.
T Consensus       182 ~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~  221 (261)
T 3qky_A          182 PWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERL  221 (261)
T ss_dssp             TTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHH
Confidence             1345677777888866          8889999988753

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.31  E-value=1.6e-05  Score=47.93  Aligned_cols=115  Identities=6%  Similarity=-0.049  Sum_probs=90.7

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKA  108 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  108 (162)
                      +...+..+-..+. .|++++|...|+...    .+...|..+-..+...|++++|...+++..+.. +.+...+..+...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            3455666666777 999999999999876    467788888889999999999999999987642 2245567778888


Q ss_pred             hhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917          109 SDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus       109 ~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      +...|++++|...+....+.. +.+...+..+-.++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            999999999999999888764 23567777888888887765

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.31  E-value=1.8e-05  Score=48.01  Aligned_cols=114  Identities=11%  Similarity=-0.047  Sum_probs=86.6

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHH
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVK  107 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  107 (162)
                      .++..+..+-..+. .|++++|...|+...    .+...|..+-..+...|++++|...+++..+.. +.+...+..+..
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            34556667777777 999999999998875    367788888888889999999999999887642 224566777888


Q ss_pred             HhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcC
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACK  148 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g  148 (162)
                      .+.+.|++++|...+....+.. +.+...+..+-.+|.+.|
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            8889999999999998887753 234566666766776655

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.28  E-value=6.5e-05  Score=50.55  Aligned_cols=151  Identities=5%  Similarity=-0.101  Sum_probs=107.1

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCC-C-chhHHHHHHHhhC-CCChHHHHHHhhhhC---CChh----HHHHHHHHHH--
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLD-H-NTYIISRFILTSL-PISLHFTRSLFNNVM---PPLF----AYNTLIRAYA--   75 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~----~~~~li~~~~--   75 (162)
                      ..+-..|+.++|...++.+.+.... | .+..+..+-..|. .|++++|...|+...   |+..    .+-.+-..+.  
T Consensus        12 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~   91 (225)
T 2yhc_A           12 QQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMAL   91 (225)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhh
Confidence            3455568999999999999875432 2 2345666777788 999999999999986   5432    2222222222  


Q ss_pred             ----------------cCCCchHHHHHHHHHHHcCCCCCCccH------------------HHHHHHhhhhccchhhhHH
Q 045917           76 ----------------KTSCSIESIKLFDEMLKTGLRPDNLTY------------------PFVVKASDQCLLIGVGGSV  121 (162)
Q Consensus        76 ----------------~~~~~~~a~~~~~~m~~~~~~p~~~t~------------------~~li~~~~~~~~~~~a~~i  121 (162)
                                      ..|+.++|...|++..+.  .|+....                  -.+-..+.+.|++++|...
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~  169 (225)
T 2yhc_A           92 DDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNR  169 (225)
T ss_dssp             HC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             hhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence                            357899999999998763  3554322                  1334567788999999999


Q ss_pred             HHHHHHHhcC-c-chhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          122 HSLIFKVGLH-S-DKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       122 ~~~~~~~~~~-~-~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ++.+.+.-.. | ....+..+..+|.+.|+.++|.+.++.+
T Consensus       170 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l  210 (225)
T 2yhc_A          170 VEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKII  210 (225)
T ss_dssp             HHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            9998876321 1 1356888999999999999999998754

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.27  E-value=1.6e-05  Score=57.61  Aligned_cols=149  Identities=7%  Similarity=-0.083  Sum_probs=111.2

Q ss_pred             HHhhchhhhcchhHHHHHhc-CCC----chhHHHHHHHhhC-CCChHHHHHHhhhhC------CC-----hhHHHHHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTS-LDH----NTYIISRFILTSL-PISLHFTRSLFNNVM------PP-----LFAYNTLIRA   73 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~-~~~----~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~-----~~~~~~li~~   73 (162)
                      ...|+.++|...+....+.- -.+    ...++..+-..|. .|+++.|...++...      ++     ..+++.+=..
T Consensus       114 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  193 (383)
T 3ulq_A          114 LDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATN  193 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHH
Confidence            34478889999888876531 112    2355666777777 999999999888765      22     3467778888


Q ss_pred             HHcCCCchHHHHHHHHHHHcCCC-CC----CccHHHHHHHhhhhccchhhhHHHHHHHHH----hc-CcchhHHHHHHHH
Q 045917           74 YAKTSCSIESIKLFDEMLKTGLR-PD----NLTYPFVVKASDQCLLIGVGGSVHSLIFKV----GL-HSDKYIGNTLLRM  143 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~-p~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~----~~-~~~~~~~~~ll~~  143 (162)
                      |...|++++|.+.|++..+..-. ++    ..++..+-..+...|++++|...+....+.    +. +....++..+-..
T Consensus       194 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  273 (383)
T 3ulq_A          194 FLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQI  273 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Confidence            99999999999999987543111 11    136777888899999999999999887662    22 3346678889999


Q ss_pred             HHhcCChhHHHHhhcc
Q 045917          144 YAACKEIDFAKALFDE  159 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~  159 (162)
                      |.+.|++++|...+++
T Consensus       274 ~~~~g~~~~A~~~~~~  289 (383)
T 3ulq_A          274 HYKLGKIDKAHEYHSK  289 (383)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHH
Confidence            9999999999998865

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.25  E-value=4.4e-05  Score=50.43  Aligned_cols=117  Identities=12%  Similarity=-0.107  Sum_probs=95.2

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a   83 (162)
                      .+...|+.++|...+...    +.|++..+..+-..|. .|++++|...|+...    .+...|..+-..|...|++++|
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            344557888888887765    4668888888888999 999999999999876    4577888999999999999999


Q ss_pred             HHHHHHHHHcCCCCCC----------------ccHHHHHHHhhhhccchhhhHHHHHHHHHhc
Q 045917           84 IKLFDEMLKTGLRPDN----------------LTYPFVVKASDQCLLIGVGGSVHSLIFKVGL  130 (162)
Q Consensus        84 ~~~~~~m~~~~~~p~~----------------~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~  130 (162)
                      ...|++..+..- .+.                ..+..+-..+.+.|++++|...+....+...
T Consensus        91 ~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           91 IKDLKEALIQLR-GNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHHHHHHHHTTT-TCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHhCC-CccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            999999876421 122                5677788889999999999999999887643

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.22  E-value=1.2e-05  Score=56.29  Aligned_cols=151  Identities=8%  Similarity=-0.120  Sum_probs=104.7

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCc---hhHHHHHHHhhC-CCChHHHHHHhhhhC------C----ChhHHHHHHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHN---TYIISRFILTSL-PISLHFTRSLFNNVM------P----PLFAYNTLIRAY   74 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~----~~~~~~~li~~~   74 (162)
                      .+...|++++|...++...+......   ...+..+-..+. .|++++|...++...      +    ....+..+-..+
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            33455788899999988877642211   355667777777 999999999888753      1    255677788888


Q ss_pred             HcCCCchHHHHHHHHHHHcCC-CCC----CccHHHHHHHhhhhcc--------------------chhhhHHHHHHHHH-
Q 045917           75 AKTSCSIESIKLFDEMLKTGL-RPD----NLTYPFVVKASDQCLL--------------------IGVGGSVHSLIFKV-  128 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~~~-~p~----~~t~~~li~~~~~~~~--------------------~~~a~~i~~~~~~~-  128 (162)
                      ...|++++|...+++..+..- .++    ..++..+...+...|+                    +++|...+...... 
T Consensus        94 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~  173 (338)
T 3ro2_A           94 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLV  173 (338)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            889999999999988654311 112    2366677778888888                    88888877665432 


Q ss_pred             ---hcC-cchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          129 ---GLH-SDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       129 ---~~~-~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                         +-. .....+..+-..|...|++++|.+.+++
T Consensus       174 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  208 (338)
T 3ro2_A          174 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQ  208 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence               111 1234677777888888888888888765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.22  E-value=5.4e-06  Score=59.88  Aligned_cols=144  Identities=11%  Similarity=-0.064  Sum_probs=105.6

Q ss_pred             hhhhcchhHHHHHh----cCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHHHHHcCCC
Q 045917           16 AHHHHQLPALFLKT----SLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIRAYAKTSC   79 (162)
Q Consensus        16 ~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~~~~~~~~   79 (162)
                      +++|...+......    +..+ ...++..+-..|. .|++++|...+++..      ++    ..+|..+-..|...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            77777777665432    2122 2345666777777 999999999998875      22    3478888889999999


Q ss_pred             chHHHHHHHHHHHcCCC-CC----CccHHHHHHHhhhhccchhhhHHHHHHHHHhc-Ccc----hhHHHHHHHHHHhcCC
Q 045917           80 SIESIKLFDEMLKTGLR-PD----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-HSD----KYIGNTLLRMYAACKE  149 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~-p~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-~~~----~~~~~~ll~~y~~~g~  149 (162)
                      +++|...+++..+..-. ++    ..++..+...+...|++++|...+....+... .++    ..++..+-..|.+.|+
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999987543111 11    44667788889999999999999988765321 111    5577888899999999


Q ss_pred             hhHHHHhhcc
Q 045917          150 IDFAKALFDE  159 (162)
Q Consensus       150 ~~~a~~~~~~  159 (162)
                      +++|.+.|++
T Consensus       323 ~~~A~~~~~~  332 (406)
T 3sf4_A          323 HDQAMHFAEK  332 (406)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998875

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=98.22  E-value=1.8e-05  Score=58.04  Aligned_cols=124  Identities=6%  Similarity=-0.102  Sum_probs=104.4

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCC-chHHHHHHHHHHHcCCCCCCccHHHHHHH
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSC-SIESIKLFDEMLKTGLRPDNLTYPFVVKA  108 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~t~~~li~~  108 (162)
                      ...|..+-..+. .|++++|...|+...   | +...|+.+-..+...|+ +++|+..|++..+..- -+...|..+-..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
Confidence            345666666777 999999999999886   4 57889999999999997 9999999999877422 255678888889


Q ss_pred             hhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          109 SDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       109 ~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +...|++++|...++.+.+.. +-+...|..+-.+|.+.|++++|...|++.
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~a  226 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQL  226 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            999999999999999998875 346888999999999999999999998764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.20  E-value=5.2e-06  Score=60.40  Aligned_cols=150  Identities=8%  Similarity=-0.084  Sum_probs=103.2

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCch----hHHHHHHHhhC-CCChHHHHHHhhhhC----------CChhHHHHHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNT----YIISRFILTSL-PISLHFTRSLFNNVM----------PPLFAYNTLIRA   73 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~-~~~~~~a~~~~~~m~----------~~~~~~~~li~~   73 (162)
                      .+...|+.++|...++...+.+.. ++    ..+..+-..|. .|++++|...|++..          .....+..+-..
T Consensus        57 ~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  135 (411)
T 4a1s_A           57 RLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNT  135 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHH
Confidence            334557888898888888776432 22    35666667777 899999988888664          234567778888


Q ss_pred             HHcCCCchHHHHHHHHHHHc----C-CCCCCccHHHHHHHhhhhcc-----------------chhhhHHHHHHHHH---
Q 045917           74 YAKTSCSIESIKLFDEMLKT----G-LRPDNLTYPFVVKASDQCLL-----------------IGVGGSVHSLIFKV---  128 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~----~-~~p~~~t~~~li~~~~~~~~-----------------~~~a~~i~~~~~~~---  128 (162)
                      |...|++++|...|++..+.    + -.....++..+-..+...|+                 +++|...+....+.   
T Consensus       136 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~  215 (411)
T 4a1s_A          136 LKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRD  215 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            88889999999998886543    1 11123356667777888888                 88888777665442   


Q ss_pred             -hc-CcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          129 -GL-HSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       129 -~~-~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                       +- ......+..+-..|...|++++|.+.|++
T Consensus       216 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  248 (411)
T 4a1s_A          216 LGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQE  248 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence             11 11234667777788888888888887765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.19  E-value=4.9e-06  Score=58.25  Aligned_cols=145  Identities=11%  Similarity=-0.077  Sum_probs=105.2

Q ss_pred             hhhhcchhHHHHHh----cCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHHHHHcCCC
Q 045917           16 AHHHHQLPALFLKT----SLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIRAYAKTSC   79 (162)
Q Consensus        16 ~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~~~~~~~~   79 (162)
                      .++|.+.+......    +..+ ....+..+-..+. .|++++|...+++..      ++    ..++..+-..+...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            77777776665332    2222 2345666777777 999999999998875      22    3378888889999999


Q ss_pred             chHHHHHHHHHHHcCC-CCC----CccHHHHHHHhhhhccchhhhHHHHHHHHHhc-----CcchhHHHHHHHHHHhcCC
Q 045917           80 SIESIKLFDEMLKTGL-RPD----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-----HSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~-~p~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-----~~~~~~~~~ll~~y~~~g~  149 (162)
                      +++|...+++..+..- .++    ..++..+...+...|++++|...+....+...     .....++..+-..|.+.|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            9999999998754311 111    44567778888999999999999888755321     1114477889999999999


Q ss_pred             hhHHHHhhccc
Q 045917          150 IDFAKALFDEM  160 (162)
Q Consensus       150 ~~~a~~~~~~m  160 (162)
                      +++|.+.|++.
T Consensus       319 ~~~A~~~~~~a  329 (338)
T 3ro2_A          319 HDQAMHFAEKH  329 (338)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hHHHHHHHHHH
Confidence            99999998753

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.19  E-value=5.5e-05  Score=53.03  Aligned_cols=152  Identities=5%  Similarity=-0.104  Sum_probs=106.8

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCC---C--chhHHHHHHHhhC-C-CChHHHHHHhhhhC---CC-------hhHHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLD---H--NTYIISRFILTSL-P-ISLHFTRSLFNNVM---PP-------LFAYNTL   70 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~ll~~~~-~-~~~~~a~~~~~~m~---~~-------~~~~~~l   70 (162)
                      .++...|+.++|...++........   +  ...+++.+-..|. . |++++|...|++..   |+       ..+|+.+
T Consensus        85 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~l  164 (292)
T 1qqe_A           85 KCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKC  164 (292)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHH
Confidence            3445557888888877776543211   1  1346777777787 7 99999999999875   21       3568888


Q ss_pred             HHHHHcCCCchHHHHHHHHHHHcCCCCCCc------cHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc------hhHHH
Q 045917           71 IRAYAKTSCSIESIKLFDEMLKTGLRPDNL------TYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD------KYIGN  138 (162)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~------~~~~~  138 (162)
                      -..+.+.|++++|...|++..+........      .|..+...+...|+.++|...++...+.  .|+      ...+.
T Consensus       165 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~  242 (292)
T 1qqe_A          165 ADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLK  242 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHH
Confidence            899999999999999999988754433322      3566667788899999999998876542  222      12345


Q ss_pred             HHHHHHH--hcCChhHHHHhhcccC
Q 045917          139 TLLRMYA--ACKEIDFAKALFDEMP  161 (162)
Q Consensus       139 ~ll~~y~--~~g~~~~a~~~~~~m~  161 (162)
                      .+...|.  ..+++++|.+.|+++.
T Consensus       243 ~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          243 SLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHcCCHHHHHHHHHHhccCC
Confidence            5666665  4678999999998764

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.17  E-value=8.8e-06  Score=52.52  Aligned_cols=115  Identities=8%  Similarity=0.010  Sum_probs=85.2

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHH-HHcCCCc--hHHH
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRA-YAKTSCS--IESI   84 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~-~~~~~~~--~~a~   84 (162)
                      .|+.++|...+....+.. +.++..+..+-..|. .|++++|...|+...   | +...|..+-.. +...|++  ++|.
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~  101 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTR  101 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHH
Confidence            356778888887776654 345667777777888 999999999999876   4 56667777777 6788998  9999


Q ss_pred             HHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           85 KLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      ..|++..+.. +.+...+..+...+...|++++|...+....+..
T Consensus       102 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          102 AMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            9999987642 1234566777788889999999999998887753

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.15  E-value=1.5e-05  Score=57.18  Aligned_cols=124  Identities=9%  Similarity=-0.022  Sum_probs=100.6

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC---CC----------------hhHHHHHHHHHHcCCCchHHHHHHHHHHHcC
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM---PP----------------LFAYNTLIRAYAKTSCSIESIKLFDEMLKTG   94 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (162)
                      ...+..+=..|. .|++++|...|+...   |+                ...|..+-..|.+.|++++|...|++..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            445666666777 999999999999876   54                3789999999999999999999999987753


Q ss_pred             CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHH-Hhhccc
Q 045917           95 LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAK-ALFDEM  160 (162)
Q Consensus        95 ~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~-~~~~~m  160 (162)
                       +.+...+..+-.++...|++++|...+....+.. +-+...+..+-.+|.+.|+.++|. ..|.+|
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             2356677888899999999999999999988864 345778888999999999999884 345443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.14  E-value=1.2e-05  Score=58.55  Aligned_cols=144  Identities=7%  Similarity=-0.119  Sum_probs=106.2

Q ss_pred             hhhhcchhHHHHHh----cCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHHHHHcCCC
Q 045917           16 AHHHHQLPALFLKT----SLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIRAYAKTSC   79 (162)
Q Consensus        16 ~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~~~~~~~~   79 (162)
                      +++|.+.+......    +-.+ ...++..+-..|. .|++++|...|++..      ++    ...+..+-..|...|+
T Consensus       199 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  278 (411)
T 4a1s_A          199 LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQ  278 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcC
Confidence            77777777665432    2222 2346667777777 999999999999875      22    3378889999999999


Q ss_pred             chHHHHHHHHHHHcCCC-C----CCccHHHHHHHhhhhccchhhhHHHHHHHHHhc-----CcchhHHHHHHHHHHhcCC
Q 045917           80 SIESIKLFDEMLKTGLR-P----DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-----HSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        80 ~~~a~~~~~~m~~~~~~-p----~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-----~~~~~~~~~ll~~y~~~g~  149 (162)
                      +++|...|++..+..-. .    ...++..+...+...|++++|...+.......-     .....++..+-..|.+.|+
T Consensus       279 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  358 (411)
T 4a1s_A          279 FEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGG  358 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhcc
Confidence            99999999987543111 1    145677788889999999999999988765321     1124577888999999999


Q ss_pred             hhHHHHhhcc
Q 045917          150 IDFAKALFDE  159 (162)
Q Consensus       150 ~~~a~~~~~~  159 (162)
                      +++|.+.|++
T Consensus       359 ~~~A~~~~~~  368 (411)
T 4a1s_A          359 HERALKYAEQ  368 (411)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998875

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.14  E-value=5.6e-05  Score=48.09  Aligned_cols=92  Identities=9%  Similarity=-0.024  Sum_probs=73.3

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      .+..+=..+. .|++++|...|+...   | +...|..+=.+|...|++++|...|++..+.. +-+...|..+-.++.+
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~~  116 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQLR  116 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHH
Confidence            3444445556 999999999999886   4 57788888889999999999999999987643 2246677888888999


Q ss_pred             hccchhhhHHHHHHHHHh
Q 045917          112 CLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~~  129 (162)
                      .|++++|...++...+..
T Consensus       117 lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          117 LKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             TTCHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999998888764

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.13  E-value=6.2e-05  Score=52.66  Aligned_cols=118  Identities=8%  Similarity=-0.077  Sum_probs=88.0

Q ss_pred             HHhhC-CCChHHHHHHhhhhC------CCh----hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc-----cHHHH
Q 045917           42 ILTSL-PISLHFTRSLFNNVM------PPL----FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL-----TYPFV  105 (162)
Q Consensus        42 l~~~~-~~~~~~a~~~~~~m~------~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-----t~~~l  105 (162)
                      +..+. .|++++|...++...      |+.    ..+..+-..+...|++++|...|++..+.....+..     +++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            45666 999999999999865      221    123345566667789999999999998744333322     57888


Q ss_pred             HHHhhhhccchhhhHHHHHHHHH-----hcCcc-hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKV-----GLHSD-KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~-----~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      -..+...|++++|...+....+.     +..+. ..++..+-..|.+.|++++|...+++
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~  221 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNK  221 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            88999999999999999888742     11122 34778899999999999999998764

>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=98.13  E-value=9.8e-06  Score=51.25  Aligned_cols=110  Identities=6%  Similarity=-0.152  Sum_probs=81.1

Q ss_pred             hhhcchhHHHHHhcCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           17 HHHHQLPALFLKTSLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        17 ~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      ..+.+.++.....  .| +...+..+-..+. .|++++|...|+...    .+...|..+=..|...|++++|...|++.
T Consensus         4 ~~~~~~~~~al~~--~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a   81 (148)
T 2vgx_A            4 GSGGGTIAMLNEI--SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYG   81 (148)
T ss_dssp             --CCCSHHHHTTC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cchhhhHHHHHcC--CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3344455554332  23 3344455555666 999999999999876    46778888888999999999999999998


Q ss_pred             HHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           91 LKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        91 ~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      .... +-+...+..+-.++...|++++|...+....+..
T Consensus        82 l~l~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           82 AVMD-IXEPRFPFHAAECLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhcC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            7642 2345667778889999999999999999887754

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.13  E-value=3.9e-05  Score=46.46  Aligned_cols=96  Identities=9%  Similarity=-0.029  Sum_probs=80.4

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHH
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLL  141 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll  141 (162)
                      .+...|..+-..+...|++++|...|++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+-
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            346678888889999999999999999987642 2256677888888999999999999999988764 34678888999


Q ss_pred             HHHHhcCChhHHHHhhcc
Q 045917          142 RMYAACKEIDFAKALFDE  159 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~  159 (162)
                      .+|.+.|++++|.+.|++
T Consensus        92 ~~~~~~~~~~~A~~~~~~  109 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQK  109 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHH
Confidence            999999999999999875

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.12  E-value=3.1e-05  Score=49.33  Aligned_cols=95  Identities=9%  Similarity=-0.116  Sum_probs=79.6

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      +...+..+=..+.+.|++++|...|++..+.. +-+...|..+-.++...|++++|...++...+.. +-+...|..+-.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            35566677778889999999999999987642 2356667888899999999999999999998875 345888999999


Q ss_pred             HHHhcCChhHHHHhhcc
Q 045917          143 MYAACKEIDFAKALFDE  159 (162)
Q Consensus       143 ~y~~~g~~~~a~~~~~~  159 (162)
                      +|.+.|++++|.+.|++
T Consensus       113 ~~~~lg~~~eA~~~~~~  129 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFEL  129 (151)
T ss_dssp             HHHHTTCHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHH
Confidence            99999999999999875

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.10  E-value=5.6e-05  Score=52.89  Aligned_cols=150  Identities=10%  Similarity=-0.063  Sum_probs=107.5

Q ss_pred             HHHhhchhhhcchhHHHHHhc-CCCchh----HHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTS-LDHNTY----IISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIRA   73 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~-~~~~~~----~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~~   73 (162)
                      +...|+.++|..+++...... ..|+..    .+..+-..+. .+++++|...|+..-      ++    ..+|+.+-..
T Consensus        85 ~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~  164 (293)
T 3u3w_A           85 LCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANI  164 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHH
Confidence            344578888999988887643 233322    2334555666 889999999998764      33    2368889999


Q ss_pred             HHcCCCchHHHHHHHHHHHc-----CCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHh----cCcc-hhHHHHHHH
Q 045917           74 YAKTSCSIESIKLFDEMLKT-----GLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVG----LHSD-KYIGNTLLR  142 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~-----~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~----~~~~-~~~~~~ll~  142 (162)
                      |...|++++|...|++..+.     +..+. ..++..+-..+.+.|++++|...+....+..    ..+. ..+|..+=.
T Consensus       165 y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~  244 (293)
T 3u3w_A          165 YAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGE  244 (293)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence            99999999999999998641     11121 2367778889999999999999988776532    1122 567788888


Q ss_pred             HHHhcCC-hhHHHHhhcc
Q 045917          143 MYAACKE-IDFAKALFDE  159 (162)
Q Consensus       143 ~y~~~g~-~~~a~~~~~~  159 (162)
                      +|.+.|+ .++|.+.|++
T Consensus       245 ~~~~~g~~~~~A~~~~~~  262 (293)
T 3u3w_A          245 CLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHTTCCHHHHHHHHHH
T ss_pred             HHHHhCCcHHHHHHHHHH
Confidence            9999995 6888887764

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.09  E-value=4.8e-05  Score=44.90  Aligned_cols=91  Identities=11%  Similarity=-0.064  Sum_probs=50.1

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      .+..+-..+. .|++++|...|+...   | +...|..+-..+...|++++|...+++..+.. +.+...+..+...+..
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            3444444555 666666666666554   2 44555555556666666666666666654431 1133444555555666


Q ss_pred             hccchhhhHHHHHHHHH
Q 045917          112 CLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~  128 (162)
                      .|++++|...+....+.
T Consensus        85 ~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             TTCHHHHHHHHHHHHTT
T ss_pred             HhhHHHHHHHHHHHHHc
Confidence            66666666666555543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.09  E-value=1.7e-05  Score=50.19  Aligned_cols=131  Identities=5%  Similarity=-0.121  Sum_probs=90.9

Q ss_pred             hchhhhcchhHHHHHhcCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLF   87 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~   87 (162)
                      |+++.|...+.....  ..| ++..+-.+=..|. .|++++|...|+...   | +..+|..+=..|.+.|++++|...|
T Consensus        11 ~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~   88 (150)
T 4ga2_A           11 ADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDKAVECY   88 (150)
T ss_dssp             HHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHHHHH
Confidence            455666555554422  222 2333445556677 999999999999876   4 6788999999999999999999999


Q ss_pred             HHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHH-HHHHHHHhcCcchhHHHHHHHHHHhcCC
Q 045917           88 DEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSV-HSLIFKVGLHSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        88 ~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i-~~~~~~~~~~~~~~~~~~ll~~y~~~g~  149 (162)
                      ++..+.  .|+ ...+..+-..+.+.|+.+++... ++...+.. +-++.+|...-..+.+.|+
T Consensus        89 ~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           89 RRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCc
Confidence            998763  354 45677788888899998876655 46666543 2346667666666666664

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.08  E-value=2e-05  Score=55.74  Aligned_cols=151  Identities=4%  Similarity=-0.151  Sum_probs=105.6

Q ss_pred             HHHHHhhchhhhcchhHHHHHhc--CC--C-chhHHHHHHHhhC-CCChHHHHHHhhhhC--------C--ChhHHHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTS--LD--H-NTYIISRFILTSL-PISLHFTRSLFNNVM--------P--PLFAYNTLI   71 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~--~~--~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--------~--~~~~~~~li   71 (162)
                      .++...|+.++|...+.......  ..  + ...+++.+-..|. .|++++|...|+...        +  -..+++.+-
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44555677888887777664432  11  1 1346777777888 899999988888653        1  135677777


Q ss_pred             HHHHcCCCchHHHHHHHHHHHcCCCC-----CCccHHHHHHHhhhhccchhhhHHHHHHHHHhc----Ccc-hhHHHHHH
Q 045917           72 RAYAKTSCSIESIKLFDEMLKTGLRP-----DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL----HSD-KYIGNTLL  141 (162)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~p-----~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~----~~~-~~~~~~ll  141 (162)
                      ..|.. |++++|+..|++..+..-..     ...++..+-..+.+.|++++|...++...+...    .+. ...+..+.
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            78877 99999999998865421111     134577778889999999999999988766321    111 23566677


Q ss_pred             HHHHhcCChhHHHHhhcc
Q 045917          142 RMYAACKEIDFAKALFDE  159 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~  159 (162)
                      .+|...|++++|.+.|++
T Consensus       203 ~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHH
Confidence            788888999999998875

>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=98.08  E-value=5.8e-05  Score=59.27  Aligned_cols=150  Identities=13%  Similarity=0.068  Sum_probs=99.5

Q ss_pred             HHHHHHhhchhhhc-chhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--------------C--------
Q 045917            7 ETLIQLSKTAHHHH-QLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--------------P--------   62 (162)
Q Consensus         7 ~~~l~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--------------~--------   62 (162)
                      +..+...|+.++|. .++...... ++.+...|-......- .|+++.|..+|+...              |        
T Consensus       350 a~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~  428 (679)
T 4e6h_A          350 ANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQ  428 (679)
T ss_dssp             HHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhh
Confidence            33444456666775 777777643 3445555666666666 888888888888764              1        


Q ss_pred             ----ChhHHHHHHHHHHcCCCchHHHHHHHHHHHc-C-CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhH
Q 045917           63 ----PLFAYNTLIRAYAKTSCSIESIKLFDEMLKT-G-LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYI  136 (162)
Q Consensus        63 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~-~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~  136 (162)
                          ....|-..+....+.|+.+.|..+|....+. + ..+......+.++..+ .++.+.|.++|+...+. ++-+...
T Consensus       429 ~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~-~p~~~~~  506 (679)
T 4e6h_A          429 LKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY-FATDGEY  506 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH-HTTCHHH
T ss_pred             hccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH-CCCchHH
Confidence                1235777777777788889999999888765 2 2222222233333322 34588888888887776 4445667


Q ss_pred             HHHHHHHHHhcCChhHHHHhhcc
Q 045917          137 GNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       137 ~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      |...++.....|+.+.|..+|+.
T Consensus       507 w~~y~~fe~~~~~~~~AR~lfer  529 (679)
T 4e6h_A          507 INKYLDFLIYVNEESQVKSLFES  529 (679)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHH
Confidence            77888888888888888888875

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.07  E-value=0.00012  Score=50.20  Aligned_cols=125  Identities=10%  Similarity=-0.010  Sum_probs=92.2

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC---CC----hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCC-CCC-CccHHH
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM---PP----LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGL-RPD-NLTYPF  104 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~-~~t~~~  104 (162)
                      +..+-.+-..+. .|++++|...|+...   |+    ...+..+-..|.+.|++++|...|++..+..- .|+ ...+..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            333444444555 999999999999987   54    46677788889999999999999999877421 111 234555


Q ss_pred             HHHHhhh--------hccchhhhHHHHHHHHHhcCcchhHH-----------------HHHHHHHHhcCChhHHHHhhcc
Q 045917          105 VVKASDQ--------CLLIGVGGSVHSLIFKVGLHSDKYIG-----------------NTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       105 li~~~~~--------~~~~~~a~~i~~~~~~~~~~~~~~~~-----------------~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +-.++..        .|++++|...+..+.+... -+....                 ..+-..|.+.|++++|...|++
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  173 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYP-NHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEA  173 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCT-TCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHCc-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            6666767        8999999999999887632 233444                 4557789999999999999876


Q ss_pred             c
Q 045917          160 M  160 (162)
Q Consensus       160 m  160 (162)
                      .
T Consensus       174 ~  174 (261)
T 3qky_A          174 V  174 (261)
T ss_dssp             H
T ss_pred             H
Confidence            4

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.07  E-value=0.00012  Score=51.27  Aligned_cols=148  Identities=11%  Similarity=-0.041  Sum_probs=102.8

Q ss_pred             HHhhchhhhcchhHHHHHhcCCC-ch----hHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDH-NT----YIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIRAY   74 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~-~~----~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~~~   74 (162)
                      ...|+.++|.+.+....+..... +.    ..+..+-..+. .|++++|...++..-      .+    ..+|+.+-..|
T Consensus        86 ~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y  165 (293)
T 2qfc_A           86 CKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIY  165 (293)
T ss_dssp             HHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH
Confidence            34467777877777665543221 11    11223334445 889999999887652      11    44788888999


Q ss_pred             HcCCCchHHHHHHHHHHHc-CCCCC-----CccHHHHHHHhhhhccchhhhHHHHHHHHHhc----Cc-chhHHHHHHHH
Q 045917           75 AKTSCSIESIKLFDEMLKT-GLRPD-----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL----HS-DKYIGNTLLRM  143 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~-~~~p~-----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~----~~-~~~~~~~ll~~  143 (162)
                      ...|++++|...|++..+. ...|+     ..++..+-..|.+.|++++|...+....+...    .. -..+|..+-.+
T Consensus       166 ~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~  245 (293)
T 2qfc_A          166 AENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGEC  245 (293)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            9999999999999997632 11222     14778888899999999999999988765421    11 15677888889


Q ss_pred             HHhcCChhHH-HHhhc
Q 045917          144 YAACKEIDFA-KALFD  158 (162)
Q Consensus       144 y~~~g~~~~a-~~~~~  158 (162)
                      |.+.|+.++| ...++
T Consensus       246 y~~~g~~~~Ai~~~~~  261 (293)
T 2qfc_A          246 LRKLEYEEAEIEDAYK  261 (293)
T ss_dssp             HHHTTCCHHHHHHHHH
T ss_pred             HHHcCCcHHHHHHHHH
Confidence            9999999999 66554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.05  E-value=5.7e-05  Score=45.38  Aligned_cols=95  Identities=5%  Similarity=-0.107  Sum_probs=79.0

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      +...|..+-..+...|++++|...|++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+-.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45567778888899999999999999987642 2355667788888999999999999999988764 345778888999


Q ss_pred             HHHhcCChhHHHHhhcc
Q 045917          143 MYAACKEIDFAKALFDE  159 (162)
Q Consensus       143 ~y~~~g~~~~a~~~~~~  159 (162)
                      +|.+.|++++|.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~  105 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKK  105 (131)
T ss_dssp             HHHHTTCHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHH
Confidence            99999999999999875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.05  E-value=0.0002  Score=51.46  Aligned_cols=150  Identities=9%  Similarity=-0.041  Sum_probs=105.9

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchh----HHHHHHHhhC-CCChHHHHHHhhhhC------CCh----hHHHHHHHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTY----IISRFILTSL-PISLHFTRSLFNNVM------PPL----FAYNTLIRAY   74 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~ll~~~~-~~~~~~a~~~~~~m~------~~~----~~~~~li~~~   74 (162)
                      ....|+.++|...+..........++.    .++.+-..+. .|++++|...+++..      .+.    .+++.+-..+
T Consensus        24 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~  103 (373)
T 1hz4_A           24 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  103 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHH
Confidence            344578889999888876654222222    3444455666 999999999998765      222    3356667778


Q ss_pred             HcCCCchHHHHHHHHHHHc----CCC--CC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcC--c--chhHHHHHHHH
Q 045917           75 AKTSCSIESIKLFDEMLKT----GLR--PD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH--S--DKYIGNTLLRM  143 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~----~~~--p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~--~--~~~~~~~ll~~  143 (162)
                      ...|++++|.+.+++..+.    +..  |. ...+..+-..+...|++++|...+.......-.  +  ....+..+-..
T Consensus       104 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  183 (373)
T 1hz4_A          104 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  183 (373)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHH
Confidence            8899999999999987543    222  21 234455677888999999999999887764321  1  23467778889


Q ss_pred             HHhcCChhHHHHhhcc
Q 045917          144 YAACKEIDFAKALFDE  159 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~  159 (162)
                      +...|++++|.+.+++
T Consensus       184 ~~~~g~~~~A~~~l~~  199 (373)
T 1hz4_A          184 SLARGDLDNARSQLNR  199 (373)
T ss_dssp             HHHHTCHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHH
Confidence            9999999999998865

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.05  E-value=7.9e-05  Score=45.60  Aligned_cols=96  Identities=6%  Similarity=-0.041  Sum_probs=75.1

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHH
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVK  107 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  107 (162)
                      .++..+..+-..+. .|++++|...|+...   | +...|..+-..+...|++++|...+++..+.. +.+...+..+-.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            35566777777777 999999999998775   3 46778888888888999999999998887643 224556777888


Q ss_pred             HhhhhccchhhhHHHHHHHHHh
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      .+...|++++|...+....+..
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHC
Confidence            8888999999999888877653

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.03  E-value=0.00013  Score=46.88  Aligned_cols=111  Identities=8%  Similarity=-0.047  Sum_probs=84.7

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHH-hhhhccc--hhhh
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKA-SDQCLLI--GVGG  119 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~-~~~~~~~--~~a~  119 (162)
                      .|++++|...++...    .+...|..+-..|...|++++|...|++..+.. +.+...+..+... +...|++  ++|.
T Consensus        23 ~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~  101 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTR  101 (177)
T ss_dssp             ----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHH
Confidence            678888888887764    467788888899999999999999999986642 1244556666666 6678888  9999


Q ss_pred             HHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          120 SVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       120 ~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+....+.. +.+...+..+-..|...|++++|...|++
T Consensus       102 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~  140 (177)
T 2e2e_A          102 AMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQK  140 (177)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            9999888764 23567788888999999999999998875

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.03  E-value=6.3e-05  Score=54.49  Aligned_cols=120  Identities=11%  Similarity=-0.041  Sum_probs=76.8

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCC-C-----chhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLD-H-----NTYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTL   70 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~-~-----~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~l   70 (162)
                      .++...|+.+.|...+......... +     ...+++.+=..|. .|++++|...|+...      ++    ..++..+
T Consensus       151 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  230 (383)
T 3ulq_A          151 ESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNI  230 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            3344456677777766665432211 1     1234555556666 888888888887664      21    2367777


Q ss_pred             HHHHHcCCCchHHHHHHHHHHHc----CC-CCCCccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           71 IRAYAKTSCSIESIKLFDEMLKT----GL-RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      =..|...|++++|.+.|++..+.    +- +....++..+-..+.+.|++++|...+....+
T Consensus       231 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          231 GLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77788888888888888886552    22 23345566777778888888888877766544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.02  E-value=3.7e-05  Score=55.47  Aligned_cols=151  Identities=8%  Similarity=-0.124  Sum_probs=97.4

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCc---hhHHHHHHHhhC-CCChHHHHHHhhhhC----------CChhHHHHHHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHN---TYIISRFILTSL-PISLHFTRSLFNNVM----------PPLFAYNTLIRAY   74 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~ll~~~~-~~~~~~a~~~~~~m~----------~~~~~~~~li~~~   74 (162)
                      .+...|+.++|...++...+.+....   ...+..+-..|. .|++++|...|+...          .....+..+-..|
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            34455788888888888776632211   245666666777 888888888877653          1244567777778


Q ss_pred             HcCCCchHHHHHHHHHHHcCC-CCC----CccHHHHHHHhhhhcc--------------------chhhhHHHHHHHHH-
Q 045917           75 AKTSCSIESIKLFDEMLKTGL-RPD----NLTYPFVVKASDQCLL--------------------IGVGGSVHSLIFKV-  128 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~~~-~p~----~~t~~~li~~~~~~~~--------------------~~~a~~i~~~~~~~-  128 (162)
                      ...|++++|...+++..+..- .++    ..++..+-..+...|+                    +++|...+....+. 
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  177 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLV  177 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            888888888888877644210 011    3356666777777788                    77777777665432 


Q ss_pred             ---hcC-cchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          129 ---GLH-SDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       129 ---~~~-~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                         +-. ....++..+-..|...|++++|.+.|++
T Consensus       178 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  212 (406)
T 3sf4_A          178 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQ  212 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHH
T ss_pred             HhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence               111 1134566777777788888888777654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.02  E-value=0.0001  Score=45.49  Aligned_cols=95  Identities=3%  Similarity=-0.194  Sum_probs=70.9

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---CC----hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---PP----LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFV  105 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  105 (162)
                      +...+..+-..+. .|++++|...|+...   |+    ...|..+-..|...|++++|...+++..+.. +.+...+..+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  105 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRR  105 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHH
Confidence            4455666666666 888999988888775   65    5777778888888889999988888876542 1244566677


Q ss_pred             HHHhhhhccchhhhHHHHHHHHHh
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      ...+...|++++|...+....+..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC
Confidence            778888888888888888877653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.01  E-value=6e-05  Score=50.15  Aligned_cols=144  Identities=6%  Similarity=-0.032  Sum_probs=94.6

Q ss_pred             HHhhchhhhcchhHHHHHhcCCCchhHHHH----------------HHHhhC-CCChHHHHHHhhhhC---C-ChhHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDHNTYIISR----------------FILTSL-PISLHFTRSLFNNVM---P-PLFAYNT   69 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~   69 (162)
                      ...|+.++|...+....+.... ++..+..                +-..|. .|++++|...|+...   | +...|..
T Consensus        15 ~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~   93 (208)
T 3urz_A           15 IEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEA   93 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHH
Confidence            4557889999998888665321 2333444                566677 999999999999876   4 5788899


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhcc--chhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLL--IGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~--~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      +-..+...|++++|...|++..+.  .|+ ..++..+-..+...|.  ...+...+.....  ..|....+..+=.++..
T Consensus        94 lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~  169 (208)
T 3urz_A           94 CAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLF  169 (208)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHH
Confidence            999999999999999999998764  344 4456666666554443  2333333333221  12222233333445566


Q ss_pred             cCChhHHHHhhcc
Q 045917          147 CKEIDFAKALFDE  159 (162)
Q Consensus       147 ~g~~~~a~~~~~~  159 (162)
                      .|++++|...|++
T Consensus       170 ~~~~~~A~~~~~~  182 (208)
T 3urz_A          170 TTRYEKARNSLQK  182 (208)
T ss_dssp             HHTHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHH
Confidence            8899999988875

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.01  E-value=5.8e-05  Score=45.42  Aligned_cols=93  Identities=10%  Similarity=-0.061  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhc--Ccc----hhHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL--HSD----KYIGNT  139 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~--~~~----~~~~~~  139 (162)
                      .|..+-..+...|++++|...|++..+.. +.+...+..+...+...|++++|...+....+...  .++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            44555556666677777777776665432 22344455566666666777777766666655432  111    455666


Q ss_pred             HHHHHHhcCChhHHHHhhcc
Q 045917          140 LLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       140 ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +-.+|.+.|++++|.+.|++
T Consensus        85 la~~~~~~~~~~~A~~~~~~  104 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNK  104 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHH
Confidence            66677777777777766654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.01  E-value=5.8e-05  Score=52.89  Aligned_cols=126  Identities=7%  Similarity=-0.120  Sum_probs=94.7

Q ss_pred             CCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHH
Q 045917           32 DHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVV  106 (162)
Q Consensus        32 ~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li  106 (162)
                      +.+...+..+-..+. .|++++|...|+...   | +...+..+-..+.+.|++++|...+++....  .|+........
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            334444555555666 999999999999886   4 5778888999999999999999999987553  35443222222


Q ss_pred             -HHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          107 -KASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       107 -~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                       ..+...++.+++...++...... +.+...+..+-..|...|++++|.+.|.+.
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~  245 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGH  245 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence             23556677788888888777764 346888999999999999999999998764

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.01  E-value=3.8e-05  Score=44.96  Aligned_cols=92  Identities=12%  Similarity=-0.045  Sum_probs=51.2

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCc--chhHHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHS--DKYIGNTLLRM  143 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~--~~~~~~~ll~~  143 (162)
                      .|..+-..+...|++++|...|++..+.. +.+...+..+-..+...|++++|...+....+.. +.  +...+..+-.+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            34444555556666666666666654432 1233445555555666666666666666655442 12  35555666666


Q ss_pred             HHhc-CChhHHHHhhcc
Q 045917          144 YAAC-KEIDFAKALFDE  159 (162)
Q Consensus       144 y~~~-g~~~~a~~~~~~  159 (162)
                      |.+. |++++|.+.|++
T Consensus        86 ~~~~~~~~~~A~~~~~~  102 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEAR  102 (112)
T ss_dssp             HTTCSSCSHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHH
Confidence            6666 666666666554

>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=8.4e-05  Score=45.04  Aligned_cols=91  Identities=9%  Similarity=-0.119  Sum_probs=60.0

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      .+..+=..+. .|++++|...|+...    .+...|..+-..|.+.|++++|...|++..+.. +.+...+..+-..+..
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            3444444555 777777777777665    346667777777777777777777777766532 1234456666677777


Q ss_pred             hccchhhhHHHHHHHHH
Q 045917          112 CLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~  128 (162)
                      .|++++|...+....+.
T Consensus        85 ~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           85 VKEYASALETLDAARTK  101 (126)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHHh
Confidence            77777777777766554

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=97.99  E-value=6e-05  Score=47.56  Aligned_cols=94  Identities=7%  Similarity=-0.113  Sum_probs=61.3

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRM  143 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~  143 (162)
                      ...+..+-..+...|++++|...|++..... +.+...|..+-..+...|++++|...+....+.. +.+...+..+-.+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            4445555666677777777777777765432 1244455666667777777777777777776653 2345666677777


Q ss_pred             HHhcCChhHHHHhhcc
Q 045917          144 YAACKEIDFAKALFDE  159 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~  159 (162)
                      |...|++++|.+.|++
T Consensus        99 ~~~~g~~~~A~~~~~~  114 (148)
T 2vgx_A           99 LLQXGELAEAESGLFL  114 (148)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHH
Confidence            7777777777777654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.98  E-value=0.00011  Score=44.95  Aligned_cols=91  Identities=7%  Similarity=-0.130  Sum_probs=65.6

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ  111 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~  111 (162)
                      .+...=..|. .|++++|...|++..    .+...|..+-.+|.+.|++++|+..|++..+.. +.+...|..+-..+..
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            3444455566 888888888888765    356777777788888888888888888876532 1234556777777888


Q ss_pred             hccchhhhHHHHHHHHH
Q 045917          112 CLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~  128 (162)
                      .|++++|...++...+.
T Consensus        94 ~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           94 MREWSKAQRAYEDALQV  110 (126)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            88888888888877765

>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=97.98  E-value=4.5e-05  Score=58.31  Aligned_cols=110  Identities=8%  Similarity=-0.098  Sum_probs=80.8

Q ss_pred             CChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHH
Q 045917           48 ISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHS  123 (162)
Q Consensus        48 ~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~  123 (162)
                      |++++|...|++..   | +...|..+-..|...|++++|.+.|++..+.. +-+...+..+-..+...|++++|.+.++
T Consensus         3 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             ------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            67888999998876   4 57788889999999999999999999987642 2245667888889999999999999999


Q ss_pred             HHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          124 LIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       124 ~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ...+.. +.+...+..+-.+|.+.|++++|.+.|++
T Consensus        82 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~  116 (568)
T 2vsy_A           82 QASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTR  116 (568)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            988864 34578889999999999999999999875

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.98  E-value=8.6e-05  Score=46.23  Aligned_cols=91  Identities=4%  Similarity=-0.150  Sum_probs=71.4

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC  112 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~  112 (162)
                      +..+-..+. .|++++|...|+...   | +...|..+-..|.+.|++++|...|++..+.. +-+...+..+-..+...
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHc
Confidence            333444555 999999999999876   4 67778888888999999999999999987643 23455667788888899


Q ss_pred             ccchhhhHHHHHHHHHh
Q 045917          113 LLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       113 ~~~~~a~~i~~~~~~~~  129 (162)
                      |++++|...++...+..
T Consensus       100 g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A          100 GDLDGAESGFYSARALA  116 (142)
T ss_dssp             TCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999998887654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.97  E-value=7.8e-05  Score=47.48  Aligned_cols=95  Identities=5%  Similarity=-0.092  Sum_probs=76.5

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKA  108 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~  108 (162)
                      +...+..+-..+. .|++++|...|+...   | +...|..+-..|.+.|++++|...|++..+.. +-+...|..+-..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3455666666777 999999999999876   4 67788888889999999999999999987643 2245667788888


Q ss_pred             hhhhccchhhhHHHHHHHHHh
Q 045917          109 SDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       109 ~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      +...|++++|...+....+..
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhC
Confidence            889999999999998887764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.97  E-value=3.7e-05  Score=55.69  Aligned_cols=148  Identities=8%  Similarity=-0.095  Sum_probs=108.4

Q ss_pred             HhhchhhhcchhHHHHHhc-CCCc----hhHHHHHHHhhC-CCChHHHHHHhhhhC------CC-----hhHHHHHHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTS-LDHN----TYIISRFILTSL-PISLHFTRSLFNNVM------PP-----LFAYNTLIRAY   74 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~-----~~~~~~li~~~   74 (162)
                      ..|+.++|...+....+.- -.++    ..++..+-..|. .|+++.|...++...      ++     ..+++.+=..|
T Consensus       113 ~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y  192 (378)
T 3q15_A          113 DQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNY  192 (378)
T ss_dssp             HTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHH
Confidence            3468888988888876432 1122    345666666777 999999998888764      22     44677788889


Q ss_pred             HcCCCchHHHHHHHHHHHc----CCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHH----hcCcchhHHHHHHHHHH
Q 045917           75 AKTSCSIESIKLFDEMLKT----GLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKV----GLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~~----~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~----~~~~~~~~~~~ll~~y~  145 (162)
                      ...|++++|.+.|++..+.    +-.+ ...++..+-..+...|++++|...+....+.    +.+....++..+-..|.
T Consensus       193 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  272 (378)
T 3q15_A          193 DDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLC  272 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHH
Confidence            9999999999999887542    1111 1235667778888999999999999887661    22333677888899999


Q ss_pred             hcCChhHHHHhhcc
Q 045917          146 ACKEIDFAKALFDE  159 (162)
Q Consensus       146 ~~g~~~~a~~~~~~  159 (162)
                      +.|++++|...+++
T Consensus       273 ~~g~~~~A~~~~~~  286 (378)
T 3q15_A          273 KAGQTQKAFQFIEE  286 (378)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHH
Confidence            99999999998865

>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=97.95  E-value=0.00011  Score=46.35  Aligned_cols=108  Identities=6%  Similarity=-0.094  Sum_probs=87.8

Q ss_pred             CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHH
Q 045917           47 PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSV  121 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i  121 (162)
                      .|+++.|...++...   | +...+-.+=..|.+.|++++|.+.|++..+.  .| +..+|..+-..+.+.|++++|...
T Consensus        10 ~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~   87 (150)
T 4ga2_A           10 KADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTDKAVEC   87 (150)
T ss_dssp             HHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchHHHHHH
Confidence            678899998888876   3 3445666778899999999999999998764  34 456788888999999999999999


Q ss_pred             HHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917          122 HSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus       122 ~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      +....+.. +-+...|..+-..|.+.|+.++|.+.|
T Consensus        88 ~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~  122 (150)
T 4ga2_A           88 YRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYW  122 (150)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHH
Confidence            99988864 235788999999999999998766553

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.93  E-value=6.4e-05  Score=46.80  Aligned_cols=123  Identities=11%  Similarity=-0.026  Sum_probs=87.7

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCC-CC----Cc
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLR-PD----NL  100 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~  100 (162)
                      ++..+-..+. .|++++|...+++..      ++    ...+..+-..+...|++++|.+.+++..+..-. ++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4555666666 899999998888765      22    246777888888899999999999886542111 11    33


Q ss_pred             cHHHHHHHhhhhccchhhhHHHHHHHHHhc----C-cchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          101 TYPFVVKASDQCLLIGVGGSVHSLIFKVGL----H-SDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       101 t~~~li~~~~~~~~~~~a~~i~~~~~~~~~----~-~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+..+-..+...|++++|...+....+...    . .....+..+-..|...|++++|.+.+++
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  154 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  154 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            456667778888999999998877654321    1 1245677788899999999999988765

>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=97.92  E-value=3.4e-05  Score=50.74  Aligned_cols=142  Identities=8%  Similarity=-0.089  Sum_probs=97.7

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-h----------------hHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-L----------------FAYN   68 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~----------------~~~~   68 (162)
                      ...-|+++.+.+.|+.-.... ......+..+-..+. .|++++|...|+...   |+ .                ..|.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL   92 (198)
T ss_dssp             --------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHH
Confidence            344467777777776432221 112334455555666 999999999999875   32 2                6788


Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcC
Q 045917           69 TLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACK  148 (162)
Q Consensus        69 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g  148 (162)
                      .+-..|.+.|++++|...+++..+.. +.+...+..+-.++...|++++|...+....+.. +-+...+..+-.++...+
T Consensus        93 ~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~  170 (198)
T 2fbn_A           93 NLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLK  170 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHH
Confidence            88888999999999999999987642 2345667778888999999999999999888764 235677888888888888


Q ss_pred             ChhHHH
Q 045917          149 EIDFAK  154 (162)
Q Consensus       149 ~~~~a~  154 (162)
                      +.+++.
T Consensus       171 ~~~~~~  176 (198)
T 2fbn_A          171 EARKKD  176 (198)
T ss_dssp             HHHC--
T ss_pred             HHHHHH
Confidence            777766

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=97.91  E-value=0.00013  Score=61.30  Aligned_cols=144  Identities=11%  Similarity=-0.009  Sum_probs=85.2

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHH
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      ..++...+++++|.++....      -++.+|..+=.++. .|++++|..-|... .|...|..++..+.+.|++++|.+
T Consensus      1083 ~VLie~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA-dD~say~eVa~~~~~lGkyEEAIe 1155 (1630)
T 1xi4_A         1083 QVLIEHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-DDPSSYMEVVQAANTSGNWEELVK 1155 (1630)
T ss_pred             HHHHHHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-CChHHHHHHHHHHHHcCCHHHHHH
Confidence            34455667777777666543      33666777777777 88888888887553 455566777888888888888888


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHH-----HHHh--------------cCcchhHHHHHHHHHHh
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLI-----FKVG--------------LHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~-----~~~~--------------~~~~~~~~~~ll~~y~~  146 (162)
                      .|..-++..  +++...+.+..+|++.+++++.+.+....     ...|              +--....|..+..+|.+
T Consensus      1156 yL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA~ny~rLA~tLvk 1233 (1630)
T 1xi4_A         1156 YLQMARKKA--RESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVH 1233 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHHHHHHHHHhcCCHHHHHHHHHhhhHHHHHHHHHHH
Confidence            877654433  33333334666666665555433322100     0000              00012466777777777


Q ss_pred             cCChhHHHHhhcc
Q 045917          147 CKEIDFAKALFDE  159 (162)
Q Consensus       147 ~g~~~~a~~~~~~  159 (162)
                      .|+++.|.+.+++
T Consensus      1234 Lge~q~AIEaarK 1246 (1630)
T 1xi4_A         1234 LGEYQAAVDGARK 1246 (1630)
T ss_pred             hCCHHHHHHHHHH
Confidence            7777777766643

>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=97.89  E-value=3.6e-05  Score=50.62  Aligned_cols=116  Identities=10%  Similarity=-0.063  Sum_probs=84.5

Q ss_pred             HhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCC-CCC--------------CccH
Q 045917           43 LTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGL-RPD--------------NLTY  102 (162)
Q Consensus        43 ~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~--------------~~t~  102 (162)
                      .... .|+++.+...|+.-.    .....+..+-..+...|++++|...|++..+..- .|+              ...+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           12 SGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             ----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Confidence            3344 677777777776543    3455677777888899999999999999876321 121              1567


Q ss_pred             HHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          103 PFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       103 ~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+-..+.+.|++++|...+....+.. +.+...+..+-.+|...|++++|.+.|++
T Consensus        92 ~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           92 LNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            778888899999999999999988864 34678888899999999999999998875

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=97.89  E-value=0.00014  Score=51.34  Aligned_cols=146  Identities=10%  Similarity=-0.009  Sum_probs=104.4

Q ss_pred             hhchhhhcchhHHHHHh------cCCCc----hhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHH
Q 045917           13 SKTAHHHHQLPALFLKT------SLDHN----TYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLI   71 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~------~~~~~----~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li   71 (162)
                      .|+..+|.++++...+.      ++.++    ...|+.....|. .|++++|...|....      .+    ..+|+.+-
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35666777777665432      11233    235666777788 999999999888764      12    45788888


Q ss_pred             HHHHcCCCchHHHHHHHHHHHcCC---CC--CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcC---c--chhHHHHHH
Q 045917           72 RAYAKTSCSIESIKLFDEMLKTGL---RP--DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH---S--DKYIGNTLL  141 (162)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~---~p--~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~---~--~~~~~~~ll  141 (162)
                      ..|.+.|++++|...|++..+.-.   .|  -..++..+-..+.. |++++|...+.........   +  ...++..+-
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            999999999999999998654311   11  13456677778878 9999999999887653211   1  146788889


Q ss_pred             HHHHhcCChhHHHHhhcc
Q 045917          142 RMYAACKEIDFAKALFDE  159 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~  159 (162)
                      ..|.+.|++++|.+.|++
T Consensus       163 ~~~~~~g~~~~A~~~~~~  180 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQK  180 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHH
Confidence            999999999999999875

>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=97.88  E-value=0.00014  Score=44.47  Aligned_cols=95  Identities=6%  Similarity=-0.160  Sum_probs=54.0

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      +...|..+-..+...|++++|...|++..... +.+...+..+-..+...|++++|...+....+.. +.+...+..+-.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            34455555556666666666666666654432 1233445555556666666666666666665543 223555666666


Q ss_pred             HHHhcCChhHHHHhhcc
Q 045917          143 MYAACKEIDFAKALFDE  159 (162)
Q Consensus       143 ~y~~~g~~~~a~~~~~~  159 (162)
                      +|...|++++|...|++
T Consensus        86 ~~~~~~~~~~A~~~~~~  102 (137)
T 3q49_B           86 CQLEMESYDEAIANLQR  102 (137)
T ss_dssp             HHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHH
Confidence            66666666666665543

>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=97.88  E-value=7.7e-05  Score=44.87  Aligned_cols=108  Identities=6%  Similarity=-0.066  Sum_probs=76.8

Q ss_pred             hHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCC--CCC----CccHHH
Q 045917           36 YIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGL--RPD----NLTYPF  104 (162)
Q Consensus        36 ~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~t~~~  104 (162)
                      ..+..+-..+. .|+++.|...|+...    .+...|..+-..+...|++++|...+++..+..-  .++    ..++..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            34555666667 888888888888775    3566777788888888999999988888765421  222    556677


Q ss_pred             HHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917          105 VVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus       105 li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      +...+...|++++|...+....+..  |+......+-.++.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~  123 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEH--RTPDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC--CCHHHHHHHHHHHH
Confidence            7788888889999998888887753  45555555544443

>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=97.83  E-value=8.1e-05  Score=56.04  Aligned_cols=110  Identities=13%  Similarity=0.012  Sum_probs=82.3

Q ss_pred             CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           47 PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      .|++++|...|++..   | +...|..+-..|.+.|++++|.+.+++..+.. +-+...+..+-.++...|++++|.+.+
T Consensus        19 ~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~~~~   97 (477)
T 1wao_1           19 AKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALRDY   97 (477)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            788999999998775   4 57888888899999999999999999987652 224556777888888999999999999


Q ss_pred             HHHHHHhcCcchhHHHHHHHH--HHhcCChhHHHHhhc
Q 045917          123 SLIFKVGLHSDKYIGNTLLRM--YAACKEIDFAKALFD  158 (162)
Q Consensus       123 ~~~~~~~~~~~~~~~~~ll~~--y~~~g~~~~a~~~~~  158 (162)
                      +...+... .+...+..+-.+  +.+.|++++|.+.++
T Consensus        98 ~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           98 ETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            88877642 234455555555  888899999988877

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.83  E-value=0.00047  Score=42.39  Aligned_cols=95  Identities=6%  Similarity=-0.136  Sum_probs=78.4

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC----CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHH
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIG  137 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~  137 (162)
                      .+...+..+-..+...|++++|...|++..+.  .|+    ...+..+...+...|++++|...+....+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            45677888888889999999999999998763  455    5677778888889999999999998887763 3357788


Q ss_pred             HHHHHHHHhcCChhHHHHhhcc
Q 045917          138 NTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       138 ~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ..+-.+|...|++++|.+.|++
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~  124 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQR  124 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            8888899999999999998875

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.82  E-value=7.1e-05  Score=48.88  Aligned_cols=113  Identities=8%  Similarity=-0.100  Sum_probs=83.4

Q ss_pred             CCChHHHHH---HhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHc----CCCC-CCccHHHHHHHhhhhccchh
Q 045917           47 PISLHFTRS---LFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKT----GLRP-DNLTYPFVVKASDQCLLIGV  117 (162)
Q Consensus        47 ~~~~~~a~~---~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~t~~~li~~~~~~~~~~~  117 (162)
                      .|++++|.+   .+..-+ .....+..+-..+...|++++|...+++..+.    +..| ....+..+-..+...|++++
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   84 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDA   84 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHH
Confidence            689999999   554433 45678888888999999999999999997652    2211 23456667778889999999


Q ss_pred             hhHHHHHHHHHh-cCc-----chhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          118 GGSVHSLIFKVG-LHS-----DKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       118 a~~i~~~~~~~~-~~~-----~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      |...+....+.- -.+     ....+..+-..|...|++++|.+.+++
T Consensus        85 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~  132 (203)
T 3gw4_A           85 ARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEK  132 (203)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            999988765531 112     244577888899999999999998865

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=97.81  E-value=0.00028  Score=45.50  Aligned_cols=116  Identities=9%  Similarity=-0.072  Sum_probs=83.8

Q ss_pred             HHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHh--hhhc
Q 045917           41 FILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKAS--DQCL  113 (162)
Q Consensus        41 ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~--~~~~  113 (162)
                      +-..+. .|++++|...|+...    .+...|..+-..+...|++++|...|++....  .|+. .+..+...+  ...+
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~-~~~~~~~~~~~~~~~   88 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDN-SYKSLIAKLELHQQA   88 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCH-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCCh-HHHHHHHHHHHHhhc
Confidence            334555 899999999999987    46778899999999999999999999987543  3433 232222211  1222


Q ss_pred             cchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          114 LIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       114 ~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ....+...++...+.. +-+...+..+-.+|...|++++|.+.|++.
T Consensus        89 ~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  134 (176)
T 2r5s_A           89 AESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNI  134 (176)
T ss_dssp             TSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            3344667777766653 235788899999999999999999998764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.81  E-value=0.001  Score=47.72  Aligned_cols=153  Identities=5%  Similarity=-0.147  Sum_probs=101.3

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcC-CCch----hHHHHHHHhhC-CCChHHHHHHhhhhC--------C----ChhHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSL-DHNT----YIISRFILTSL-PISLHFTRSLFNNVM--------P----PLFAYNT   69 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~ll~~~~-~~~~~~a~~~~~~m~--------~----~~~~~~~   69 (162)
                      .++...|++++|.+.+........ ..++    .++..+-..+. .|++++|...+++..        +    ....+..
T Consensus        61 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  140 (373)
T 1hz4_A           61 EVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRI  140 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHH
Confidence            344456788888888877654321 1122    22444555666 999999999988764        1    1234555


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHcCCC--C--CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcch-hHHH-----H
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLKTGLR--P--DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK-YIGN-----T  139 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~--p--~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~-~~~~-----~  139 (162)
                      +-..+...|++++|...+++..+..-.  +  ...++..+-..+...|++++|...++......-.++. ..+.     .
T Consensus       141 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~  220 (373)
T 1hz4_A          141 RAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV  220 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHH
Confidence            667788899999999999987654222  1  1234666777888899999999999887765322221 1222     2


Q ss_pred             HHHHHHhcCChhHHHHhhccc
Q 045917          140 LLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       140 ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ....+...|++++|.+.+++.
T Consensus       221 ~~~~~~~~g~~~~A~~~~~~a  241 (373)
T 1hz4_A          221 RVIYWQMTGDKAAAANWLRHT  241 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHHHHCCCHHHHHHHHHhC
Confidence            334577999999999888754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.81  E-value=0.00012  Score=42.78  Aligned_cols=95  Identities=5%  Similarity=-0.182  Sum_probs=70.1

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCC-CCCccHHHHHHH
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLR-PDNLTYPFVVKA  108 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~t~~~li~~  108 (162)
                      ...+..+-..+. .|++++|...|+...    .+...|..+-..+...|++++|...|++..+..-. .+...+..+...
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            344555555666 888889888888765    45667778888888889999999998888764211 135667777788


Q ss_pred             hhhh-ccchhhhHHHHHHHHHh
Q 045917          109 SDQC-LLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       109 ~~~~-~~~~~a~~i~~~~~~~~  129 (162)
                      +.+. |++++|.+.+....+..
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcc
Confidence            8888 89999988888876653

>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=97.81  E-value=0.00034  Score=41.08  Aligned_cols=93  Identities=8%  Similarity=-0.093  Sum_probs=60.9

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHH
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMY  144 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y  144 (162)
                      ..|..+-..+...|++++|...|++..... +.+...+..+...+...|++++|...+....+.. +.+...+..+-.+|
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            345556666677777777777777765532 1244455666667777777777777777766653 23456667777777


Q ss_pred             HhcCChhHHHHhhcc
Q 045917          145 AACKEIDFAKALFDE  159 (162)
Q Consensus       145 ~~~g~~~~a~~~~~~  159 (162)
                      ...|++++|.+.|++
T Consensus        83 ~~~~~~~~A~~~~~~   97 (118)
T 1elw_A           83 EFLNRFEEAKRTYEE   97 (118)
T ss_dssp             HHTTCHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHH
Confidence            777777777777654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.78  E-value=0.00039  Score=44.14  Aligned_cols=84  Identities=11%  Similarity=-0.072  Sum_probs=59.6

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIE   82 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~   82 (162)
                      ..+...|++++|.+.+....+.. +.++..+..+-..|. .|++++|...|+...   | +...|..+-..|...|++++
T Consensus        19 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~   97 (164)
T 3sz7_A           19 NAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFDMADYKG   97 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccCHHH
Confidence            34445567778888777776654 234566666666777 888888888887765   3 46677777777888888888


Q ss_pred             HHHHHHHHHH
Q 045917           83 SIKLFDEMLK   92 (162)
Q Consensus        83 a~~~~~~m~~   92 (162)
                      |...|++..+
T Consensus        98 A~~~~~~al~  107 (164)
T 3sz7_A           98 AKEAYEKGIE  107 (164)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888887755

>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=97.77  E-value=0.00037  Score=43.79  Aligned_cols=95  Identities=11%  Similarity=-0.024  Sum_probs=78.0

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRM  143 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~  143 (162)
                      ...|..+-..+...|++++|...|++..+.. +.+...+..+...+...|++++|...+....+.. +.+...+..+-.+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3456777778889999999999999987642 2356667788888899999999999999988764 3457788889999


Q ss_pred             HHhcCChhHHHHhhccc
Q 045917          144 YAACKEIDFAKALFDEM  160 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~m  160 (162)
                      |...|++++|.+.|++.
T Consensus        91 ~~~~~~~~~A~~~~~~a  107 (166)
T 1a17_A           91 NMALGKFRAALRDYETV  107 (166)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHH
Confidence            99999999999998763

>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=97.76  E-value=0.00068  Score=40.89  Aligned_cols=92  Identities=15%  Similarity=-0.005  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      .|...=..+.+.|++++|...|++..+.. +.+...|..+-..+.+.|++++|...+....+.. +.+...|..+-.+|.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34445556667777777777777765532 2234556666677777777777777777776653 234566667777777


Q ss_pred             hcCChhHHHHhhcc
Q 045917          146 ACKEIDFAKALFDE  159 (162)
Q Consensus       146 ~~g~~~~a~~~~~~  159 (162)
                      ..|++++|.+.|++
T Consensus        84 ~~~~~~~A~~~~~~   97 (126)
T 3upv_A           84 AVKEYASALETLDA   97 (126)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHH
Confidence            77777777776654

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.74  E-value=0.002  Score=42.81  Aligned_cols=147  Identities=7%  Similarity=-0.091  Sum_probs=106.7

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhCCC----ChHHHHHHhhhhC--CChhHHHHHHHHHHc----C
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPI----SLHFTRSLFNNVM--PPLFAYNTLIRAYAK----T   77 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----~~~~a~~~~~~m~--~~~~~~~~li~~~~~----~   77 (162)
                      .++...++.++|...+....+.|   ++..+..|=..|..+    +.++|...|+...  -+...+..+=..|..    .
T Consensus        26 ~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~A~~~g~~~a~~~Lg~~y~~g~g~~  102 (212)
T 3rjv_A           26 DTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIRNPQQADYPQARQLAEKAVEAGSKSGEIVLARVLVNRQAGA  102 (212)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTSSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCGGGSS
T ss_pred             HHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCc
Confidence            34444578889999998887766   344455555555533    8999999999887  567777777777776    8


Q ss_pred             CCchHHHHHHHHHHHcCCC-CCCccHHHHHHHhhh----hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc-C---
Q 045917           78 SCSIESIKLFDEMLKTGLR-PDNLTYPFVVKASDQ----CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC-K---  148 (162)
Q Consensus        78 ~~~~~a~~~~~~m~~~~~~-p~~~t~~~li~~~~~----~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~-g---  148 (162)
                      +++++|...|++..+.|.. .+...+..|-..+..    .++.++|...+....+.  ..+...+..|=.+|... |   
T Consensus       103 ~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~  180 (212)
T 3rjv_A          103 TDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFI  180 (212)
T ss_dssp             CCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTB
T ss_pred             cCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCC
Confidence            8999999999998765432 014566677677766    67899999999888776  23455677777788764 3   


Q ss_pred             --ChhHHHHhhcc
Q 045917          149 --EIDFAKALFDE  159 (162)
Q Consensus       149 --~~~~a~~~~~~  159 (162)
                        +.++|.+.|++
T Consensus       181 ~~d~~~A~~~~~~  193 (212)
T 3rjv_A          181 EPNKQKALHWLNV  193 (212)
T ss_dssp             CCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence              89999988864

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.72  E-value=2.2e-05  Score=47.29  Aligned_cols=98  Identities=8%  Similarity=-0.101  Sum_probs=63.6

Q ss_pred             CCChHHHHHHhhhhC-C------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhh
Q 045917           47 PISLHFTRSLFNNVM-P------PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGG  119 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~-~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~  119 (162)
                      .|++++|...|+... .      +...|..+-..|...|++++|...|++..+..- -+...+..+-.++.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHH
Confidence            466777777777654 2      245677777788888999999999888766422 23556677778888888889888


Q ss_pred             HHHHHHHHHhc-CcchhHHHHHHHHHH
Q 045917          120 SVHSLIFKVGL-HSDKYIGNTLLRMYA  145 (162)
Q Consensus       120 ~i~~~~~~~~~-~~~~~~~~~ll~~y~  145 (162)
                      ..+....+... .|+...|...+..|.
T Consensus        82 ~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            88887766532 233444444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.72  E-value=0.00023  Score=43.17  Aligned_cols=85  Identities=11%  Similarity=-0.011  Sum_probs=41.9

Q ss_pred             HHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917           72 RAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      ..+.+.|++++|...|++..+.  .| +...|..+-..+...|+.++|...++...+... -+...+..+-.+|...|++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCH
Confidence            3444455555555555555432  12 333344444455555555555555555544421 2344455555555555555


Q ss_pred             hHHHHhhcc
Q 045917          151 DFAKALFDE  159 (162)
Q Consensus       151 ~~a~~~~~~  159 (162)
                      ++|.+.|++
T Consensus       102 ~~A~~~~~~  110 (121)
T 1hxi_A          102 NAALASLRA  110 (121)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.70  E-value=0.00073  Score=40.69  Aligned_cols=83  Identities=12%  Similarity=-0.074  Sum_probs=59.4

Q ss_pred             hhC-CCChHHHHHHhhhhC---CCh----hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC----CccHHHHHHHhhh
Q 045917           44 TSL-PISLHFTRSLFNNVM---PPL----FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD----NLTYPFVVKASDQ  111 (162)
Q Consensus        44 ~~~-~~~~~~a~~~~~~m~---~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~t~~~li~~~~~  111 (162)
                      .+. .|++++|...|+...   |+.    ..+..+-..+...|++++|...|++..+..  |+    ...+..+-..+..
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHH
Confidence            344 788888888888765   443    366667777788888888888888876542  33    2345566677778


Q ss_pred             hccchhhhHHHHHHHHH
Q 045917          112 CLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~  128 (162)
                      .|+.++|...++.+.+.
T Consensus        89 ~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            88888888888887765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.70  E-value=0.00075  Score=48.77  Aligned_cols=150  Identities=9%  Similarity=-0.009  Sum_probs=99.5

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhc--CC--C-chhHHHHHHHhhC-CCChHHHHHHhhhhC--------C-ChhHHHHHH
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTS--LD--H-NTYIISRFILTSL-PISLHFTRSLFNNVM--------P-PLFAYNTLI   71 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~--~~--~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--------~-~~~~~~~li   71 (162)
                      ..++...|+.++|.+.+....+..  ..  + ...++..+=..|. .|++++|...|++..        | ...++..+-
T Consensus       189 g~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  268 (378)
T 3q15_A          189 AGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLS  268 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHH
Confidence            344455578888888887765421  11  1 2345666666777 999999999888764        2 256677788


Q ss_pred             HHHHcCCCchHHHHHHHHHHHcCCCCCCcc----HHHHHHHhhhhcc---chhhhHHHHHHHHHhcCcc-hhHHHHHHHH
Q 045917           72 RAYAKTSCSIESIKLFDEMLKTGLRPDNLT----YPFVVKASDQCLL---IGVGGSVHSLIFKVGLHSD-KYIGNTLLRM  143 (162)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t----~~~li~~~~~~~~---~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~  143 (162)
                      ..|.+.|++++|...+++..+..-..+...    +..+-..+...++   +.+|...++.   .+..|+ ...+..+-..
T Consensus       269 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          269 WTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHH
Confidence            889999999999999999876533322222    3334444445555   4444444443   333233 3456778889


Q ss_pred             HHhcCChhHHHHhhcc
Q 045917          144 YAACKEIDFAKALFDE  159 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~  159 (162)
                      |.+.|++++|...|++
T Consensus       346 y~~~g~~~~A~~~~~~  361 (378)
T 3q15_A          346 FESSCHFEQAAAFYRK  361 (378)
T ss_dssp             HHHTTCHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHH
Confidence            9999999999998875

>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=97.69  E-value=0.00037  Score=48.61  Aligned_cols=86  Identities=7%  Similarity=-0.108  Sum_probs=70.3

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCc
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~   80 (162)
                      ....+...|+.++|...+....+.. +.++..+..+-..|. .|++++|...++...   | +...|..+-.+|...|++
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~   88 (281)
T 2c2l_A           10 QGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESY   88 (281)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            3445566789999999999887763 235677777888888 999999999999886   4 577888888999999999


Q ss_pred             hHHHHHHHHHHH
Q 045917           81 IESIKLFDEMLK   92 (162)
Q Consensus        81 ~~a~~~~~~m~~   92 (162)
                      ++|...|++..+
T Consensus        89 ~~A~~~~~~al~  100 (281)
T 2c2l_A           89 DEAIANLQRAYS  100 (281)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988754

>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=97.68  E-value=0.00096  Score=47.78  Aligned_cols=118  Identities=7%  Similarity=-0.108  Sum_probs=92.1

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCc--------------hhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHH
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHN--------------TYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAY   67 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~   67 (162)
                      -..+...|+.++|...|...........              ...+..+-..|. .|++++|...|+...    .+...|
T Consensus       154 g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~  233 (336)
T 1p5q_A          154 GTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGL  233 (336)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHH
Confidence            3445566789999999998877654332              477888888888 999999999999886    467888


Q ss_pred             HHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhh-HHHHHHH
Q 045917           68 NTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGG-SVHSLIF  126 (162)
Q Consensus        68 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~-~i~~~~~  126 (162)
                      ..+-.+|...|++++|...|++..+.  .| +...+..+-..+.+.|+.+++. .++..|.
T Consensus       234 ~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          234 SRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999998764  34 4456777778888888888884 4555543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.68  E-value=0.0009  Score=40.83  Aligned_cols=92  Identities=9%  Similarity=0.007  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      .|...=..|.+.|++++|++.|++..+.. +.+...|..+-.++.+.|++++|...+....+.. +.+...|..+-.+|.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            34444556777888888888888876532 2345566777788888888888888888877764 235677778888888


Q ss_pred             hcCChhHHHHhhcc
Q 045917          146 ACKEIDFAKALFDE  159 (162)
Q Consensus       146 ~~g~~~~a~~~~~~  159 (162)
                      ..|++++|.+.|++
T Consensus        93 ~~~~~~~A~~~~~~  106 (126)
T 4gco_A           93 AMREWSKAQRAYED  106 (126)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHH
Confidence            88888888887764

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=97.68  E-value=0.00011  Score=57.60  Aligned_cols=150  Identities=9%  Similarity=-0.100  Sum_probs=111.7

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCch
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~   81 (162)
                      ..++...|+.++|.+.++...+.. +-+...+..+=..|. .|++++|...|+...   | +...|..+-..|.+.|+++
T Consensus       440 a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~  518 (681)
T 2pzi_A          440 VRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTD  518 (681)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChH
Confidence            344556688999999998887654 234566777777777 999999999999876   4 5778888889999999999


Q ss_pred             HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCC--------hhHH
Q 045917           82 ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKE--------IDFA  153 (162)
Q Consensus        82 ~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~--------~~~a  153 (162)
                      + ...|++..+.. +-+...|..+-..+.+.|++++|...++...+.. +-+...+..+-.+|...|+        +++|
T Consensus       519 ~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A  595 (681)
T 2pzi_A          519 E-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPPTS-RHFTTARLTSAVTLLSGRSTSEVTEEQIRDA  595 (681)
T ss_dssp             T-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTS-TTHHHHHHHHHHHTC-------CCHHHHHHH
T ss_pred             H-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccC-cccHHHHHHHHHHHHccCCCCCCCHHHHHHH
Confidence            9 99999987642 1244567888899999999999999998876643 1235667777777766444        6677


Q ss_pred             HHhhccc
Q 045917          154 KALFDEM  160 (162)
Q Consensus       154 ~~~~~~m  160 (162)
                      .+.+.++
T Consensus       596 ~~~l~~~  602 (681)
T 2pzi_A          596 ARRVEAL  602 (681)
T ss_dssp             HHHHHTS
T ss_pred             HHHHhhC
Confidence            7766554

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=97.66  E-value=0.00069  Score=45.15  Aligned_cols=136  Identities=7%  Similarity=-0.105  Sum_probs=103.3

Q ss_pred             hhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--CChhHHHHHHHHHHcCC----CchHHHHHHHH
Q 045917           17 HHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--PPLFAYNTLIRAYAKTS----CSIESIKLFDE   89 (162)
Q Consensus        17 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~~~~~~~~li~~~~~~~----~~~~a~~~~~~   89 (162)
                      .+|.+.+......|   ++..+..|=..|. .+++++|...|+...  -+...+..+=..|.. +    +.++|...|++
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~   78 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEK   78 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHH
Confidence            35666777766654   5666777777777 999999999999887  566677777666776 6    89999999999


Q ss_pred             HHHcCCCCCCccHHHHHHHhhh----hccchhhhHHHHHHHHHhcC-cchhHHHHHHHHHHh----cCChhHHHHhhcc
Q 045917           90 MLKTGLRPDNLTYPFVVKASDQ----CLLIGVGGSVHSLIFKVGLH-SDKYIGNTLLRMYAA----CKEIDFAKALFDE  159 (162)
Q Consensus        90 m~~~~~~p~~~t~~~li~~~~~----~~~~~~a~~i~~~~~~~~~~-~~~~~~~~ll~~y~~----~g~~~~a~~~~~~  159 (162)
                      ..+.|   +...+..|-..+..    .++.++|...+....+.|.. .+...+..|=.+|..    .++.++|.+.|++
T Consensus        79 A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           79 AVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            87764   45566666666665    67899999998888776532 126778888888888    8899999998865

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.66  E-value=0.0006  Score=42.28  Aligned_cols=92  Identities=10%  Similarity=-0.099  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      .+..+-..+.+.|++++|...|++..... +.+...|..+-..+.+.|++++|...+....+.. +.+...+..+-.+|.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            34444555666777777777777765432 1234445556666667777777777777766653 234566666667777


Q ss_pred             hcCChhHHHHhhcc
Q 045917          146 ACKEIDFAKALFDE  159 (162)
Q Consensus       146 ~~g~~~~a~~~~~~  159 (162)
                      ..|++++|.+.|++
T Consensus        98 ~~g~~~~A~~~~~~  111 (142)
T 2xcb_A           98 QLGDLDGAESGFYS  111 (142)
T ss_dssp             HTTCHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHH
Confidence            77777777776654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.66  E-value=0.00099  Score=46.47  Aligned_cols=121  Identities=9%  Similarity=-0.085  Sum_probs=87.4

Q ss_pred             HHHHHhhC-CCChHHHHHHhhhhC---CC-------hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCC-CC----CccH
Q 045917           39 SRFILTSL-PISLHFTRSLFNNVM---PP-------LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLR-PD----NLTY  102 (162)
Q Consensus        39 ~~ll~~~~-~~~~~~a~~~~~~m~---~~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~t~  102 (162)
                      ...+..+. .|++++|...++...   +.       ...+..+-..+...|++++|...+++..+.... .+    ..++
T Consensus        79 ~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 2qfc_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHH
Confidence            34455666 999999999887553   21       122333555567789999999999998653222 12    2367


Q ss_pred             HHHHHHhhhhccchhhhHHHHHHHHH-hcCcc-----hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          103 PFVVKASDQCLLIGVGGSVHSLIFKV-GLHSD-----KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       103 ~~li~~~~~~~~~~~a~~i~~~~~~~-~~~~~-----~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +.+-..+...|++++|...+....+. ...|+     ..++..+-..|.+.|++++|...+++
T Consensus       159 ~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~k  221 (293)
T 2qfc_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNK  221 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            77888899999999999999887632 11222     25888899999999999999998875

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=97.65  E-value=0.0018  Score=54.61  Aligned_cols=135  Identities=14%  Similarity=0.068  Sum_probs=99.3

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhCCCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      +..++...|..++|..+|+...     ......+.++..  .+++++|.++.++.. +..+|..+=.++.+.|++++|.+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie~--i~nldrAiE~Aervn-~p~vWsqLAKAql~~G~~kEAId 1126 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIEH--IGNLDRAYEFAERCN-EPAVWSQLAKAQLQKGMVKEAID 1126 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHHH--HhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCHHHHHH
Confidence            3455556678888888888852     122222333221  789999999988665 45688899999999999999999


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHh
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKAL  156 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~  156 (162)
                      -|.+-      -|...|..++.+|.+.|+++++.+.+....+..  ++....+.+..+|++.+++++....
T Consensus      1127 sYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~f 1189 (1630)
T 1xi4_A         1127 SYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEF 1189 (1630)
T ss_pred             HHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHH
Confidence            99653      567778889999999999999999998777654  3444445588888888887765544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.63  E-value=9.8e-05  Score=43.37  Aligned_cols=95  Identities=12%  Similarity=0.044  Sum_probs=62.2

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcc-------hhH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSD-------KYI  136 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~-------~~~  136 (162)
                      ...|..+-..+...|++++|.+.|++..+.. +.+...+..+-..+.+.|++++|...+....+..  |+       ...
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~   80 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHHHH
Confidence            3455566667777778888888777765532 1244556666677777778888877777766542  33       445


Q ss_pred             HHHHHHHHHhcCChhHHHHhhcccC
Q 045917          137 GNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       137 ~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      +..+-.++...|+.+.|.+.|++++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~~~~  105 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVDELP  105 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSSSCS
T ss_pred             HHHHHHHHHHHHhHhhhHhHHHHhH
Confidence            5566667777777777777776654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.57  E-value=0.00053  Score=51.26  Aligned_cols=118  Identities=11%  Similarity=-0.019  Sum_probs=93.3

Q ss_pred             hHHHHHHHhhC-CCChHHHHHHhhhhC---CC----------------hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCC
Q 045917           36 YIISRFILTSL-PISLHFTRSLFNNVM---PP----------------LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGL   95 (162)
Q Consensus        36 ~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~----------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   95 (162)
                      ..+..+=..+. .|++++|...|+...   |+                ...|..+-.+|.+.|++++|+..|++..+.. 
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  347 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-  347 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            44555666677 999999999999876   44                4788889999999999999999999987643 


Q ss_pred             CCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHH
Q 045917           96 RPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus        96 ~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      +.+...|..+-.++...|++++|...+....+.. +-+...+..+-.++.+.|+.++|.+
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~  406 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDR  406 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            2356667788889999999999999999887753 2356788888889999998887764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.56  E-value=0.003  Score=47.32  Aligned_cols=137  Identities=12%  Similarity=-0.079  Sum_probs=80.1

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-C-----CChHHHHHHhhhhC--CChhHHHHHHHHHHcCC---CchH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-P-----ISLHFTRSLFNNVM--PPLFAYNTLIRAYAKTS---CSIE   82 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~-----~~~~~a~~~~~~m~--~~~~~~~~li~~~~~~~---~~~~   82 (162)
                      ++.++|...++.....|   ++..+..+-..|. .     ++.++|...|+...  .+...+..+-..|...|   +.++
T Consensus       273 ~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~~g~~~~~~~  349 (490)
T 2xm6_A          273 KEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQGDATAQANLGAIYFRLGSEEEHKK  349 (490)
T ss_dssp             CCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCcccHHH
Confidence            34555555555554443   2233333333333 3     67777777776655  34445555555555444   6667


Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhh----hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh----cCChhHHH
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQ----CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA----CKEIDFAK  154 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~----~g~~~~a~  154 (162)
                      |.+.|++..+.|   +...+..+-..+..    .++.++|...+....+.|   +...+..|-.+|.+    .++.++|.
T Consensus       350 A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~  423 (490)
T 2xm6_A          350 AVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAW  423 (490)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHH
Confidence            777777766552   44455555555555    567777777777766654   34566666677776    67777777


Q ss_pred             Hhhcc
Q 045917          155 ALFDE  159 (162)
Q Consensus       155 ~~~~~  159 (162)
                      +.|++
T Consensus       424 ~~~~~  428 (490)
T 2xm6_A          424 AWFDT  428 (490)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=97.56  E-value=0.00062  Score=53.53  Aligned_cols=156  Identities=11%  Similarity=-0.045  Sum_probs=110.7

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhc---------CCC------------chhHHHHHHHhhC-CCChHHHHHHhhhhC-
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTS---------LDH------------NTYIISRFILTSL-PISLHFTRSLFNNVM-   61 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~---------~~~------------~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-   61 (162)
                      .++.+....|+.+.|+++|+.+....         ..|            .+.+|...++... .|.++.|..+|+... 
T Consensus       383 ~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~  462 (679)
T 4e6h_A          383 SLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRR  462 (679)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555566788899999998887642         113            2346777777766 888999999999875 


Q ss_pred             C-C---hhHHHHHHHHHHcC-CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcC--cch
Q 045917           62 P-P---LFAYNTLIRAYAKT-SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH--SDK  134 (162)
Q Consensus        62 ~-~---~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~--~~~  134 (162)
                      . +   ...|-.....-.+. ++.+.|..+|....+. ..-+..-|...++.....|+.+.|+.+|+........  -..
T Consensus       463 ~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~  541 (679)
T 4e6h_A          463 LKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLK  541 (679)
T ss_dssp             TGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHH
T ss_pred             hcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHH
Confidence            1 2   22332222222233 5699999999998765 3334444567888888889999999999988776432  246


Q ss_pred             hHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917          135 YIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       135 ~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      ..|...++.-.+.|+.+.+.++.+++.
T Consensus       542 ~lw~~~~~fE~~~G~~~~~~~v~~R~~  568 (679)
T 4e6h_A          542 MIFQKVIFFESKVGSLNSVRTLEKRFF  568 (679)
T ss_dssp             HHHHHHHHHHHHTCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            788899999999999999999988764

>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=97.56  E-value=0.0009  Score=40.83  Aligned_cols=88  Identities=13%  Similarity=0.030  Sum_probs=44.2

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhc--Ccc----hhHHHHHH
Q 045917           69 TLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL--HSD----KYIGNTLL  141 (162)
Q Consensus        69 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~--~~~----~~~~~~ll  141 (162)
                      .+=..+.+.|++++|++.|++..+.  .| +...|..+-..+.+.|++++|...+....+...  .++    ..+|..+=
T Consensus        13 ~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           13 DLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            3334455556666666666655442  22 233445555555666666666665555544321  111    12344444


Q ss_pred             HHHHhcCChhHHHHhhc
Q 045917          142 RMYAACKEIDFAKALFD  158 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~  158 (162)
                      .+|.+.|++++|.+.|+
T Consensus        91 ~~~~~~~~~~~A~~~~~  107 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFH  107 (127)
T ss_dssp             HHHHHTTCHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHH
Confidence            55556666666666554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.55  E-value=0.00029  Score=49.44  Aligned_cols=116  Identities=9%  Similarity=-0.148  Sum_probs=78.4

Q ss_pred             hhC-CCChHHHHHHhhhhC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC--CccHHHHHHHhhhhccchh
Q 045917           44 TSL-PISLHFTRSLFNNVM---PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD--NLTYPFVVKASDQCLLIGV  117 (162)
Q Consensus        44 ~~~-~~~~~~a~~~~~~m~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~t~~~li~~~~~~~~~~~  117 (162)
                      .+. .|++++|..+|+...   |+....-.+-..+.+.+++++|+..|+...... .|.  ...+..+=.++...|++++
T Consensus       111 ~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~~~e  189 (282)
T 4f3v_A          111 CEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLALFTE  189 (282)
T ss_dssp             HHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCCHHH
Confidence            344 789999999998886   543344444457777889999998887443221 111  2245566677888889999


Q ss_pred             hhHHHHHHHHHhcCcc--hhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          118 GGSVHSLIFKVGLHSD--KYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       118 a~~i~~~~~~~~~~~~--~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      |...++........|.  .......-.++.+.|+.++|..+|+++
T Consensus       190 Al~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a  234 (282)
T 4f3v_A          190 AERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWL  234 (282)
T ss_dssp             HHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9888888764332143  335566667788899999999888764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.53  E-value=0.0013  Score=44.02  Aligned_cols=116  Identities=12%  Similarity=-0.011  Sum_probs=82.1

Q ss_pred             HHHhhC-CCChHHHHHHhhhhC---CCh----hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc----cHHHHHHH
Q 045917           41 FILTSL-PISLHFTRSLFNNVM---PPL----FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL----TYPFVVKA  108 (162)
Q Consensus        41 ll~~~~-~~~~~~a~~~~~~m~---~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----t~~~li~~  108 (162)
                      +-..+. .|++++|...|+.+.   |+.    ..+..+-.+|.+.|++++|...|++..+.  .|+..    .+..+-.+
T Consensus        10 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~~g~~   87 (225)
T 2yhc_A           10 TAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYMRGLT   87 (225)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHHHHHH
Confidence            334455 899999999999886   542    46777788999999999999999998764  24433    23223333


Q ss_pred             hh------------------hhccchhhhHHHHHHHHHhcCcc-hhHH-----------------HHHHHHHHhcCChhH
Q 045917          109 SD------------------QCLLIGVGGSVHSLIFKVGLHSD-KYIG-----------------NTLLRMYAACKEIDF  152 (162)
Q Consensus       109 ~~------------------~~~~~~~a~~i~~~~~~~~~~~~-~~~~-----------------~~ll~~y~~~g~~~~  152 (162)
                      +.                  ..|+.++|...+..+.+..  |+ ...+                 -.+-..|.+.|++++
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~  165 (225)
T 2yhc_A           88 NMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVA  165 (225)
T ss_dssp             HHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHH
Confidence            32                  2578899999998887652  33 3332                 234557889999999


Q ss_pred             HHHhhccc
Q 045917          153 AKALFDEM  160 (162)
Q Consensus       153 a~~~~~~m  160 (162)
                      |...|++.
T Consensus       166 A~~~~~~~  173 (225)
T 2yhc_A          166 VVNRVEGM  173 (225)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988764

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.46  E-value=0.0071  Score=45.24  Aligned_cols=77  Identities=6%  Similarity=-0.073  Sum_probs=32.0

Q ss_pred             CChHHHHHHhhhhC--CChhHHHHHHHHHHc----CCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh----hccchh
Q 045917           48 ISLHFTRSLFNNVM--PPLFAYNTLIRAYAK----TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ----CLLIGV  117 (162)
Q Consensus        48 ~~~~~a~~~~~~m~--~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~~~~~~  117 (162)
                      ++.++|...|+...  -+...+..+=..|..    .++.++|.+.|++..+.|   +...+..+-..+..    .++.++
T Consensus       129 ~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~  205 (490)
T 2xm6_A          129 VDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAI  205 (490)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHH
Confidence            34445555444443  233333333333333    344455555554444332   23333333333333    344444


Q ss_pred             hhHHHHHHHH
Q 045917          118 GGSVHSLIFK  127 (162)
Q Consensus       118 a~~i~~~~~~  127 (162)
                      |...+....+
T Consensus       206 A~~~~~~a~~  215 (490)
T 2xm6_A          206 SAQWYRKSAT  215 (490)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.45  E-value=0.0016  Score=43.18  Aligned_cols=100  Identities=14%  Similarity=0.006  Sum_probs=79.9

Q ss_pred             CCChHHHHHHhhhhC---CC-hhHHHH----------------HHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHH
Q 045917           47 PISLHFTRSLFNNVM---PP-LFAYNT----------------LIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFV  105 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~~-~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~l  105 (162)
                      .|++++|...|+...   |+ ...|..                +-..|.+.|++++|...|++..+.  .| +...+..+
T Consensus        17 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l   94 (208)
T 3urz_A           17 AGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--APNNVDCLEAC   94 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHH
Confidence            899999999999876   43 444555                777889999999999999998764  34 45667888


Q ss_pred             HHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCC
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~  149 (162)
                      -..+...|++++|...++...+.. +-+...+..+-.+|...|+
T Consensus        95 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           95 AEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            899999999999999999998864 2357778777777765554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.44  E-value=0.002  Score=47.07  Aligned_cols=150  Identities=7%  Similarity=-0.106  Sum_probs=105.1

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCC-c---------------hhHHHHHHHhhC-CCChHHHHHHhhhhC------CCh--
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDH-N---------------TYIISRFILTSL-PISLHFTRSLFNNVM------PPL--   64 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~-~---------------~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~~--   64 (162)
                      +...|+.++|.+.+..+.+..... +               ...+..|...|. .|++++|...+....      ++.  
T Consensus        14 l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~   93 (434)
T 4b4t_Q           14 LVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKT   93 (434)
T ss_dssp             HHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHH
Confidence            455678999999998887644322 1               123677888888 999999999998775      221  


Q ss_pred             --hHHHHHHHHHHcCCCchHHHHHHHHHHH----cCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcC----c-
Q 045917           65 --FAYNTLIRAYAKTSCSIESIKLFDEMLK----TGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH----S-  132 (162)
Q Consensus        65 --~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~----~-  132 (162)
                        ...+.+=..+...|+.+.+..++++...    .+..+. ..++..+...+...|++++|..++..+...-..    + 
T Consensus        94 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~  173 (434)
T 4b4t_Q           94 VKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPS  173 (434)
T ss_dssp             HHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchh
Confidence              1222222333346899999999988643    233332 235567888899999999999999887653221    1 


Q ss_pred             chhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          133 DKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       133 ~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ...++..+...|...|++++|...+++
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~A~~~~~~  200 (434)
T 4b4t_Q          174 LVDVHLLESKVYHKLRNLAKSKASLTA  200 (434)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            245788899999999999999988764

>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=97.42  E-value=0.00095  Score=46.52  Aligned_cols=94  Identities=6%  Similarity=-0.041  Sum_probs=75.2

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVK  107 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~  107 (162)
                      +...+..+-..+. .|++++|...|+...   | +...|..+-..|.+.|++++|...+++..+.  .| +...+..+-.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            3445566666777 999999999999876   4 6788888889999999999999999988653  34 4456777788


Q ss_pred             HhhhhccchhhhHHHHHHHHHh
Q 045917          108 ASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      ++...|++++|...+....+..
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~  102 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLA  102 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            8899999999999998877654

>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=97.40  E-value=0.0027  Score=38.66  Aligned_cols=100  Identities=10%  Similarity=0.092  Sum_probs=69.0

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcC--CCCC----CccHHHHH
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTG--LRPD----NLTYPFVV  106 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~t~~~li  106 (162)
                      +..+=..+. .|++++|...|+...   | +...|+.+=..|.+.|++++|++.|++..+..  ..++    ..+|..+-
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            444555666 899999999998765   4 46778888888889999999999998875431  1111    12344555


Q ss_pred             HHhhhhccchhhhHHHHHHHHHhcCcchhHHHH
Q 045917          107 KASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNT  139 (162)
Q Consensus       107 ~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~  139 (162)
                      ..+...|++++|.+.+....+.  .||..+...
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  121 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLSE--FRDPELVKK  121 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHH
Confidence            6667778888888888877654  456554433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.39  E-value=0.00067  Score=42.02  Aligned_cols=123  Identities=7%  Similarity=-0.093  Sum_probs=87.1

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCC-Cc----hhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLD-HN----TYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNT   69 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~   69 (162)
                      +...+...|++++|...+......... ++    ..++..+-..+. .|++++|...++...      ++    ...+..
T Consensus        15 l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   94 (164)
T 3ro3_A           15 LGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYS   94 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence            444555668888998888776543211 11    245666677777 999999999999865      12    456777


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHc----CCC-CCCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLKT----GLR-PDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      +-..+...|++++|.+.+++..+.    +-. .....+..+-..+...|+.++|...+....+.
T Consensus        95 l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           95 LGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            888888999999999999987543    111 11345666778888899999999988876653

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.39  E-value=0.0049  Score=36.89  Aligned_cols=81  Identities=10%  Similarity=0.032  Sum_probs=39.5

Q ss_pred             HhhchhhhcchhHHHHHhcCCCc--hhHHHHHHHhhC-CCChHHHHHHhhhhC---CC----hhHHHHHHHHHHcCCCch
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHN--TYIISRFILTSL-PISLHFTRSLFNNVM---PP----LFAYNTLIRAYAKTSCSI   81 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~----~~~~~~li~~~~~~~~~~   81 (162)
                      ..|+.++|...+....+......  +..+..+-..+. .|++++|...|+...   |+    ...+..+-..+...|+++
T Consensus        14 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~~   93 (129)
T 2xev_A           14 KNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNT   93 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHH
T ss_pred             HhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHcCCHH
Confidence            34555555555555544321111  123333444444 566666666555543   32    333444455555556666


Q ss_pred             HHHHHHHHHHH
Q 045917           82 ESIKLFDEMLK   92 (162)
Q Consensus        82 ~a~~~~~~m~~   92 (162)
                      +|...|++..+
T Consensus        94 ~A~~~~~~~~~  104 (129)
T 2xev_A           94 EAQQTLQQVAT  104 (129)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666655544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.38  E-value=0.00063  Score=48.81  Aligned_cols=122  Identities=11%  Similarity=-0.049  Sum_probs=71.0

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC---CChh------------------HHHHHHHHHHcCCCchHHHHHHHHHHHcC
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM---PPLF------------------AYNTLIRAYAKTSCSIESIKLFDEMLKTG   94 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~---~~~~------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (162)
                      .+..+=..+. .|++++|...|+...   |+..                  .|..+-.+|.+.|++++|...+++..+..
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  260 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE  260 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3555556677 999999999999865   5433                  78888888999999999999999987642


Q ss_pred             CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHH-HHhcCChhHHHHhhccc
Q 045917           95 LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRM-YAACKEIDFAKALFDEM  160 (162)
Q Consensus        95 ~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~-y~~~g~~~~a~~~~~~m  160 (162)
                       +.+...+..+-.++...|++++|...+....+.. +-+...+..|-.. ....+..+.+.+.|.+|
T Consensus       261 -p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~  325 (338)
T 2if4_A          261 -EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGI  325 (338)
T ss_dssp             -TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------------
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence             2345677888889999999999999988876542 1234555555555 33456677777777665

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.37  E-value=0.0017  Score=45.51  Aligned_cols=131  Identities=6%  Similarity=-0.145  Sum_probs=93.9

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCch-hHHHHHHHhhC-CCChHHHHHHhhhhC--CCh----hHHHHHHHHHHc
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNT-YIISRFILTSL-PISLHFTRSLFNNVM--PPL----FAYNTLIRAYAK   76 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~ll~~~~-~~~~~~a~~~~~~m~--~~~----~~~~~li~~~~~   76 (162)
                      .+..++...|+.++|.++++.+...+  |+. ..|+.-+ .+. .+++++|...|+...  |+.    ..+-.+=.++..
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~-l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAV-VYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHH-HHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHH-HHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHH
Confidence            46778888899999999998886644  332 3333332 444 999999999999776  433    245556667888


Q ss_pred             CCCchHHHHHHHHHHHcCCCCCC--ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHH
Q 045917           77 TSCSIESIKLFDEMLKTGLRPDN--LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTL  140 (162)
Q Consensus        77 ~~~~~~a~~~~~~m~~~~~~p~~--~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~l  140 (162)
                      .|++++|++.|++-......|..  ......-.++.+.|+.++|..+++.+....  |+...+..|
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~~~~~aL  247 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEPKVAAAL  247 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHH
Confidence            99999999999998754443542  234455667778999999999999998874  444444333

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.32  E-value=0.00032  Score=42.02  Aligned_cols=81  Identities=6%  Similarity=-0.104  Sum_probs=63.3

Q ss_pred             hhchhhhcchhHHHHHhcC--CCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHH
Q 045917           13 SKTAHHHHQLPALFLKTSL--DHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      .|+.++|...+....+.+.  +.++..+..+-..|. .|++++|...|+...   | +...+..+-.++.+.|++++|..
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            4678899999988877642  234566777777788 999999999999886   4 57788888899999999999999


Q ss_pred             HHHHHHHc
Q 045917           86 LFDEMLKT   93 (162)
Q Consensus        86 ~~~~m~~~   93 (162)
                      .|++..+.
T Consensus        83 ~~~~al~~   90 (117)
T 3k9i_A           83 LLLKIIAE   90 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99997653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.28  E-value=0.0042  Score=39.14  Aligned_cols=90  Identities=10%  Similarity=0.045  Sum_probs=64.3

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC-C---------------------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcC
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM-P---------------------PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTG   94 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~-~---------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   94 (162)
                      +...=..+. .|++++|...|.... .                     +...|..+-.+|.+.|++++|+..+++..+..
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~   93 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE   93 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Confidence            444445556 888888888887653 1                     12467777778888888888888888876642


Q ss_pred             CCCCCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           95 LRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        95 ~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                       +.+...|..+-.++...|++++|...+....+.
T Consensus        94 -p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           94 -ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence             224556677777888888888888888887765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.27  E-value=0.0047  Score=45.56  Aligned_cols=46  Identities=11%  Similarity=0.081  Sum_probs=31.9

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      .++.++|...+++..    .+...+..+-..|...|++++|...|++..+
T Consensus       226 ~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  275 (472)
T 4g1t_A          226 GEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALE  275 (472)
T ss_dssp             ----CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence            567778888877654    4566777788888888888888888877654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.24  E-value=0.0065  Score=44.31  Aligned_cols=154  Identities=10%  Similarity=-0.048  Sum_probs=105.5

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhc-CCCch---hHHHHHHHhhC--CCChHHHHHHhhhhC----------CChhHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTS-LDHNT---YIISRFILTSL--PISLHFTRSLFNNVM----------PPLFAYNT   69 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~-~~~~~---~~~~~ll~~~~--~~~~~~a~~~~~~m~----------~~~~~~~~   69 (162)
                      +..++...|+.++|.+.+....... ..++.   ......+..+.  .|+.+.+..+++...          .-..++..
T Consensus        61 l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (434)
T 4b4t_Q           61 LGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIK  140 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHH
Confidence            4556667788889988887765422 22222   22333444444  899999999988764          12456778


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHcCCCCC-----CccHHHHHHHhhhhccchhhhHHHHHHHHHh--cC-c-c--hhHHH
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLKTGLRPD-----NLTYPFVVKASDQCLLIGVGGSVHSLIFKVG--LH-S-D--KYIGN  138 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~--~~-~-~--~~~~~  138 (162)
                      +-..|...|++.+|..++++....-...+     ...+..+...|...|++.+|..++.......  +. | .  ...+.
T Consensus       141 la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  220 (434)
T 4b4t_Q          141 LATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDL  220 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             HHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHH
Confidence            88999999999999999999754322222     2356777889999999999999998875532  21 1 1  24456


Q ss_pred             HHHHHHHhcCChhHHHHhhcc
Q 045917          139 TLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       139 ~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+-..|...|++++|.+.|.+
T Consensus       221 ~~g~~~~~~~~y~~A~~~~~~  241 (434)
T 4b4t_Q          221 MSGILHCEDKDYKTAFSYFFE  241 (434)
T ss_dssp             HHHHHTTSSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHH
Confidence            666677789999999877643

>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=97.16  E-value=0.0021  Score=48.31  Aligned_cols=109  Identities=6%  Similarity=-0.030  Sum_probs=81.8

Q ss_pred             HhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      ..|+.++|.+.++...+.. +.+...+..+-..|. .|++++|...+++..    .+...|..+-..|.+.|++++|.+.
T Consensus        18 ~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~   96 (477)
T 1wao_1           18 KAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALRD   96 (477)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3467888999998887663 334677888888888 999999999999886    4577888899999999999999999


Q ss_pred             HHHHHHcCCCCC-CccHHHHHHH--hhhhccchhhhHHHH
Q 045917           87 FDEMLKTGLRPD-NLTYPFVVKA--SDQCLLIGVGGSVHS  123 (162)
Q Consensus        87 ~~~m~~~~~~p~-~~t~~~li~~--~~~~~~~~~a~~i~~  123 (162)
                      |++..+.  .|+ ...+..+-.+  +.+.|++++|.+.++
T Consensus        97 ~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           97 YETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9998764  343 3344445444  777899999998877

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.15  E-value=0.00034  Score=52.95  Aligned_cols=115  Identities=10%  Similarity=0.011  Sum_probs=87.0

Q ss_pred             CCChHHHHHHhhhhC-----------C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHH---cCCCCC----CccHHHHHH
Q 045917           47 PISLHFTRSLFNNVM-----------P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLK---TGLRPD----NLTYPFVVK  107 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~-----------~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~p~----~~t~~~li~  107 (162)
                      .|++++|+.++++.-           | ...+++.+...|...|++++|..++++..+   .-+.|+    ..+++.|-.
T Consensus       322 qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  401 (490)
T 3n71_A          322 EGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGL  401 (490)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            899999999887653           2 356799999999999999999999998643   223333    345778888


Q ss_pred             HhhhhccchhhhHHHHHHHH-----Hhc-Ccc-hhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917          108 ASDQCLLIGVGGSVHSLIFK-----VGL-HSD-KYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~~-----~~~-~~~-~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      .|...|++++|+.++++...     .|- .|+ ..+.+.|-.++...|.+.+|+.++.+++
T Consensus       402 ~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          402 TNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999877643     232 233 3345566678888999999999988764

>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=97.09  E-value=0.0064  Score=44.19  Aligned_cols=116  Identities=12%  Similarity=-0.012  Sum_probs=92.1

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC--------------------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCC
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM--------------------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLR   96 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~--------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   96 (162)
                      +..+=..+. .|++++|...|+...                    .+...|..+-.+|.+.|++++|.+.+++..+.  .
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~  303 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--D  303 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--C
Confidence            455555666 899999999888653                    23567888888999999999999999998764  3


Q ss_pred             C-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHh
Q 045917           97 P-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKAL  156 (162)
Q Consensus        97 p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~  156 (162)
                      | +...+..+-.++...|++++|...++...+.. +-+...+..+-.++.+.++.+++.+.
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4 45667778889999999999999999988764 23577788888888889988888765

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=97.04  E-value=0.026  Score=41.98  Aligned_cols=117  Identities=6%  Similarity=-0.082  Sum_probs=64.3

Q ss_pred             hhHHHHHHHhhC-CC---ChHHHHHHhhhhC----CChhHHHHHHHHHHcC----CCchHHHHHHHHHHHcCCCCCCccH
Q 045917           35 TYIISRFILTSL-PI---SLHFTRSLFNNVM----PPLFAYNTLIRAYAKT----SCSIESIKLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~---~~~~a~~~~~~m~----~~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~t~  102 (162)
                      +..+..|-..|. .|   +.++|...|+...    ++...+..+-..|...    ++.++|...|++.. .   -+...+
T Consensus       176 ~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~  251 (452)
T 3e4b_A          176 DICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASW  251 (452)
T ss_dssp             TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHH
T ss_pred             HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHH
Confidence            335555555565 66   6666666666554    3333334444444333    56777777777665 2   233334


Q ss_pred             HHHHHH-h--hhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcC-----ChhHHHHhhcc
Q 045917          103 PFVVKA-S--DQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACK-----EIDFAKALFDE  159 (162)
Q Consensus       103 ~~li~~-~--~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g-----~~~~a~~~~~~  159 (162)
                      ..+-.. +  ...++.++|...+....+.|   +...+..|=..|. .|     ++++|.+.|++
T Consensus       252 ~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~  312 (452)
T 3e4b_A          252 VSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEK  312 (452)
T ss_dssp             HHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHH
Confidence            444333 2  34566777777776666655   3445555555555 44     67777766653

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.01  E-value=0.0037  Score=44.76  Aligned_cols=94  Identities=7%  Similarity=-0.078  Sum_probs=76.9

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc------------------cHHHHHHHhhhhccchhhhHHHHHH
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL------------------TYPFVVKASDQCLLIGVGGSVHSLI  125 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------------------t~~~li~~~~~~~~~~~a~~i~~~~  125 (162)
                      ...|..+=..+.+.|++++|...|++..+.  .|+..                  .|..+-..+.+.|++++|...+...
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445666777788899999999999997653  24432                  6778888899999999999999998


Q ss_pred             HHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          126 FKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       126 ~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      .+.. +.+...|..+-.+|...|++++|.+.|++.
T Consensus       257 l~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~a  290 (338)
T 2if4_A          257 LTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKA  290 (338)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8764 346788999999999999999999998764

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.00  E-value=0.0051  Score=45.96  Aligned_cols=95  Identities=6%  Similarity=-0.078  Sum_probs=79.6

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC----------------CccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD----------------NLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----------------~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      ....|...=..|.+.|++++|...|++..+.  .|+                ...|..+-.++.+.|++++|...+....
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  344 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKAL  344 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            3556777888899999999999999998763  233                3678888899999999999999999998


Q ss_pred             HHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          127 KVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       127 ~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +.. +.+...|..+-.+|...|++++|...|++.
T Consensus       345 ~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~a  377 (457)
T 1kt0_A          345 GLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKV  377 (457)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            864 346788889999999999999999998753

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.98  E-value=0.0036  Score=36.99  Aligned_cols=96  Identities=8%  Similarity=0.004  Sum_probs=67.0

Q ss_pred             HHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           52 FTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        52 ~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      .|...|+...    .+...|..+-..|...|++++|...|++..+.. +.+...|..+-..+...|+.++|...+....+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555543    457788888888999999999999999987643 22355677788888999999999999988766


Q ss_pred             Hhc-CcchhHHHHHHHHHHhcC
Q 045917          128 VGL-HSDKYIGNTLLRMYAACK  148 (162)
Q Consensus       128 ~~~-~~~~~~~~~ll~~y~~~g  148 (162)
                      ... ..+......+...+.+.|
T Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~  103 (115)
T 2kat_A           82 AAQSRGDQQVVKELQVFLRRLA  103 (115)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHH
T ss_pred             hccccccHHHHHHHHHHHHHhc
Confidence            432 234445555555444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.98  E-value=0.0063  Score=36.65  Aligned_cols=86  Identities=14%  Similarity=-0.032  Sum_probs=68.6

Q ss_pred             HHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhcc
Q 045917           41 FILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLL  114 (162)
Q Consensus        41 ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~  114 (162)
                      +-..+. .|++++|...|+...   | +...|..+=..+...|++++|...|++..+.  .| +...+..+-..+...|+
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            334455 899999999999886   4 6777888888899999999999999988764  34 44567778888899999


Q ss_pred             chhhhHHHHHHHHH
Q 045917          115 IGVGGSVHSLIFKV  128 (162)
Q Consensus       115 ~~~a~~i~~~~~~~  128 (162)
                      +++|...++...+.
T Consensus       101 ~~~A~~~~~~al~~  114 (121)
T 1hxi_A          101 ANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999998887654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.95  E-value=0.0091  Score=33.21  Aligned_cols=80  Identities=13%  Similarity=-0.016  Sum_probs=48.2

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHH
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMY  144 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y  144 (162)
                      ..|..+-..+...|++++|...|++..+.. +.+...+..+-..+.+.|++++|...+....+.. +.+...+..+-.+|
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555566667777777777777765532 1234455666667777777777777777766643 22344555554444


Q ss_pred             Hh
Q 045917          145 AA  146 (162)
Q Consensus       145 ~~  146 (162)
                      .+
T Consensus        88 ~~   89 (91)
T 1na3_A           88 QK   89 (91)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=96.94  E-value=0.015  Score=42.91  Aligned_cols=144  Identities=9%  Similarity=-0.077  Sum_probs=93.7

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHc------------
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAK------------   76 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~------------   76 (162)
                      ++.++|.+.++...... +.++..+..+-..|. .|+.++|...|+...   |+ ..+|..+-..|..            
T Consensus       227 ~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~  305 (472)
T 4g1t_A          227 EEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENG  305 (472)
T ss_dssp             ---CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             hHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            35567777777765543 345566777888888 999999999999876   54 4445544333322            


Q ss_pred             -------CCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchh--HHHHHHH-HHHh
Q 045917           77 -------TSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKY--IGNTLLR-MYAA  146 (162)
Q Consensus        77 -------~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~--~~~~ll~-~y~~  146 (162)
                             .+..++|...|++..... +.+..++..+-..+...|++++|...+....+....+...  .+..+-. .+..
T Consensus       306 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~  384 (472)
T 4g1t_A          306 MYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQ  384 (472)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHH
Confidence                   123456677777665432 3456678888999999999999999999887754332211  1222222 2346


Q ss_pred             cCChhHHHHhhcc
Q 045917          147 CKEIDFAKALFDE  159 (162)
Q Consensus       147 ~g~~~~a~~~~~~  159 (162)
                      .|+.++|...|.+
T Consensus       385 ~~~~~~Ai~~y~k  397 (472)
T 4g1t_A          385 MKCEDKAIHHFIE  397 (472)
T ss_dssp             SSCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            7899999887754

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.90  E-value=0.0047  Score=46.73  Aligned_cols=119  Identities=5%  Similarity=-0.125  Sum_probs=86.8

Q ss_pred             HHHhhchhhhcchhHHHHHhc---CCC----chhHHHHHHHhhC-CCChHHHHHHhhhhC-----------C-ChhHHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTS---LDH----NTYIISRFILTSL-PISLHFTRSLFNNVM-----------P-PLFAYNT   69 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----------~-~~~~~~~   69 (162)
                      +...|+.++|+.++...+...   +.+    ...+++.|-..|. .|++++|..++++.-           | ...+++.
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            345578889988887765422   223    2456788888999 999999999988763           2 2667999


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHH---cCCCCCCcc----HHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLK---TGLRPDNLT----YPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~---~~~~p~~~t----~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      +-..|...|++++|..++++-.+   .-+-||...    .+.+-.++...+.+.+|+.++..+++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988643   334444332    234445666678899999999888764

>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=96.89  E-value=0.0097  Score=38.07  Aligned_cols=89  Identities=6%  Similarity=-0.132  Sum_probs=61.0

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHcCCCCC--------C-----ccHHHHHHHhhhhccchhhhHHHHHHHHH-----hc
Q 045917           69 TLIRAYAKTSCSIESIKLFDEMLKTGLRPD--------N-----LTYPFVVKASDQCLLIGVGGSVHSLIFKV-----GL  130 (162)
Q Consensus        69 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--------~-----~t~~~li~~~~~~~~~~~a~~i~~~~~~~-----~~  130 (162)
                      ..=..+.+.|++++|...|++..+.  .|+        .     ..|+.+-.++.+.|++++|...++...+.     .+
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            3334455667777777777776542  222        1     26777777788888888888888777664     01


Q ss_pred             Cc-chhHH----HHHHHHHHhcCChhHHHHhhcc
Q 045917          131 HS-DKYIG----NTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       131 ~~-~~~~~----~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .| +...|    ...=.++...|++++|...|++
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~k  127 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKK  127 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHH
Confidence            34 35566    7777888899999999988875

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.84  E-value=0.0055  Score=36.16  Aligned_cols=74  Identities=9%  Similarity=0.008  Sum_probs=54.0

Q ss_pred             hhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           18 HHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        18 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      .|...++...+.. +.++..+..+-..|. .|++++|...|+...   | +...|..+-..|...|++++|...|++..+
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555554432 235566777777777 999999999998876   3 466788888888889999999999888755

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.78  E-value=0.0059  Score=35.38  Aligned_cols=84  Identities=8%  Similarity=-0.046  Sum_probs=59.5

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC-------ccH
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN-------LTY  102 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~t~  102 (162)
                      ...+..+-..+. .|++++|...|+...   | +...|..+-..+.+.|++++|...|++..+  +.|+.       ..+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~   81 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR--YTSTAEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SCSSTTSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCccHHHHHHHHH
Confidence            445556666677 999999999999876   4 677888888899999999999999999875  34553       223


Q ss_pred             HHHHHHhhhhccchhhhH
Q 045917          103 PFVVKASDQCLLIGVGGS  120 (162)
Q Consensus       103 ~~li~~~~~~~~~~~a~~  120 (162)
                      ..+-.++...|+.+.+..
T Consensus        82 ~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHhHhhhHh
Confidence            334444445555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.77  E-value=0.0039  Score=36.12  Aligned_cols=86  Identities=14%  Similarity=0.019  Sum_probs=64.2

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh-cCcchhHHHHHH
Q 045917           63 PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG-LHSDKYIGNTLL  141 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~-~~~~~~~~~~ll  141 (162)
                      +...|..+-..|...|++++|...|++..+..- -+...|..+-.++...|++++|...++...+.. -.++......+-
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l~   84 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSELQ   84 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHHH
Confidence            466788888889999999999999999876532 245567888899999999999999998876543 235566666666


Q ss_pred             HHHHhcCC
Q 045917          142 RMYAACKE  149 (162)
Q Consensus       142 ~~y~~~g~  149 (162)
                      ..+.+.+.
T Consensus        85 ~~l~~~~~   92 (100)
T 3ma5_A           85 DAKLKAEG   92 (100)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHccc
Confidence            66655443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.71  E-value=0.014  Score=33.67  Aligned_cols=59  Identities=14%  Similarity=0.229  Sum_probs=48.0

Q ss_pred             chhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           34 NTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        34 ~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      ++..+..+-..|. .|++++|...|+...   | +...|..+-..|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4566677777777 999999999999876   4 467788888899999999999999988654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=96.66  E-value=0.0042  Score=45.16  Aligned_cols=94  Identities=13%  Similarity=-0.012  Sum_probs=75.7

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHc--------------CCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKT--------------GLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      ..|..+=..+.+.|++++|...|++..+.              ...| +...|..+-..+.+.|++++|...+....+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            45777778888999999999999987651              0222 34567778888999999999999999988753


Q ss_pred             cCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          130 LHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       130 ~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                       +.+...+..+-.+|.+.|++++|.+.|++
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~  332 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKK  332 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence             23577888899999999999999998875

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.59  E-value=0.011  Score=44.10  Aligned_cols=84  Identities=7%  Similarity=-0.081  Sum_probs=63.1

Q ss_pred             cCCCchHHHHHHHHHHH---cCCCCC----CccHHHHHHHhhhhccchhhhHHHHHHHHH-----h-cCcc-hhHHHHHH
Q 045917           76 KTSCSIESIKLFDEMLK---TGLRPD----NLTYPFVVKASDQCLLIGVGGSVHSLIFKV-----G-LHSD-KYIGNTLL  141 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~---~~~~p~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~-----~-~~~~-~~~~~~ll  141 (162)
                      ..|++++|..++++..+   .-+-|+    ..+++.|...|...|++++|+.+++....-     | -.|+ ..+++.|-
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            35788999999988654   233444    255778889999999999999988876542     2 1344 45588899


Q ss_pred             HHHHhcCChhHHHHhhcc
Q 045917          142 RMYAACKEIDFAKALFDE  159 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~~  159 (162)
                      ..|...|++++|+.++++
T Consensus       390 ~~~~~qg~~~eA~~~~~~  407 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKK  407 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHH
Confidence            999999999999998865

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.55  E-value=0.034  Score=43.92  Aligned_cols=98  Identities=14%  Similarity=-0.003  Sum_probs=58.9

Q ss_pred             CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           47 PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      .|+++.|+++.+.+ .+...|..+-..+.+.|+++.|.+.|..+.+         |..+...+...++.+...++-+...
T Consensus       665 ~~~~~~A~~~~~~~-~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          665 VGQLTLARDLLTDE-SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HTCHHHHHHHHTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHhh-CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            57777777776554 4567888888899999999999999988754         3344444444555544444433333


Q ss_pred             HHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          127 KVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       127 ~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ..|      -++.-..+|.+.|++++|.+++.++
T Consensus       735 ~~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          735 TTG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HcC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            322      1233334455556666666555543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=96.54  E-value=0.064  Score=40.55  Aligned_cols=147  Identities=8%  Similarity=-0.036  Sum_probs=84.2

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhCCCChHHHHHHhhhh-----------C--CChhHHHHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNV-----------M--PPLFAYNTLIR   72 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m-----------~--~~~~~~~~li~   72 (162)
                      ++..+...|+.+.|..++....+.  +.+...+-......-....  ...+.+..           .  .....|-..+.
T Consensus       219 ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~~e~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~  294 (493)
T 2uy1_A          219 YSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLVMDEEAV--YGDLKRKYSMGEAESAEKVFSKELDLLRINHLN  294 (493)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHTTCTHH--HHHHHHHTC----------CHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhhcchhHH--HHHHHHHHHhhccchhhhhcccccHHHHHHHHH
Confidence            344455667888899999888877  3343333221111001111  11122111           1  12345666777


Q ss_pred             HHHcCCCchHHHHHHHHHHHcCCCCCCccHH--HHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917           73 AYAKTSCSIESIKLFDEMLKTGLRPDNLTYP--FVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus        73 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~--~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      ...+.++.+.|..+|... +.. ..+...|.  +.++... .++.+.|..+++...+.- +-++..|...++...+.|+.
T Consensus       295 ~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~  370 (493)
T 2uy1_A          295 YVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDE  370 (493)
T ss_dssp             HHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCH
Confidence            766778899999999888 221 11222232  2222221 236888999998887752 22345567778878888999


Q ss_pred             hHHHHhhccc
Q 045917          151 DFAKALFDEM  160 (162)
Q Consensus       151 ~~a~~~~~~m  160 (162)
                      +.|..+|+..
T Consensus       371 ~~aR~l~er~  380 (493)
T 2uy1_A          371 ENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHHH
Confidence            9999888764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=96.51  E-value=0.073  Score=37.72  Aligned_cols=145  Identities=10%  Similarity=0.049  Sum_probs=99.9

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChH--HHHHHhhhhC----CChhHHHHHHHHHHcCCC------c
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLH--FTRSLFNNVM----PPLFAYNTLIRAYAKTSC------S   80 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~--~a~~~~~~m~----~~~~~~~~li~~~~~~~~------~   80 (162)
                      ++.+++..+++.+.... +-+-.+|+----.+. .|..+  ++...++.+-    .|...|+---..+.+.++      +
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhH
Confidence            56777788888877643 345556655544455 66666  8888888776    678888877777777776      8


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhcc-chhhhHHHHHHHHHh--cCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLL-IGVGGSVHSLIFKVG--LHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~-~~~a~~i~~~~~~~~--~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      +++++.+++...... -|...|+-+-..+.+.|+ .+.+..+...+...+  -..+...+..+.+.|.+.|+.++|.+++
T Consensus       203 ~eEl~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          203 DEELNYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            888999888876432 355556655555555555 344555555544433  1346788899999999999999999998


Q ss_pred             ccc
Q 045917          158 DEM  160 (162)
Q Consensus       158 ~~m  160 (162)
                      +..
T Consensus       282 ~~l  284 (306)
T 3dra_A          282 DLL  284 (306)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            864

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.46  E-value=0.023  Score=42.27  Aligned_cols=89  Identities=7%  Similarity=-0.133  Sum_probs=67.5

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHc--C-CCCC----CccHHHHHHHhhhhccchhhhHHHHHHHHH-----h-cCcc-hhH
Q 045917           71 IRAYAKTSCSIESIKLFDEMLKT--G-LRPD----NLTYPFVVKASDQCLLIGVGGSVHSLIFKV-----G-LHSD-KYI  136 (162)
Q Consensus        71 i~~~~~~~~~~~a~~~~~~m~~~--~-~~p~----~~t~~~li~~~~~~~~~~~a~~i~~~~~~~-----~-~~~~-~~~  136 (162)
                      +..+.+.|++++|..++++..+.  . +.|+    ..+++.+...|...|++++|+.++.....-     | -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            45566789999999999988653  2 3333    235777888999999999999998876542     1 1343 456


Q ss_pred             HHHHHHHHHhcCChhHHHHhhcc
Q 045917          137 GNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       137 ~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ++.|-..|...|++++|+.++++
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~  396 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRL  396 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Confidence            88899999999999999998865

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.41  E-value=0.06  Score=40.01  Aligned_cols=106  Identities=13%  Similarity=0.119  Sum_probs=70.7

Q ss_pred             ChHHHHHHhhhhC-CChhHHHHHHHHHHcCC---CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh----ccchhhhH
Q 045917           49 SLHFTRSLFNNVM-PPLFAYNTLIRAYAKTS---CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC----LLIGVGGS  120 (162)
Q Consensus        49 ~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~----~~~~~a~~  120 (162)
                      ..+.+..+++... .+...+..+-..|...|   +.++|++.|++-.+.|- ++...+..+-..|...    ++.++|..
T Consensus       160 ~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          160 HLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             GHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            4555555666655 44447777777888888   88899999988877653 3333334455555444    57888888


Q ss_pred             HHHHHHHHhcCcchhHHHHHHHH-H--HhcCChhHHHHhhcc
Q 045917          121 VHSLIFKVGLHSDKYIGNTLLRM-Y--AACKEIDFAKALFDE  159 (162)
Q Consensus       121 i~~~~~~~~~~~~~~~~~~ll~~-y--~~~g~~~~a~~~~~~  159 (162)
                      .++... .|   +...+..|=.. |  ...|+.++|.+.|++
T Consensus       239 ~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~  276 (452)
T 3e4b_A          239 LLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDN  276 (452)
T ss_dssp             HHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHH
T ss_pred             HHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Confidence            887776 43   44555555555 3  458899999888764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.33  E-value=0.016  Score=35.72  Aligned_cols=109  Identities=8%  Similarity=-0.102  Sum_probs=76.8

Q ss_pred             hchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC--CChhHHHHHHHHHHc----CCCchHHHHH
Q 045917           14 KTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM--PPLFAYNTLIRAYAK----TSCSIESIKL   86 (162)
Q Consensus        14 ~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~--~~~~~~~~li~~~~~----~~~~~~a~~~   86 (162)
                      ++.++|.+.+....+.|. +..  .  |=..|. .+..++|...|+..-  -+...+..+=..|..    .++.++|...
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFG--C--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTH--H--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhh--h--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            467778888888877772 222  2  444555 667788888888776  666777777777776    7888899998


Q ss_pred             HHHHHHcCCCCCCccHHHHHHHhhh----hccchhhhHHHHHHHHHhc
Q 045917           87 FDEMLKTGLRPDNLTYPFVVKASDQ----CLLIGVGGSVHSLIFKVGL  130 (162)
Q Consensus        87 ~~~m~~~~~~p~~~t~~~li~~~~~----~~~~~~a~~i~~~~~~~~~  130 (162)
                      |++-.+.|   +...+..|-..|..    .++.++|...++...+.|.
T Consensus        84 ~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            88887764   34555666666665    6778888888877777664

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.20  E-value=0.077  Score=33.12  Aligned_cols=82  Identities=13%  Similarity=-0.059  Sum_probs=49.2

Q ss_pred             HHhhchhhhcchhHHHHHh--------c---------CCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHH
Q 045917           11 QLSKTAHHHHQLPALFLKT--------S---------LDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYN   68 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~   68 (162)
                      -..|++++|...|......        .         -+.+...|..+-.+|. .|++++|...++...    .+...|.
T Consensus        22 ~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~  101 (162)
T 3rkv_A           22 FVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALF  101 (162)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHH
Confidence            3445666777666666543        0         0112244555555555 777777777776654    3455666


Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHH
Q 045917           69 TLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        69 ~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      .+-.+|...|++++|...|++..+
T Consensus       102 ~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A          102 RRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHh
Confidence            666677777777777777776654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=96.10  E-value=0.11  Score=31.86  Aligned_cols=105  Identities=10%  Similarity=-0.024  Sum_probs=79.6

Q ss_pred             CCChHHHHHHhhhhC--CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhh----hccchhhhH
Q 045917           47 PISLHFTRSLFNNVM--PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQ----CLLIGVGGS  120 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~----~~~~~~a~~  120 (162)
                      .++.++|...|+..-  -+....  +=..|...+.+++|.+.|++-.+.|   +......|-..|..    .++.++|..
T Consensus         8 ~~d~~~A~~~~~~aa~~g~~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNEMFGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTHH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCCHhhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            456788888888776  333344  4455556678888999999987764   45566666666666    788999999


Q ss_pred             HHHHHHHHhcCcchhHHHHHHHHHHh----cCChhHHHHhhcc
Q 045917          121 VHSLIFKVGLHSDKYIGNTLLRMYAA----CKEIDFAKALFDE  159 (162)
Q Consensus       121 i~~~~~~~~~~~~~~~~~~ll~~y~~----~g~~~~a~~~~~~  159 (162)
                      .++...+.|   +...+..|=..|..    .++.++|.+.|++
T Consensus        83 ~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~  122 (138)
T 1klx_A           83 YYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEK  122 (138)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHH
Confidence            999988775   46777888888888    8999999998864

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.08  E-value=0.037  Score=30.56  Aligned_cols=59  Identities=15%  Similarity=0.099  Sum_probs=48.4

Q ss_pred             hhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHc
Q 045917           35 TYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKT   93 (162)
Q Consensus        35 ~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   93 (162)
                      ...+..+-..+. .|++++|...|+...   | +...|..+-..+.+.|++++|...|++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            445666666777 999999999999875   3 5677888888999999999999999998764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=95.40  E-value=0.025  Score=42.09  Aligned_cols=61  Identities=5%  Similarity=-0.152  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHc---CCCCC----CccHHHHHHHhhhhccchhhhHHHHHH
Q 045917           65 FAYNTLIRAYAKTSCSIESIKLFDEMLKT---GLRPD----NLTYPFVVKASDQCLLIGVGGSVHSLI  125 (162)
Q Consensus        65 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~----~~t~~~li~~~~~~~~~~~a~~i~~~~  125 (162)
                      .+++.+-..|...|++++|..++++..+-   -..|+    ..+++.|-..|...|++++|+.++++.
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            44555555555555555555555554321   11121    223455555555556666665555443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=95.40  E-value=0.16  Score=32.42  Aligned_cols=82  Identities=15%  Similarity=-0.012  Sum_probs=63.2

Q ss_pred             CCChHHHHHHhhhhC---CC-------------hhHHHHHHHHHHcCCCchHHHHHHHHHHHc-----CCCCCC-ccH--
Q 045917           47 PISLHFTRSLFNNVM---PP-------------LFAYNTLIRAYAKTSCSIESIKLFDEMLKT-----GLRPDN-LTY--  102 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~~-------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~p~~-~t~--  102 (162)
                      .|++++|...|+..-   |+             ...|+..=.++.+.|++++|+..+++-.+.     .+.|+. ..|  
T Consensus        24 ~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~  103 (159)
T 2hr2_A           24 AGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWIS  103 (159)
T ss_dssp             HTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHH
Confidence            688888888888765   54             227888888999999999999999987663     235643 345  


Q ss_pred             --HHHHHHhhhhccchhhhHHHHHHHHH
Q 045917          103 --PFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       103 --~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                        ...-.++...|++++|...++...+.
T Consensus       104 ~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A          104 AVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence              56667888889999999999887664

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.30  E-value=0.054  Score=30.64  Aligned_cols=55  Identities=11%  Similarity=0.036  Sum_probs=34.6

Q ss_pred             HHHcCCCchHHHHHHHHHHHcCCCCC-Cc-cHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           73 AYAKTSCSIESIKLFDEMLKTGLRPD-NL-TYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        73 ~~~~~~~~~~a~~~~~~m~~~~~~p~-~~-t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      .+.+.|++++|...|++..+.  .|+ .. .+..+-..+...|++++|...+....+..
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            445567777777777776553  233 23 55556666667777777777777766653

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=94.72  E-value=0.11  Score=29.34  Aligned_cols=54  Identities=9%  Similarity=-0.110  Sum_probs=44.5

Q ss_pred             HHHHhhhhccchhhhHHHHHHHHHhcCcchh-HHHHHHHHHHhcCChhHHHHhhcc
Q 045917          105 VVKASDQCLLIGVGGSVHSLIFKVGLHSDKY-IGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       105 li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~-~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ....+.+.|++++|...+....+.. +.+.. .+..+-.+|.+.|++++|.+.|++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~   60 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQS   60 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3455678899999999999988764 23556 888888999999999999999875

>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=94.68  E-value=0.058  Score=40.07  Aligned_cols=80  Identities=9%  Similarity=-0.047  Sum_probs=52.7

Q ss_pred             CCChHHHHHHhhhhC--------C----ChhHHHHHHHHHHcCCCchHHHHHHHHHHHc---CCCCC----CccHHHHHH
Q 045917           47 PISLHFTRSLFNNVM--------P----PLFAYNTLIRAYAKTSCSIESIKLFDEMLKT---GLRPD----NLTYPFVVK  107 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~--------~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~----~~t~~~li~  107 (162)
                      .|++++|..+++..-        |    ...+++.+...|...|++++|+.++++..+-   -..|+    ..+++.|-.
T Consensus       300 ~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~  379 (429)
T 3qwp_A          300 HWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGK  379 (429)
T ss_dssp             TTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHH
Confidence            566777777665442        1    2456777888888888888888888776432   12222    234666777


Q ss_pred             HhhhhccchhhhHHHHHHH
Q 045917          108 ASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus       108 ~~~~~~~~~~a~~i~~~~~  126 (162)
                      .|...|++++|+.++.+..
T Consensus       380 ~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          380 LQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHH
Confidence            7888888888888776653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=94.47  E-value=0.23  Score=37.55  Aligned_cols=107  Identities=7%  Similarity=0.001  Sum_probs=52.9

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHH--HHHHhhCCCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHH
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIIS--RFILTSLPISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~--~ll~~~~~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      .++.+.|+.+++.. +.. ..+...|.  +.+.....++.+.|..+|+...   |+ ...|...+....+.|+.+.|..+
T Consensus       299 ~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l  376 (493)
T 2uy1_A          299 KRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARAL  376 (493)
T ss_dssp             HHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34556666666655 211 11222232  2222222235666666666554   32 33344455555556666666666


Q ss_pred             HHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           87 FDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        87 ~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      |....     -....|...++.-...|+.+.+.++++...
T Consensus       377 ~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          377 FKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            66651     123345555555555566666666555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.25  E-value=0.19  Score=31.78  Aligned_cols=66  Identities=8%  Similarity=-0.029  Sum_probs=32.2

Q ss_pred             CChhHHHHHHHHHHcCC---CchHHHHHHHHHHHcCCCC--CCccHHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           62 PPLFAYNTLIRAYAKTS---CSIESIKLFDEMLKTGLRP--DNLTYPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p--~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      ++..+.-.+-.++++++   +.+++..++++..+.+ .|  +...+-.+--++.+.|++++|.+.++.+.+.
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            34444444444555555   4445666666655443 12  1222233344445666666666666665554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.83  E-value=1.2  Score=35.10  Aligned_cols=83  Identities=12%  Similarity=0.029  Sum_probs=51.0

Q ss_pred             CCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhh
Q 045917           32 DHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASD  110 (162)
Q Consensus        32 ~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  110 (162)
                      ..++..|..+=..+. .++++.|++.|..+.    -|..+...|...|+.+....+-+.....|      -++.....+.
T Consensus       678 ~~~~~~W~~la~~al~~~~~~~A~~~y~~~~----d~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~~~~A~~~~~  747 (814)
T 3mkq_A          678 ESAEMKWRALGDASLQRFNFKLAIEAFTNAH----DLESLFLLHSSFNNKEGLVTLAKDAETTG------KFNLAFNAYW  747 (814)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT----CHHHHHHHHHHTTCHHHHHHHHHHHHHTT------CHHHHHHHHH
T ss_pred             hCcHhHHHHHHHHHHHcCCHHHHHHHHHHcc----ChhhhHHHHHHcCCHHHHHHHHHHHHHcC------chHHHHHHHH
Confidence            356788999999999 999999999999987    23334444444555555444444333322      1334444455


Q ss_pred             hhccchhhhHHHHH
Q 045917          111 QCLLIGVGGSVHSL  124 (162)
Q Consensus       111 ~~~~~~~a~~i~~~  124 (162)
                      +.|++++|.+++.+
T Consensus       748 ~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          748 IAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHTCHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHH
Confidence            55555555555543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.60  E-value=0.54  Score=29.45  Aligned_cols=83  Identities=10%  Similarity=-0.186  Sum_probs=54.6

Q ss_pred             CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           47 PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      +|++..+..-+-.+..+..-.+..+......|+-++-.+++.++.. ..+|+....-.+..+|.+.|+..++.++..+.-
T Consensus        74 C~NlKrVi~C~~~~n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC  152 (172)
T 1wy6_A           74 CQNLKSVVECGVINNTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEAC  152 (172)
T ss_dssp             CSCTHHHHHHHHHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhcHHHHHHHHHHhcchHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            5666666666655555555566667777777777777777777532 344555556666777777777777777777777


Q ss_pred             HHhc
Q 045917          127 KVGL  130 (162)
Q Consensus       127 ~~~~  130 (162)
                      ++|+
T Consensus       153 ~kG~  156 (172)
T 1wy6_A          153 KKGE  156 (172)
T ss_dssp             HTTC
T ss_pred             Hhhh
Confidence            7765

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=93.44  E-value=0.31  Score=28.61  Aligned_cols=43  Identities=9%  Similarity=0.080  Sum_probs=21.9

Q ss_pred             HHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           85 KLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      +.++.+....+.|++....+.+++|.+.+++..|.++++.++.
T Consensus        31 rglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           31 KGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3333334445555555555555555555555555555554443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=93.02  E-value=1.1  Score=34.56  Aligned_cols=128  Identities=5%  Similarity=-0.042  Sum_probs=83.6

Q ss_pred             hhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCC----------hHHHHHHhhhhC----CChhHHHHHHHHHHcCC--
Q 045917           16 AHHHHQLPALFLKTSLDHNTYIISRFILTSL-PIS----------LHFTRSLFNNVM----PPLFAYNTLIRAYAKTS--   78 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~----------~~~a~~~~~~m~----~~~~~~~~li~~~~~~~--   78 (162)
                      .++|.+.++.+...+.. +...|+.-=..+. .|+          ++++...++.+-    .+..+|+.--..+.+.+  
T Consensus        45 ~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccc
Confidence            35667777777665432 2233443333333 344          788888888876    56788888888888888  


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhc-cchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCL-LIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~-~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      +++++++.++++.+... -|...|+.---...+.| ..+++.+.+..+.+... -|...|+..-..+.+
T Consensus       124 ~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~  190 (567)
T 1dce_A          124 NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQ  190 (567)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHh
Confidence            66999999999987542 25555655545555666 66777777777666543 467777766666555

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=92.72  E-value=0.45  Score=27.46  Aligned_cols=56  Identities=7%  Similarity=-0.142  Sum_probs=31.3

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHcC------CCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLKTG------LRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      +-.+=..+.+.|++..|...|++..+.-      -.+....+..+-.++.+.|+++.|...+
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~   69 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLT   69 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            3344455666777777777777654321      1123334555556666666666665544

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.56  E-value=1  Score=28.19  Aligned_cols=59  Identities=10%  Similarity=-0.153  Sum_probs=40.0

Q ss_pred             ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          100 LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .-+...++.....|.-++-.++...+.. +.+|++...-.+-.+|.+.|+..+|.+++.+
T Consensus        92 e~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~  150 (172)
T 1wy6_A           92 EHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIE  150 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHH
Confidence            3344556666777777777777777544 3456777777788888888888887777643

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.50  E-value=3.4  Score=33.08  Aligned_cols=124  Identities=14%  Similarity=0.067  Sum_probs=77.3

Q ss_pred             HHHHHHHhhC-CCC-hHHHHHHhhhhC---CChhH--HHHHHHHHHcCC-CchHHHHHHHHHHH------cCCCCCCccH
Q 045917           37 IISRFILTSL-PIS-LHFTRSLFNNVM---PPLFA--YNTLIRAYAKTS-CSIESIKLFDEMLK------TGLRPDNLTY  102 (162)
Q Consensus        37 ~~~~ll~~~~-~~~-~~~a~~~~~~m~---~~~~~--~~~li~~~~~~~-~~~~a~~~~~~m~~------~~~~p~~~t~  102 (162)
                      ....|++.+. .++ .+.|..+|+.+.   |....  ..++|....+.+ +--+|..+..+..+      ....+.....
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            3456666666 666 577999999887   43222  233344333332 22335555554432      1233322111


Q ss_pred             -------HHH----HHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917          103 -------PFV----VKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       103 -------~~l----i~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                             ..|    .+.|...|+++.|.++-......- +-+-.+|-.|..+|.+.|+++.|+-.++-+|
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                   112    345666789999999888876652 3347889999999999999999999988876

>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=92.41  E-value=2  Score=30.27  Aligned_cols=93  Identities=11%  Similarity=-0.010  Sum_probs=68.2

Q ss_pred             hHHHHHHhhhhC---CC---hhHHHHHHHHHHcC-----CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhh-ccchh
Q 045917           50 LHFTRSLFNNVM---PP---LFAYNTLIRAYAKT-----SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQC-LLIGV  117 (162)
Q Consensus        50 ~~~a~~~~~~m~---~~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~-~~~~~  117 (162)
                      ...|...+++..   |+   -..|..+-..|.+.     |+.++|...|++-.+.+-.-+..+...+-+.++.. |+.+.
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            344555555444   55   56899999999995     99999999999987743222466777788888885 99999


Q ss_pred             hhHHHHHHHHHhcC--cchhHHHHHHH
Q 045917          118 GGSVHSLIFKVGLH--SDKYIGNTLLR  142 (162)
Q Consensus       118 a~~i~~~~~~~~~~--~~~~~~~~ll~  142 (162)
                      +.+.++........  |+....+.+-+
T Consensus       259 a~~~L~kAL~a~p~~~P~~~lan~~~q  285 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHNKLLVILSQ  285 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCChhHHHHHHH
Confidence            99999999887665  66655554443

>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=92.11  E-value=0.22  Score=31.72  Aligned_cols=88  Identities=16%  Similarity=0.092  Sum_probs=43.7

Q ss_pred             HhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCC----------hHHHHHHhhhhC---C-ChhHHHHHHHHHHc
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PIS----------LHFTRSLFNNVM---P-PLFAYNTLIRAYAK   76 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~----------~~~a~~~~~~m~---~-~~~~~~~li~~~~~   76 (162)
                      +.+.+++|...++...... +.++..|+.+=..+. .++          +++|...|++..   | +...|..+=++|..
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            3345556666665555443 223334443333333 332          346666666554   3 34455555555554


Q ss_pred             C-----------CCchHHHHHHHHHHHcCCCCCCccH
Q 045917           77 T-----------SCSIESIKLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        77 ~-----------~~~~~a~~~~~~m~~~~~~p~~~t~  102 (162)
                      .           |++++|...|++..+  +.|+...|
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y  127 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHY  127 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHH
Confidence            4           256666666666544  34554444

>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=92.03  E-value=2.6  Score=30.70  Aligned_cols=129  Identities=12%  Similarity=-0.020  Sum_probs=78.5

Q ss_pred             hcCCCchhHHHHHHHhhC---CC---ChHHHHHHhhhhC---CC-hhHHHHHHHHHHc----CC-CchHHHHHHHHHHH-
Q 045917           29 TSLDHNTYIISRFILTSL---PI---SLHFTRSLFNNVM---PP-LFAYNTLIRAYAK----TS-CSIESIKLFDEMLK-   92 (162)
Q Consensus        29 ~~~~~~~~~~~~ll~~~~---~~---~~~~a~~~~~~m~---~~-~~~~~~li~~~~~----~~-~~~~a~~~~~~m~~-   92 (162)
                      .+.+.++..|...+++..   .+   ...+|..+|++..   |+ ...|..+--+|..    .+ .......+-..+.. 
T Consensus       188 ~~~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          188 KILPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             HHSCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             ccCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            445667777888777665   33   3577888888876   54 3344433223321    11 11122222222221 


Q ss_pred             ---cCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           93 ---TGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        93 ---~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                         ..-..+..++..+--.+...|++++|...++.....+  |+...|..+=..+.-.|++++|.+.|++
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~  335 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLT  335 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence               1224456666666556666789999999998888875  6777776666778889999999887753

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=91.90  E-value=2.4  Score=29.93  Aligned_cols=33  Identities=9%  Similarity=-0.166  Sum_probs=14.8

Q ss_pred             hhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCC
Q 045917          116 GVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus       116 ~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~  149 (162)
                      +++.+.+....... +-|...|+.+-..+.+.|+
T Consensus       203 ~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~  235 (306)
T 3dra_A          203 DEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDR  235 (306)
T ss_dssp             HHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCC
Confidence            33334444444433 2344555555555555555

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.60  E-value=0.52  Score=34.44  Aligned_cols=62  Identities=10%  Similarity=0.050  Sum_probs=41.9

Q ss_pred             HHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHH-----cCCCCCCccH
Q 045917           41 FILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLK-----TGLRPDNLTY  102 (162)
Q Consensus        41 ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~t~  102 (162)
                      +...+. .|+.+++...+....    .+-..|-.+|.++.+.|+..+|++.|++..+     .|+.|+..+-
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            334445 777777776666554    3556778888888888888888888877533     3777766543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=91.52  E-value=0.59  Score=26.60  Aligned_cols=65  Identities=11%  Similarity=0.057  Sum_probs=42.2

Q ss_pred             ChhHHHHHHHHHHcCCC---chHHHHHHHHHHHcCCCCCC-ccHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           63 PLFAYNTLIRAYAKTSC---SIESIKLFDEMLKTGLRPDN-LTYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        63 ~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      +...+..+-.++...++   .++|..++++..+  +.|+. .....+-..+.+.|++++|...++.+.+..
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~--~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQ--LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            34445555555543433   6888888888766  33443 334445577778888999999888887753

>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=91.40  E-value=1.2  Score=32.52  Aligned_cols=66  Identities=11%  Similarity=-0.009  Sum_probs=54.6

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      .+...|.++-..+...|++++|...+++....+  |+...|..+-..+.-.|+.++|...+....+..
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR  340 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            567788887777777899999999999998875  777666666777788999999999998877764

>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=91.15  E-value=1.2  Score=28.36  Aligned_cols=95  Identities=15%  Similarity=0.023  Sum_probs=64.5

Q ss_pred             CChHHHHHHhhhhC----CChhHHHHHHHHHHcCCC----------chHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhh
Q 045917           48 ISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSC----------SIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQC  112 (162)
Q Consensus        48 ~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~  112 (162)
                      +.+++|...++...    .+...|+.+=.++...++          +++|...|++..+  +.|+ ..+|..+=.+|...
T Consensus        16 ~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~--ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH--hCcCcHHHHHHHHHHHHHh
Confidence            34667777777665    356666655556665554          4588888888765  4454 45677788888776


Q ss_pred             c-----------cchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917          113 L-----------LIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus       113 ~-----------~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      |           ++++|.+.++...+.  .|+-..|..-+...-+
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~~~k  136 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMTAK  136 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHT
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHh
Confidence            4           899999999888875  5777777666655433

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=91.05  E-value=0.79  Score=28.43  Aligned_cols=59  Identities=10%  Similarity=0.035  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      ..+-++.+...++.|+.....+.+++|-+.+++..|..+++-++.+ +.+...+|..++.
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            3444555555677888888888888888888888888887776654 3344555666654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=90.68  E-value=2.3  Score=27.53  Aligned_cols=97  Identities=8%  Similarity=0.002  Sum_probs=51.4

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      --.+|+++.|.++-+.+      -+...|..|=+... .|+++-|++.|....    -|..+.-.|.-.|+.++...+-+
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~----D~~~L~~Ly~~tg~~e~L~kla~   84 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH----SFDKLSFLYLVTGDVNKLSKMQN   84 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT----CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC----CHHHHHHHHHHhCCHHHHHHHHH
Confidence            34456666666654443      24556666666666 677777766666655    33333334444455544433322


Q ss_pred             HHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           89 EMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        89 ~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      .-...|      -++..+..+.-.|+++++.+++
T Consensus        85 iA~~~g------~~n~af~~~l~lGdv~~~i~lL  112 (177)
T 3mkq_B           85 IAQTRE------DFGSMLLNTFYNNSTKERSSIF  112 (177)
T ss_dssp             HHHHTT------CHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHCc------cHHHHHHHHHHcCCHHHHHHHH
Confidence            222221      2455555556666666666655

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=90.64  E-value=2.1  Score=27.09  Aligned_cols=95  Identities=9%  Similarity=0.055  Sum_probs=51.5

Q ss_pred             CChhHHHHHHHHHHcCCCc------hHHHHHHHHHHHcCCCCCC-ccHHHHHH------HhhhhccchhhhHHHHHHHHH
Q 045917           62 PPLFAYNTLIRAYAKTSCS------IESIKLFDEMLKTGLRPDN-LTYPFVVK------ASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~~~~p~~-~t~~~li~------~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      .|..+|=..+...-+.|++      ++..++|.+-.. .++|+. ..|...|.      .+...++.+.|+++|..+.+.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3455666666666666776      666666665543 244432 11111111      111236677777777777654


Q ss_pred             hcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          129 GLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       129 ~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                       .+.=..+|-..-..=.+.|++..|.+++.
T Consensus        90 -hKkFAKiwi~~AqFEiRqgnl~kARkILg  118 (161)
T 4h7y_A           90 -CKKFAFVHISFAQFELSQGNVKKSKQLLQ  118 (161)
T ss_dssp             -CTTBHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             -hHHHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence             22225555555555566777777777654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=90.57  E-value=1.4  Score=24.94  Aligned_cols=75  Identities=12%  Similarity=0.027  Sum_probs=49.9

Q ss_pred             CchhHHHHHHHhhC-C---CChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHH
Q 045917           33 HNTYIISRFILTSL-P---ISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPF  104 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~---~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~  104 (162)
                      .++..+..+-..+. .   ...++|..++++.-   | +..+...+=..+.+.|++++|...|+++.+..  |+......
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~--p~~~~~~~   81 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN--DPNLDRVT   81 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC--CTTCCHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCccHHH
Confidence            34444544444443 2   23789999999886   4 46666667778888999999999999998753  33333444


Q ss_pred             HHHHh
Q 045917          105 VVKAS  109 (162)
Q Consensus       105 li~~~  109 (162)
                      +....
T Consensus        82 i~~~I   86 (93)
T 3bee_A           82 IIESI   86 (93)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.53  E-value=1.6  Score=25.52  Aligned_cols=74  Identities=8%  Similarity=-0.044  Sum_probs=54.5

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC---CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL---PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      +-++|..|-+++...+.    .-...+|+..+   .|++++|..+.+... ||..+|-++-.  .+.|-.+++..-+.++
T Consensus        21 ~HqEA~tIAdwL~~~~~----~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ----DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGL   94 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc----HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            56788888888887765    23455555555   999999999999998 99999988844  5667766666666566


Q ss_pred             HHcC
Q 045917           91 LKTG   94 (162)
Q Consensus        91 ~~~~   94 (162)
                      ..+|
T Consensus        95 a~sg   98 (115)
T 2uwj_G           95 GGSS   98 (115)
T ss_dssp             HTCS
T ss_pred             HhCC
Confidence            5554

>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=90.34  E-value=1.7  Score=25.47  Aligned_cols=74  Identities=8%  Similarity=-0.035  Sum_probs=52.7

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC---CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL---PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEM   90 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~---~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m   90 (162)
                      +-++|..|-+++...+.    .-...+|+..+   .|++++|..+.+... ||..+|-++-.  .+.|-.+++..-+.++
T Consensus        22 ~HqEA~tIAdwL~~~~~----~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   95 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE----EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRL   95 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC----HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc----HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            56788888888877765    22445555555   899999999999988 99999988844  4556666665555566


Q ss_pred             HHcC
Q 045917           91 LKTG   94 (162)
Q Consensus        91 ~~~~   94 (162)
                      ..+|
T Consensus        96 a~sg   99 (116)
T 2p58_C           96 ARSQ   99 (116)
T ss_dssp             TTCC
T ss_pred             HhCC
Confidence            5443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=89.68  E-value=4.4  Score=29.23  Aligned_cols=147  Identities=7%  Similarity=-0.002  Sum_probs=96.0

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CC-ChHHHHHHhhhhC----CChhHHHHHHHHHHcC-C-Cc
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PI-SLHFTRSLFNNVM----PPLFAYNTLIRAYAKT-S-CS   80 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~-~~~~a~~~~~~m~----~~~~~~~~li~~~~~~-~-~~   80 (162)
                      ++.+....++|.++.+.+...+.. +..+|+.-=..+. .+ .++++...++.+-    .+...|+.--..+.+. + ++
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCCh
Confidence            333444556788888888766432 3345565555555 66 5999999999886    5677788876666665 6 88


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccch--------hhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCC---
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIG--------VGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKE---  149 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~--------~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~---  149 (162)
                      ++++++++.+.+.. +-|...|+----...+.+.++        ++.+....+.+... -|-..|+.--..+.+.++   
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcccccc
Confidence            99999999997532 224444544333444445555        77777777777653 477788777777777665   


Q ss_pred             ----hhHHHHhhc
Q 045917          150 ----IDFAKALFD  158 (162)
Q Consensus       150 ----~~~a~~~~~  158 (162)
                          ++++.+.++
T Consensus       220 ~~~~~~eELe~~~  232 (349)
T 3q7a_A          220 SSRSLQDELIYIL  232 (349)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHH
Confidence                456655543

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=89.48  E-value=5.3  Score=30.71  Aligned_cols=134  Identities=7%  Similarity=-0.035  Sum_probs=91.6

Q ss_pred             hhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CC--ChHHHHHHhhhhC----CChhHHHHHHHHHHcCC-CchHHHHHH
Q 045917           16 AHHHHQLPALFLKTSLDHNTYIISRFILTSL-PI--SLHFTRSLFNNVM----PPLFAYNTLIRAYAKTS-CSIESIKLF   87 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~--~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~-~~~~a~~~~   87 (162)
                      ++++...++.+.+.. +-+..+|+----.+. .+  +++++...++.+-    .+..+|+---..+.+.| ..+++++.+
T Consensus        89 ~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~  167 (567)
T 1dce_A           89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  167 (567)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHH
Confidence            677888888877654 334555655444455 66  6799999999886    67889998888888888 889999998


Q ss_pred             HHHHHcCCCCCCccHHHHHHHhhhh--------------ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917           88 DEMLKTGLRPDNLTYPFVVKASDQC--------------LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus        88 ~~m~~~~~~p~~~t~~~li~~~~~~--------------~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      +++.+... -|...|+..-..+.+.              +.++++.+.+....... +-|...|..+-..+.+.++.++
T Consensus       168 ~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          168 DSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             HHHHHHCC-CCccHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence            88865432 3445555544444432              45677777777766653 3467888887777777776444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=88.99  E-value=3  Score=26.30  Aligned_cols=18  Identities=11%  Similarity=0.137  Sum_probs=10.0

Q ss_pred             HcCCCchHHHHHHHHHHH
Q 045917           75 AKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        75 ~~~~~~~~a~~~~~~m~~   92 (162)
                      .+.|++++|.+.++...+
T Consensus        82 ~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           82 YRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             HHTSCHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHh
Confidence            555555555555555544

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=87.86  E-value=5.8  Score=28.34  Aligned_cols=142  Identities=7%  Similarity=-0.038  Sum_probs=91.9

Q ss_pred             hhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CC--ChHHHHHHhhhhC----CChhHHHHHHHHHHcCCC-chHHHHHH
Q 045917           16 AHHHHQLPALFLKTSLDHNTYIISRFILTSL-PI--SLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSC-SIESIKLF   87 (162)
Q Consensus        16 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~--~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~-~~~a~~~~   87 (162)
                      ++++..+++.+.... +-+..+|+----.+. .+  .++++...++.+-    .|..+|+---....+.|. .+++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            456677777776543 345556655554555 45  5889999998886    688889888777778888 48999999


Q ss_pred             HHHHHcCCCCCCccHHHHHHHhhhh--------------ccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc------
Q 045917           88 DEMLKTGLRPDNLTYPFVVKASDQC--------------LLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC------  147 (162)
Q Consensus        88 ~~m~~~~~~p~~~t~~~li~~~~~~--------------~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~------  147 (162)
                      +++.+... -|...|+..-....+.              +.++++.+.+....... +-|...|+.+--.+.+.      
T Consensus       169 ~~~I~~~p-~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHHCS-CCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHHCC-CCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCcccc
Confidence            99987543 3555565544444333              34566666666666553 34677777665555554      


Q ss_pred             -----CChhHHHHhhccc
Q 045917          148 -----KEIDFAKALFDEM  160 (162)
Q Consensus       148 -----g~~~~a~~~~~~m  160 (162)
                           +.++++.+.++++
T Consensus       247 ~~~~~~~l~~el~~~~el  264 (331)
T 3dss_A          247 SVEKSTVLQSELESCKEL  264 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHH
Confidence                 3456666655543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=87.28  E-value=4.4  Score=26.24  Aligned_cols=73  Identities=4%  Similarity=-0.096  Sum_probs=52.9

Q ss_pred             CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           47 PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      .|+++.|.++.++. .+...|..+=......|+++-|.+.|....+         |..+.--|.-.|+.+...++-+...
T Consensus        18 lg~l~~A~e~a~~l-~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla~iA~   87 (177)
T 3mkq_B           18 YGNLDAALDEAKKL-NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQNIAQ   87 (177)
T ss_dssp             TTCHHHHHHHHHHH-CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHh-CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            79999999998766 4677899999999999999999999998753         4444444555666655555444433


Q ss_pred             HHh
Q 045917          127 KVG  129 (162)
Q Consensus       127 ~~~  129 (162)
                      ..|
T Consensus        88 ~~g   90 (177)
T 3mkq_B           88 TRE   90 (177)
T ss_dssp             HTT
T ss_pred             HCc
Confidence            333

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=87.23  E-value=0.97  Score=27.57  Aligned_cols=23  Identities=0%  Similarity=-0.233  Sum_probs=11.8

Q ss_pred             HHHhhhhccchhhhHHHHHHHHH
Q 045917          106 VKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       106 i~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      --++.+.|+++.|.+.++.+.+.
T Consensus        81 Avg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           81 AVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHh
Confidence            34444555555555555555543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=86.68  E-value=2.7  Score=24.06  Aligned_cols=66  Identities=11%  Similarity=0.039  Sum_probs=50.4

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC-----------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM-----------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL  100 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  100 (162)
                      .++..+-.|=..+. .+++..|...|+...           +....+..+-.++.+.|+++.|...+++..+  +.|+..
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~~   80 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEHQ   80 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCCH
Confidence            34445556666667 999999999888754           2355688888999999999999999999876  566653

>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=86.63  E-value=1.7  Score=31.67  Aligned_cols=97  Identities=10%  Similarity=0.005  Sum_probs=59.5

Q ss_pred             ChhHHHHHHHHHH---cCCCchHHHHHHHHHHHc--C-CCCCC--ccH----------------HHHHHHhhhhccchhh
Q 045917           63 PLFAYNTLIRAYA---KTSCSIESIKLFDEMLKT--G-LRPDN--LTY----------------PFVVKASDQCLLIGVG  118 (162)
Q Consensus        63 ~~~~~~~li~~~~---~~~~~~~a~~~~~~m~~~--~-~~p~~--~t~----------------~~li~~~~~~~~~~~a  118 (162)
                      |...|..++....   ..|+.+.+.+.+++....  | .-++.  ..|                ..+++.+...|+.+++
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a  190 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV  190 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            4555666655433   347777777777776543  2 22221  111                1233444556777777


Q ss_pred             hHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          119 GSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       119 ~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ......+.... +.+...|..||.+|.+.|+..+|.+.|++.
T Consensus       191 ~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          191 IAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            76666665442 446778888999999999999998888753

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=85.33  E-value=4.5  Score=24.56  Aligned_cols=62  Identities=11%  Similarity=0.153  Sum_probs=45.4

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC-CC---hhHHHHHHHHHHcCCC--chHHHHHHHHHHHcCCCCCC
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM-PP---LFAYNTLIRAYAKTSC--SIESIKLFDEMLKTGLRPDN   99 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~-~~---~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~   99 (162)
                      .+.+++-|. .|+.++|.+-++++. |.   .....++..+.-+.++  -+.+..++..+...|+-+..
T Consensus        10 i~~ll~EY~~~~D~~Ea~~cl~eL~~p~f~~e~V~~~i~~alE~~~~~~~e~~~~LL~~L~~~~~is~~   78 (129)
T 2nsz_A           10 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITID   78 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHH
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCCCccHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHH
Confidence            477889999 999999999999998 53   3445666666666542  35677888888877655443

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=85.07  E-value=3  Score=24.45  Aligned_cols=47  Identities=15%  Similarity=0.344  Sum_probs=33.8

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHh
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  109 (162)
                      |++....+.+.+|-+.+++.-|.+++.-.+.+ +.+...+|..+++-.
T Consensus        43 P~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqEl   89 (109)
T 1v54_E           43 PEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL   89 (109)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHHH
Confidence            77777888888888888888888888777654 334455677777654

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=84.56  E-value=6.8  Score=25.94  Aligned_cols=85  Identities=11%  Similarity=-0.007  Sum_probs=56.7

Q ss_pred             HHHHHHhhhhC--CChh----HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCcc-HHHHHHHhhhhccchhhhHHHH
Q 045917           51 HFTRSLFNNVM--PPLF----AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLT-YPFVVKASDQCLLIGVGGSVHS  123 (162)
Q Consensus        51 ~~a~~~~~~m~--~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~li~~~~~~~~~~~a~~i~~  123 (162)
                      +.+.+.|...+  .+-.    .|-..+..+ ..+...++.++|..|...||-..... |......+...|++.+|..|+.
T Consensus        61 Erc~~~F~~~~rYkND~RYLklWl~Ya~~~-~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~  139 (202)
T 3esl_A           61 ERCLIYIQDMETYRNDPRFLKIWIWYINLF-LSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLE  139 (202)
T ss_dssp             HHHHHHHTTCGGGTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhcccccccCCHHHHHHHHHHHHhh-cccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            44555555554  3322    233333332 13446799999999999988665444 5677778888899999999999


Q ss_pred             HHHHHhcCcchhH
Q 045917          124 LIFKVGLHSDKYI  136 (162)
Q Consensus       124 ~~~~~~~~~~~~~  136 (162)
                      .-.+.+-+|-...
T Consensus       140 ~GI~~~A~P~~rL  152 (202)
T 3esl_A          140 LGAENNCRPYNRL  152 (202)
T ss_dssp             HHHHTTCBSHHHH
T ss_pred             HHHHcCCccHHHH
Confidence            8888777775433

>2ion_A PDCD4, programmed cell death 4, PDCD4; alpha-helical, antitumor protein; 1.57A {Mus musculus} SCOP: a.118.1.14 PDB: 2ios_A 2iol_A

Probab=84.41  E-value=2.7  Score=26.47  Aligned_cols=90  Identities=11%  Similarity=0.087  Sum_probs=56.5

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC-CC---hhHHHHHHHHHHcCCC--chHHHHHHHHHHHcCCCCCCcc---HHHHHH
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM-PP---LFAYNTLIRAYAKTSC--SIESIKLFDEMLKTGLRPDNLT---YPFVVK  107 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~-~~---~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~t---~~~li~  107 (162)
                      .+.+++-|. .|+.++|.+-++++. |.   .....++..++-+.++  -+.+..++..+...++.+....   |..+++
T Consensus        12 i~~lL~EY~~~~D~~EA~~cl~EL~~p~f~~e~V~~~i~~alE~~~~~~re~~~~LL~~L~~~~~is~~q~~~Gf~~vl~   91 (152)
T 2ion_A           12 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQMKRGYERIYN   91 (152)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHCCCcCHHHHHHHHHHHHH
Confidence            578899999 999999999999998 53   4455666666666432  4567788888887766554433   222233


Q ss_pred             Hhhhhc-cchhhhHHHHHHHH
Q 045917          108 ASDQCL-LIGVGGSVHSLIFK  127 (162)
Q Consensus       108 ~~~~~~-~~~~a~~i~~~~~~  127 (162)
                      .+-... +...|..++..+..
T Consensus        92 ~ldDl~lDiP~A~~~la~~v~  112 (152)
T 2ion_A           92 EIPDINLDVPHSYSVLERFVE  112 (152)
T ss_dssp             HHHHHHHHSTTHHHHHHHHHH
T ss_pred             hChHhccCccchHHHHHHHHH
Confidence            322222 34455555544433

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.75  E-value=6.6  Score=25.15  Aligned_cols=29  Identities=24%  Similarity=0.306  Sum_probs=23.0

Q ss_pred             chhHHHHHHHHHHhcCChhHHHHhhcccC
Q 045917          133 DKYIGNTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       133 ~~~~~~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      +..+---+-.||.+.|++++|..+++.+|
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence            33444457789999999999999998775

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=82.68  E-value=4  Score=28.80  Aligned_cols=109  Identities=6%  Similarity=-0.076  Sum_probs=70.8

Q ss_pred             ChHHHHHHhhhhC---CChhHHHHHHHHH-HcC--CCc------hHHHHHHHHHHHcCCCCC---CccHHHHHHHhhh--
Q 045917           49 SLHFTRSLFNNVM---PPLFAYNTLIRAY-AKT--SCS------IESIKLFDEMLKTGLRPD---NLTYPFVVKASDQ--  111 (162)
Q Consensus        49 ~~~~a~~~~~~m~---~~~~~~~~li~~~-~~~--~~~------~~a~~~~~~m~~~~~~p~---~~t~~~li~~~~~--  111 (162)
                      +.......+.+..   +....|..++.+- +..  |++      +.|..++++..  .+.|+   -..|..+-..|.+  
T Consensus       136 ~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAl--eLDP~~~~GsA~~~LG~lY~~vP  213 (301)
T 3u64_A          136 DEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERAC--DLWPSYQEGAVWNVLTKFYAAAP  213 (301)
T ss_dssp             CHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHH--HHCTTHHHHHHHHHHHHHHHHSC
T ss_pred             chhhHHHHHHHcCccccHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHH--HhCCCcccCHHHHHHHHHHHhCC
Confidence            3344444555554   4455677666543 332  332      33333333333  34565   3467778888888  


Q ss_pred             ---hccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc-CChhHHHHhhcc
Q 045917          112 ---CLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC-KEIDFAKALFDE  159 (162)
Q Consensus       112 ---~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~-g~~~~a~~~~~~  159 (162)
                         .|+.++|++.|++..+.+-.-+..++...-+.|+.. |+.+.+.+.+++
T Consensus       214 p~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~k  265 (301)
T 3u64_A          214 ESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDR  265 (301)
T ss_dssp             TTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHH
T ss_pred             CccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence               499999999999998865322477778888888884 999999998865

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=81.41  E-value=13  Score=26.83  Aligned_cols=137  Identities=9%  Similarity=-0.091  Sum_probs=90.0

Q ss_pred             HHhh-chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-C-C-ChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCch-
Q 045917           11 QLSK-TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-P-I-SLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSI-   81 (162)
Q Consensus        11 ~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~-~-~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~-   81 (162)
                      ...+ .++++..+++.+.... +-+..+|+----.+. . + +.+++..+++.+-    .|..+|+---..+.+.|..+ 
T Consensus        99 ~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~  177 (349)
T 3q7a_A           99 TSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGR  177 (349)
T ss_dssp             HHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTC
T ss_pred             HHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccc
Confidence            3345 4778888888877544 334556665555555 3 6 8889999999887    57778877555555555555 


Q ss_pred             -------HHHHHHHHHHHcCCCCCCccHHHHHHHhhhhcc-------chhhhHHHHHHHHHhcCcchhHHHHHHHHHHhc
Q 045917           82 -------ESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLL-------IGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAAC  147 (162)
Q Consensus        82 -------~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~-------~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~  147 (162)
                             ++++.++++.+... -|...|+.--....+.+.       ++++.+......... +-|...|+.+-..+.+.
T Consensus       178 ~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~  255 (349)
T 3q7a_A          178 ISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHF  255 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             cchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence                   89999999987543 355566665555555554       456666666666543 34678888777777776


Q ss_pred             CCh
Q 045917          148 KEI  150 (162)
Q Consensus       148 g~~  150 (162)
                      |+.
T Consensus       256 ~~~  258 (349)
T 3q7a_A          256 SLP  258 (349)
T ss_dssp             TCC
T ss_pred             CCC
Confidence            654

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=81.00  E-value=6.8  Score=24.84  Aligned_cols=58  Identities=3%  Similarity=-0.149  Sum_probs=41.5

Q ss_pred             CCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhH
Q 045917           78 SCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYI  136 (162)
Q Consensus        78 ~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~  136 (162)
                      +++++|.++|+.++...-.. .-.|....+.-.+.|++..|++++......+..|....
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~l  131 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEML  131 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHH
Confidence            78999999999987642222 44455555666678999999999999888776554433

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.38  E-value=7.8  Score=28.63  Aligned_cols=94  Identities=12%  Similarity=-0.083  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC--CCccHHHHHHHhhhhccchhhhHHHHHHHHHhc-CcchhHHHHHH-
Q 045917           66 AYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP--DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL-HSDKYIGNTLL-  141 (162)
Q Consensus        66 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~-~~~~~~~~~ll-  141 (162)
                      ++..+-..|.+.|+.+.|.+.|.++...-..+  -...+-..++.+...+++..+......+..... .+|....+.+- 
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            56677888888999999999999987653322  233455567788888899988888877755322 12222221111 


Q ss_pred             ---HHHHhcCChhHHHHhhcc
Q 045917          142 ---RMYAACKEIDFAKALFDE  159 (162)
Q Consensus       142 ---~~y~~~g~~~~a~~~~~~  159 (162)
                         ..+...+++..|-+.|-+
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e  233 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVD  233 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHH
Confidence               112356777777776643

---

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	162
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.79
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.79
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.75
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.66
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.51
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.51
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.03
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.03
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.0
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.97
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.9
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.9
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.88
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.85
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.73
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.69
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.67
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.62
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.59
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.57
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.53
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.4
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.36
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	97.36
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.27
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.24
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.24
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.19
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.16
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.97
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.92
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.8
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.68
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.5
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.43
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.34
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.34
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.23
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.89
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	95.87
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	95.75
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	95.54
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.47
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	94.09
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	93.62
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.54
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	92.38
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	92.09
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	91.63
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.69
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	90.62
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	89.88
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	88.35
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	87.08
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	82.6
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	81.94
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	81.33
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	81.01
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	80.46

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.79  E-value=7.4e-08  Score=67.22  Aligned_cols=146  Identities=10%  Similarity=0.004  Sum_probs=76.7

Q ss_pred             HHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHH
Q 045917           11 QLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIK   85 (162)
Q Consensus        11 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~   85 (162)
                      ...|+.++|...+......+. .++..+..+-..+. .|++++|...|+...   | +..+|..+-..+...|+.++|..
T Consensus       214 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~  292 (388)
T d1w3ba_         214 KEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAED  292 (388)
T ss_dssp             HTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             hccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            334455555555555444321 22333444444455 666666666665543   2 34455555556666666666666


Q ss_pred             HHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           86 LFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        86 ~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .++..... .+.+...+..+...+.+.|++++|...++...+.. +-+..++..+-.+|.+.|++++|.+.|++
T Consensus       293 ~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~  364 (388)
T d1w3ba_         293 CYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            66554432 22334445555555666666666666665554421 12244555566666666666666666553

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.79  E-value=8.2e-08  Score=66.42  Aligned_cols=143  Identities=10%  Similarity=0.044  Sum_probs=88.6

Q ss_pred             chhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC--hhHHHHHHHHHHcCCCchHHHHHHH
Q 045917           15 TAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP--LFAYNTLIRAYAKTSCSIESIKLFD   88 (162)
Q Consensus        15 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~--~~~~~~li~~~~~~~~~~~a~~~~~   88 (162)
                      ..++|..+++...+...+.+...|.......- .|+.+.|..+|+.+.   |.  ...|...+....+.|+.+.|.++|.
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            34556666666655444445556666666666 777888888877764   32  3357777777777777888888887


Q ss_pred             HHHHcCCCCCCccHHHHHHH-hhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917           89 EMLKTGLRPDNLTYPFVVKA-SDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus        89 ~m~~~~~~p~~~t~~~li~~-~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ...+.+. .+...|...... +...|+.+.|..+++...+. .+.+...|...++.+.+.|+++.|+.+|++
T Consensus       159 ~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~  228 (308)
T d2onda1         159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFER  228 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            7755422 122222222211 22345667777777777665 234566777777777777777777777764

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=3e-07  Score=63.98  Aligned_cols=147  Identities=7%  Similarity=-0.044  Sum_probs=118.3

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~   84 (162)
                      ....+..+.|...+....... +-++..+..+-..+. .|++++|...++...    .+...+..+-..+.+.|++++|.
T Consensus       179 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  257 (388)
T d1w3ba_         179 FNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAI  257 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHH
Confidence            344466777888777766543 234566777778888 999999999999876    56777888888999999999999


Q ss_pred             HHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917           85 KLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus        85 ~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      ..|++..+.  .| +..++..+...+...|+.++|...+....... +.+...+..+..+|.+.|++++|.+.|++.
T Consensus       258 ~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  331 (388)
T d1w3ba_         258 DTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKA  331 (388)
T ss_dssp             HHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHH
Confidence            999998764  34 34567888899999999999999998887653 456788899999999999999999998763

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.66  E-value=1.6e-07  Score=64.89  Aligned_cols=155  Identities=10%  Similarity=0.010  Sum_probs=118.9

Q ss_pred             HHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHH-HHcCC
Q 045917            5 QIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRA-YAKTS   78 (162)
Q Consensus         5 ~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~-~~~~~   78 (162)
                      .+..+....|+.+.|+.+++.+.+.........|...+.... .|+++.|..+|+...   | +...|-..... +...|
T Consensus       104 ~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~  183 (308)
T d2onda1         104 AYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSK  183 (308)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcc
Confidence            345666677888999999999877554444567888888888 999999999999876   3 33334333322 34468


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHh-cCcc--hhHHHHHHHHHHhcCChhHHHH
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVG-LHSD--KYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~-~~~~--~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                      +.+.|..+|+..... .+.+...|...++...+.|+.+.|+.+|+...+.. ..|+  ...|...+..-...|+.+.+..
T Consensus       184 ~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~  262 (308)
T d2onda1         184 DKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             CHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             CHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999998764 33455678889999999999999999999987753 3333  4578888988889999999999


Q ss_pred             hhccc
Q 045917          156 LFDEM  160 (162)
Q Consensus       156 ~~~~m  160 (162)
                      +++++
T Consensus       263 ~~~r~  267 (308)
T d2onda1         263 VEKRR  267 (308)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98765

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.51  E-value=5.1e-06  Score=56.96  Aligned_cols=90  Identities=9%  Similarity=-0.129  Sum_probs=44.1

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHh
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAA  146 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~  146 (162)
                      +..+-..+...|++++|...|++..... +-+...|..+-..+.+.|++++|.+.+....+.. +-+...|..+-.+|.+
T Consensus       175 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  252 (323)
T d1fcha_         175 QCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCIN  252 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHH
Confidence            3333444445555555555555543321 1123334445555555555555555555554432 1224445555555555


Q ss_pred             cCChhHHHHhhc
Q 045917          147 CKEIDFAKALFD  158 (162)
Q Consensus       147 ~g~~~~a~~~~~  158 (162)
                      .|++++|.+.|+
T Consensus       253 ~g~~~~A~~~~~  264 (323)
T d1fcha_         253 LGAHREAVEHFL  264 (323)
T ss_dssp             HTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHH
Confidence            666665555554

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.51  E-value=4.1e-06  Score=57.44  Aligned_cols=148  Identities=11%  Similarity=-0.011  Sum_probs=106.3

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~   84 (162)
                      +-..|++++|...++...+.. +-++.+|..+-..|. .|++++|...|+...   | +...|..+...|...|++++|.
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            445578999999999887654 335667777777888 999999999998775   4 4677888888899999999999


Q ss_pred             HHHHHHHHcC-----------------------------------------------CCCC---CccHHHHHHHhhhhcc
Q 045917           85 KLFDEMLKTG-----------------------------------------------LRPD---NLTYPFVVKASDQCLL  114 (162)
Q Consensus        85 ~~~~~m~~~~-----------------------------------------------~~p~---~~t~~~li~~~~~~~~  114 (162)
                      +.+++.....                                               ..|+   ...+..+-..+...|+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~  187 (323)
T d1fcha_         108 EILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGE  187 (323)
T ss_dssp             HHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTC
T ss_pred             cchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHH
Confidence            9888764421                                               0121   2234444556666777


Q ss_pred             chhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          115 IGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       115 ~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +++|...++...... +-+...|..+-.+|.+.|++++|.+.|++
T Consensus       188 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~  231 (323)
T d1fcha_         188 YDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRR  231 (323)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             Hhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHH
Confidence            888888877776653 23466677777788888888888887764

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=0.00014  Score=50.05  Aligned_cols=140  Identities=6%  Similarity=0.000  Sum_probs=105.6

Q ss_pred             HHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CC-ChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCc
Q 045917            7 ETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PI-SLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCS   80 (162)
Q Consensus         7 ~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~-~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~   80 (162)
                      -.++.+.+..++|.++++.+...+ +-+...|+..-..+. .| ++++|...++...    .+..+|+..-..+.+.|++
T Consensus        50 ~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~  128 (315)
T d2h6fa1          50 RAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDP  128 (315)
T ss_dssp             HHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccH
Confidence            345556677889999998887763 234456666666666 55 5899999998875    4688899888889999999


Q ss_pred             hHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCC
Q 045917           81 IESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKE  149 (162)
Q Consensus        81 ~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~  149 (162)
                      ++|++.+++..+.. +-+...|..+...+.+.|++++|.+.+....+... -+...|+.+-.++.+.+.
T Consensus       129 ~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~  195 (315)
T d2h6fa1         129 SQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTG  195 (315)
T ss_dssp             TTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccc
Confidence            99999999987632 23567788888888999999999999999888653 356677766666666555

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=7e-05  Score=47.93  Aligned_cols=112  Identities=13%  Similarity=-0.062  Sum_probs=80.2

Q ss_pred             CCChHHHHHHhhhhC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHH
Q 045917           47 PISLHFTRSLFNNVM-PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLI  125 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~  125 (162)
                      .|+++.|.+.|.++. |+...|..+=..|...|++++|.+.|++-.+.. +-+...|..+-..+.+.|++++|...++..
T Consensus        18 ~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~~~~kA   96 (192)
T d1hh8a_          18 KKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIKDLKEA   96 (192)
T ss_dssp             TTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHHHHHHH
Confidence            788888888888877 777777777777888888888888888876532 123445666677777888888888877776


Q ss_pred             HHHh------------cC--cc-hhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          126 FKVG------------LH--SD-KYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       126 ~~~~------------~~--~~-~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ....            ..  ++ ..++..+-.+|.+.|++++|.+.|.+
T Consensus        97 l~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~  145 (192)
T d1hh8a_          97 LIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLAL  145 (192)
T ss_dssp             HHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5421            10  11 23455667789999999999988764

>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=98.00  E-value=2.6e-05  Score=45.85  Aligned_cols=81  Identities=10%  Similarity=-0.087  Sum_probs=50.1

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      .|++++|...|+...    .+...|..+=.+|.+.|++++|+..+....+.+ +.+...|..+-.++...|++++|...+
T Consensus        16 ~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A~~~~   94 (117)
T d1elwa_          16 VGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEAKRTY   94 (117)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHHHHHH
Confidence            566666666666654    345556666666666666666666666665432 234455566666666666666666666


Q ss_pred             HHHHHH
Q 045917          123 SLIFKV  128 (162)
Q Consensus       123 ~~~~~~  128 (162)
                      +...+.
T Consensus        95 ~~a~~~  100 (117)
T d1elwa_          95 EEGLKH  100 (117)
T ss_dssp             HHHHTT
T ss_pred             HHHHHh
Confidence            666543

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.97  E-value=2.7e-05  Score=48.20  Aligned_cols=110  Identities=12%  Similarity=0.001  Sum_probs=84.5

Q ss_pred             hhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC-ccHHHHHHHhhhhccchh
Q 045917           44 TSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN-LTYPFVVKASDQCLLIGV  117 (162)
Q Consensus        44 ~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~~~~~~~~  117 (162)
                      .|. .|++++|...|+...    .+...|..+-..|...|++++|...|++..+.  .|+. ..|..+..++...|++++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcCCHHH
Confidence            455 899999999999887    46778888999999999999999999998764  3444 678888999999999999


Q ss_pred             hhHHHHHHHHHhcCcchhHHHHHHHH--HHhcCChhHHHHh
Q 045917          118 GGSVHSLIFKVGLHSDKYIGNTLLRM--YAACKEIDFAKAL  156 (162)
Q Consensus       118 a~~i~~~~~~~~~~~~~~~~~~ll~~--y~~~g~~~~a~~~  156 (162)
                      |...+....+... -+...+..+-.+  ..+.+.+++|...
T Consensus        97 A~~~~~~a~~~~p-~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          97 ALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCC-CCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999888642 234444444333  3344556666544

>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=97.90  E-value=2.3e-05  Score=45.77  Aligned_cols=84  Identities=11%  Similarity=-0.002  Sum_probs=65.1

Q ss_pred             HHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChh
Q 045917           73 AYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEID  151 (162)
Q Consensus        73 ~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~  151 (162)
                      .+.+.|++++|...|++.....  | +...|..+-..+.+.|++++|...+....+.. +.+...|..+-.+|...|+++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~  101 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  101 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHH
Confidence            4566788888888888876642  3 45667777788888888888888888877764 345778888888888999999


Q ss_pred             HHHHhhcc
Q 045917          152 FAKALFDE  159 (162)
Q Consensus       152 ~a~~~~~~  159 (162)
                      +|.+.|++
T Consensus       102 ~A~~~l~~  109 (112)
T d1hxia_         102 AALASLRA  109 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99888765

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.90  E-value=8e-05  Score=50.53  Aligned_cols=156  Identities=8%  Similarity=-0.168  Sum_probs=108.1

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHh----cCCC-chhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKT----SLDH-NTYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNT   69 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~   69 (162)
                      ...++..++++++|.+.|......    +-++ ...+|..+-.+|. .|++++|...++...      .+    ...+..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            345667778888888888777543    2222 2356788888888 999999999988664      12    444556


Q ss_pred             HHHHHH-cCCCchHHHHHHHHHHHc----CCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcch------hHH
Q 045917           70 LIRAYA-KTSCSIESIKLFDEMLKT----GLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDK------YIG  137 (162)
Q Consensus        70 li~~~~-~~~~~~~a~~~~~~m~~~----~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~------~~~  137 (162)
                      +...|- ..|++++|...|++..+.    +-.+ -..++..+...+...|++++|...+..+.+.......      ..+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            666664 469999999999886432    2211 1334677888999999999999999998775321111      223


Q ss_pred             HHHHHHHHhcCChhHHHHhhcccC
Q 045917          138 NTLLRMYAACKEIDFAKALFDEMP  161 (162)
Q Consensus       138 ~~ll~~y~~~g~~~~a~~~~~~m~  161 (162)
                      .....+|...|+++.|.+.|++..
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~  226 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQ  226 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGG
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHH
Confidence            445557778999999999987753

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.88  E-value=4.6e-05  Score=48.47  Aligned_cols=94  Identities=6%  Similarity=-0.061  Sum_probs=74.9

Q ss_pred             CchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHH
Q 045917           33 HNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVV  106 (162)
Q Consensus        33 ~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li  106 (162)
                      |+.......=..|. .|++++|...|+..-    .+...|+.+-.+|.+.|++++|+..|++..+  +.|+ ..+|..+-
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHH
Confidence            44444444445666 899999999998765    4677899899999999999999999999864  4564 45678888


Q ss_pred             HHhhhhccchhhhHHHHHHHHH
Q 045917          107 KASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       107 ~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      .++.+.|++++|...+....+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999887664

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=8.7e-05  Score=45.80  Aligned_cols=90  Identities=8%  Similarity=0.045  Sum_probs=73.4

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESI   84 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~   84 (162)
                      +-..|++++|...|....+.. +-++..|..+-..|. .|++++|...|+...   | +..+|..+..++...|++++|.
T Consensus        20 ~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~eA~   98 (159)
T d1a17a_          20 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAAL   98 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHHHH
Confidence            345578999999999998775 346777888888888 999999999999886   4 5678999999999999999999


Q ss_pred             HHHHHHHHcCCCCCCccH
Q 045917           85 KLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        85 ~~~~~m~~~~~~p~~~t~  102 (162)
                      ..|++..+.  .|+....
T Consensus        99 ~~~~~a~~~--~p~~~~~  114 (159)
T d1a17a_          99 RDYETVVKV--KPHDKDA  114 (159)
T ss_dssp             HHHHHHHHH--STTCHHH
T ss_pred             HHHHHHHHc--CCCCHHH
Confidence            999998764  3554443

>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=97.73  E-value=0.00056  Score=43.52  Aligned_cols=129  Identities=11%  Similarity=-0.115  Sum_probs=93.5

Q ss_pred             HhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHH
Q 045917           12 LSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKL   86 (162)
Q Consensus        12 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~   86 (162)
                      ..|+++.|.+.|..+    .+|++.+|..+=..|. .|++++|...|+...    .+...|..+=.++.+.|+.++|.+-
T Consensus        17 ~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~   92 (192)
T d1hh8a_          17 DKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKD   92 (192)
T ss_dssp             HTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHH
Confidence            346788887777643    4567778888877888 999999999999886    4577888888899999999999999


Q ss_pred             HHHHHHcC------------CCCC---CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHH
Q 045917           87 FDEMLKTG------------LRPD---NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMY  144 (162)
Q Consensus        87 ~~~m~~~~------------~~p~---~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y  144 (162)
                      |++-....            ....   ..++..+-.++.+.|++++|.+.+....+....++......-+..+
T Consensus        93 ~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~~~  165 (192)
T d1hh8a_          93 LKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMECV  165 (192)
T ss_dssp             HHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHHH
T ss_pred             HHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHHHH
Confidence            99875421            1111   1233455667889999999999888777655555444444444443

>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=97.69  E-value=0.00078  Score=44.10  Aligned_cols=84  Identities=8%  Similarity=-0.101  Sum_probs=65.2

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a   83 (162)
                      ++...|+.++|.+.|+...+.. +-++.+|+.+=..|. .|++++|...|+...   | +..+|..+-..|...|++++|
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            4455578888988888887653 335677777777778 999999999999886   4 356777788888889999999


Q ss_pred             HHHHHHHHHc
Q 045917           84 IKLFDEMLKT   93 (162)
Q Consensus        84 ~~~~~~m~~~   93 (162)
                      ...|+...+.
T Consensus       125 ~~~~~~al~~  134 (259)
T d1xnfa_         125 QDDLLAFYQD  134 (259)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9999887654

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.67  E-value=0.00041  Score=47.62  Aligned_cols=122  Identities=6%  Similarity=-0.093  Sum_probs=97.9

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCC-CchHHHHHHHHHHHcCCCCCCccHHHHHHHhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTS-CSIESIKLFDEMLKTGLRPDNLTYPFVVKASD  110 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~  110 (162)
                      .++-+-..+. .+..++|...++...   | +...|+..-..+...| ++++|+..++...+.. +-+..+|..+-..+.
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~  123 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVE  123 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHH
Confidence            3444444555 889999999999987   5 4667888877877776 5899999999986642 234667788888888


Q ss_pred             hhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhccc
Q 045917          111 QCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFDEM  160 (162)
Q Consensus       111 ~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~~m  160 (162)
                      +.|+.++|...+..+.+.. +.+...|..+-.+|.+.|++++|...|++.
T Consensus       124 ~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~a  172 (315)
T d2h6fa1         124 WLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQL  172 (315)
T ss_dssp             HHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHH
T ss_pred             hhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            9999999999999998864 346889999999999999999999988753

>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=97.62  E-value=3.7e-05  Score=45.71  Aligned_cols=89  Identities=9%  Similarity=-0.004  Sum_probs=56.3

Q ss_pred             HHHHhhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCc---hHHHHHHHHHHHcCCCCCC-ccHHHHHHHhh
Q 045917           40 RFILTSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCS---IESIKLFDEMLKTGLRPDN-LTYPFVVKASD  110 (162)
Q Consensus        40 ~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~p~~-~t~~~li~~~~  110 (162)
                      .+++.+. .+++++|++.|+..-    .+..++..+-.++.+.++.   ++|..+|++....+-.|+. .++..+-.+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            4555555 677777777777665    3456666666666654443   4577777776554333332 24556667777


Q ss_pred             hhccchhhhHHHHHHHHH
Q 045917          111 QCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       111 ~~~~~~~a~~i~~~~~~~  128 (162)
                      +.|++++|.+.++.+.+.
T Consensus        84 ~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHh
Confidence            777788887777777764

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.59  E-value=0.00018  Score=45.59  Aligned_cols=83  Identities=7%  Similarity=-0.103  Sum_probs=70.4

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIES   83 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a   83 (162)
                      .+-..|++++|...|....... +.++..|+.+-.+|. .|++++|...|+...   | +..+|..+-.+|.+.|++++|
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            4456689999999999887764 446778888888888 999999999999987   5 477889999999999999999


Q ss_pred             HHHHHHHHH
Q 045917           84 IKLFDEMLK   92 (162)
Q Consensus        84 ~~~~~~m~~   92 (162)
                      +..|++..+
T Consensus        92 ~~~~~~al~  100 (201)
T d2c2la1          92 IANLQRAYS  100 (201)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998754

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.57  E-value=0.00033  Score=40.84  Aligned_cols=85  Identities=8%  Similarity=-0.068  Sum_probs=52.9

Q ss_pred             HHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917           73 AYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus        73 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      .+.+.|++++|+..|++..... +-+...|..+-.++.+.|++++|...+....+.. +.+...|..+-.+|...|++++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHH
Confidence            3455677777777777765431 2233445666666667777777777776666654 3456666666667777777777


Q ss_pred             HHHhhcc
Q 045917          153 AKALFDE  159 (162)
Q Consensus       153 a~~~~~~  159 (162)
                      |...|++
T Consensus        90 A~~~~~~   96 (117)
T d1elwa_          90 AKRTYEE   96 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766653

>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=97.53  E-value=0.0014  Score=42.81  Aligned_cols=113  Identities=12%  Similarity=-0.059  Sum_probs=83.6

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccHHHHHHHhh
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTYPFVVKASD  110 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~~~li~~~~  110 (162)
                      ++..+=..|. .|++++|...|+..-   | +..+|+.+=..|.+.|++++|...|++..+.  .| +..++..+-..+.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHH
Confidence            3444445666 999999999999886   4 5788999999999999999999999998774  34 3456777888889


Q ss_pred             hhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917          111 QCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus       111 ~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      ..|++++|...+....+... .+......+..++.+.+..+.
T Consensus       117 ~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~  157 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQA  157 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHH
Confidence            99999999999998877642 233333333344444444433

>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=97.40  E-value=0.0002  Score=42.32  Aligned_cols=94  Identities=6%  Similarity=-0.071  Sum_probs=58.3

Q ss_pred             HHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CC---ChHHHHHHhhhhC---CCh---hHHHHHHHHHH
Q 045917            6 IETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PI---SLHFTRSLFNNVM---PPL---FAYNTLIRAYA   75 (162)
Q Consensus         6 ~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~---~~~~a~~~~~~m~---~~~---~~~~~li~~~~   75 (162)
                      +++.+-..+++++|++.|+.....+.. ++.++..+=.++. .+   +.++|..+|+..-   |+.   .+|..+=.+|.
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 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            455556667788888888877775532 3344444444444 33   4456777787764   222   24555666777


Q ss_pred             cCCCchHHHHHHHHHHHcCCCCCCccH
Q 045917           76 KTSCSIESIKLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        76 ~~~~~~~a~~~~~~m~~~~~~p~~~t~  102 (162)
                      +.|++++|.+.|++..+  +.|+....
T Consensus        84 ~~g~~~~A~~~~~~aL~--~~P~~~~A  108 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ--TEPQNNQA  108 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             HHhhhHHHHHHHHHHHH--hCcCCHHH
Confidence            78888888888888766  44664433

>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=97.36  E-value=0.00074  Score=42.01  Aligned_cols=106  Identities=8%  Similarity=-0.059  Sum_probs=78.7

Q ss_pred             hhC-CCChHHHHHHhhhhC---C----------------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCC-CCccH
Q 045917           44 TSL-PISLHFTRSLFNNVM---P----------------PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRP-DNLTY  102 (162)
Q Consensus        44 ~~~-~~~~~~a~~~~~~m~---~----------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~t~  102 (162)
                      .+. .|++++|...|.+..   |                ...+|+.+-.+|.+.|++++|+..+++....  .| +..++
T Consensus        22 ~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~--~p~~~~a~   99 (170)
T d1p5qa1          22 VYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKGL   99 (170)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhc--cccchhhh
Confidence            455 899999999998664   1                1245666778889999999999999998764  34 56667


Q ss_pred             HHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhH
Q 045917          103 PFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDF  152 (162)
Q Consensus       103 ~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~  152 (162)
                      ..+-.++...|++++|...+....+... -+..+...+-.++-+.+....
T Consensus       100 ~~~g~~~~~~g~~~~A~~~~~~al~l~P-~n~~~~~~l~~~~~~~~~~~~  148 (170)
T d1p5qa1         100 SRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQRIRRQLA  148 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHH
Confidence            7788899999999999999999888642 256666666555555444443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=97.36  E-value=0.002  Score=43.39  Aligned_cols=152  Identities=13%  Similarity=-0.020  Sum_probs=101.0

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCC----CchhHHHHHHHhhC-CCChHHHHHHhhhhC-----------CChhHHHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLD----HNTYIISRFILTSL-PISLHFTRSLFNNVM-----------PPLFAYNTLI   71 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~-----------~~~~~~~~li   71 (162)
                      .+....|+.+.+...+.........    .....+......+. .+....+...+.+..           .....+....
T Consensus       141 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  220 (366)
T d1hz4a_         141 QLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRV  220 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHH
T ss_pred             HHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHH
Confidence            3444556777787777766544322    22333444444555 788777777766543           1234466677


Q ss_pred             HHHHcCCCchHHHHHHHHHHHcCCCCCC---ccHHHHHHHhhhhccchhhhHHHHHHHHH----hcCcc-hhHHHHHHHH
Q 045917           72 RAYAKTSCSIESIKLFDEMLKTGLRPDN---LTYPFVVKASDQCLLIGVGGSVHSLIFKV----GLHSD-KYIGNTLLRM  143 (162)
Q Consensus        72 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~t~~~li~~~~~~~~~~~a~~i~~~~~~~----~~~~~-~~~~~~ll~~  143 (162)
                      ..+...|++++|...+.+........+.   ..+..+...+...|++++|...++.....    +..|+ ...+..+-.+
T Consensus       221 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  300 (366)
T d1hz4a_         221 IYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQL  300 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHH
Confidence            7788899999999998876544332222   23445677888899999999998877542    33333 4567777889


Q ss_pred             HHhcCChhHHHHhhcc
Q 045917          144 YAACKEIDFAKALFDE  159 (162)
Q Consensus       144 y~~~g~~~~a~~~~~~  159 (162)
                      |.+.|++++|.+.+++
T Consensus       301 ~~~~g~~~~A~~~l~~  316 (366)
T d1hz4a_         301 YWQAGRKSDAQRVLLD  316 (366)
T ss_dssp             HHHHTCHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHH
Confidence            9999999999998864

>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=97.27  E-value=0.002  Score=39.23  Aligned_cols=86  Identities=8%  Similarity=-0.038  Sum_probs=62.1

Q ss_pred             HhhC-CCChHHHHHHhhhhC---------CC-----------hhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCcc
Q 045917           43 LTSL-PISLHFTRSLFNNVM---------PP-----------LFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLT  101 (162)
Q Consensus        43 ~~~~-~~~~~~a~~~~~~m~---------~~-----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t  101 (162)
                      ..+. .|++.+|...|.+..         ++           ..+|+.+-.+|.+.|++++|++.+++..... +.+..+
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka  103 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  103 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhh
Confidence            3445 788888888887653         11           2356667777788888888888888876542 235567


Q ss_pred             HHHHHHHhhhhccchhhhHHHHHHHHHh
Q 045917          102 YPFVVKASDQCLLIGVGGSVHSLIFKVG  129 (162)
Q Consensus       102 ~~~li~~~~~~~~~~~a~~i~~~~~~~~  129 (162)
                      |..+..++...|++++|...+....+..
T Consensus       104 ~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1         104 LYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             hHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7778888888888888888888877653

>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=97.24  E-value=0.00099  Score=39.37  Aligned_cols=52  Identities=6%  Similarity=-0.181  Sum_probs=23.7

Q ss_pred             HHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHH
Q 045917           74 YAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIF  126 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~  126 (162)
                      +.+.|++++|+..|++..+.+ +.+...+..+-.++.+.|++++|...+....
T Consensus        14 ~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_          14 AYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            344455555555555544321 1123334444445555555555555554443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.24  E-value=0.0011  Score=41.67  Aligned_cols=89  Identities=6%  Similarity=-0.048  Sum_probs=62.2

Q ss_pred             CCChHHHHHHhhhhC---C-----------------------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc
Q 045917           47 PISLHFTRSLFNNVM---P-----------------------PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL  100 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~-----------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  100 (162)
                      .|++++|...|...-   +                       ....+..+...+.+.|++++|+..+++..+.. +-+..
T Consensus        24 ~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~  102 (179)
T d2ff4a2          24 AGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREP  102 (179)
T ss_dssp             TTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             CCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHH
Confidence            788888888777653   1                       11346667777777888888888888876532 13555


Q ss_pred             cHHHHHHHhhhhccchhhhHHHHHHHH-----HhcCcchhH
Q 045917          101 TYPFVVKASDQCLLIGVGGSVHSLIFK-----VGLHSDKYI  136 (162)
Q Consensus       101 t~~~li~~~~~~~~~~~a~~i~~~~~~-----~~~~~~~~~  136 (162)
                      .|..++.++.+.|+.++|.+.|+...+     .|+.|+..+
T Consensus       103 ~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2         103 LWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            677788888888888888887777633     577777655

>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=97.19  E-value=0.00072  Score=39.03  Aligned_cols=78  Identities=12%  Similarity=-0.067  Sum_probs=63.9

Q ss_pred             CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHH
Q 045917           47 PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVH  122 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~  122 (162)
                      .|++++|...|+...   | +...|..+-..+.+.|++++|...|++..+.. +-+...+..+-..+...|++++|.+.+
T Consensus        29 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A~~~l  107 (112)
T d1hxia_          29 LANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASL  107 (112)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHHHHHH
Confidence            899999999999876   5 57788888888999999999999999876642 224666778888888999999998888


Q ss_pred             HHH
Q 045917          123 SLI  125 (162)
Q Consensus       123 ~~~  125 (162)
                      ++.
T Consensus       108 ~~~  110 (112)
T d1hxia_         108 RAW  110 (112)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            764

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.16  E-value=0.001  Score=44.84  Aligned_cols=123  Identities=7%  Similarity=-0.056  Sum_probs=88.3

Q ss_pred             HHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHHHHHcCCCchHHHHHHHHHHHc----CC-CCCCc
Q 045917           37 IISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIRAYAKTSCSIESIKLFDEMLKT----GL-RPDNL  100 (162)
Q Consensus        37 ~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~  100 (162)
                      .|..+-..|. .|++++|...|....      .+    ..+|+.+-..|.+.|++++|...+++..+.    |- .....
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            3555566777 999999999998764      22    457888899999999999999999986442    11 11123


Q ss_pred             cHHHHHHHhh-hhccchhhhHHHHHHHHH----hcCc-chhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          101 TYPFVVKASD-QCLLIGVGGSVHSLIFKV----GLHS-DKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       101 t~~~li~~~~-~~~~~~~a~~i~~~~~~~----~~~~-~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      ++..+...+- ..|++++|...+....+.    +..+ -..++..+-..|.+.|++++|...|++
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~  183 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSK  183 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHH
Confidence            3444555553 468999999988776542    1111 134578889999999999999999876

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=96.97  E-value=0.0099  Score=39.73  Aligned_cols=151  Identities=9%  Similarity=-0.064  Sum_probs=101.3

Q ss_pred             HHHHHhhchhhhcchhHHHHHhcCCCc----hhHHHHHHHhhC-CCChHHHHHHhhhhC------CC----hhHHHHHHH
Q 045917            8 TLIQLSKTAHHHHQLPALFLKTSLDHN----TYIISRFILTSL-PISLHFTRSLFNNVM------PP----LFAYNTLIR   72 (162)
Q Consensus         8 ~~l~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~ll~~~~-~~~~~~a~~~~~~m~------~~----~~~~~~li~   72 (162)
                      .+....|+.++|.+.++.........+    ...++.+-..|. .|++++|...|++..      ++    ...+..+-.
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            344556899999999998876543222    124455556667 999999999999774      22    345666777


Q ss_pred             HHHcCCCchHHHHHHHHHHHc----CCCCCC---ccHHHHHHHhhhhccchhhhHHHHHHHHHhc----CcchhHHHHHH
Q 045917           73 AYAKTSCSIESIKLFDEMLKT----GLRPDN---LTYPFVVKASDQCLLIGVGGSVHSLIFKVGL----HSDKYIGNTLL  141 (162)
Q Consensus        73 ~~~~~~~~~~a~~~~~~m~~~----~~~p~~---~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~----~~~~~~~~~ll  141 (162)
                      .+...|++..+...+.+....    +..+..   ..+..+-..+...|+++.+...+........    ......+..+.
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            888899999999999886432    222211   2334455677788999999998887766432    22334455566


Q ss_pred             HHHHhcCChhHHHHhhc
Q 045917          142 RMYAACKEIDFAKALFD  158 (162)
Q Consensus       142 ~~y~~~g~~~~a~~~~~  158 (162)
                      ..+...|+.+.+...+.
T Consensus       180 ~~~~~~~~~~~a~~~~~  196 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLN  196 (366)
T ss_dssp             HHHHHHTCHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHH
Confidence            67777888887776654

>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=96.92  E-value=0.0012  Score=41.48  Aligned_cols=92  Identities=8%  Similarity=0.016  Sum_probs=71.0

Q ss_pred             HHHhhchhhhcchhHHHHHh--cCC-Cc------------------hhHHHHHHHhhC-CCChHHHHHHhhhhC----CC
Q 045917           10 IQLSKTAHHHHQLPALFLKT--SLD-HN------------------TYIISRFILTSL-PISLHFTRSLFNNVM----PP   63 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~--~~~-~~------------------~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~   63 (162)
                      ....|+.++|.+.+......  |-. ++                  ...+..+...+. .|++++|...++...    -+
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            34457788888777777653  211 11                  134566777788 999999999999886    57


Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHHHH-----cCCCCCCcc
Q 045917           64 LFAYNTLIRAYAKTSCSIESIKLFDEMLK-----TGLRPDNLT  101 (162)
Q Consensus        64 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~t  101 (162)
                      ...|..++.+|.+.|+..+|++.|++..+     .|+.|+..+
T Consensus       101 e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2         101 EPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            88899999999999999999999999743     599998654

>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=96.80  E-value=0.01  Score=36.43  Aligned_cols=111  Identities=12%  Similarity=-0.044  Sum_probs=79.1

Q ss_pred             HHHhhC-CCChHHHHHHhhhhC--------------------CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCC
Q 045917           41 FILTSL-PISLHFTRSLFNNVM--------------------PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDN   99 (162)
Q Consensus        41 ll~~~~-~~~~~~a~~~~~~m~--------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~   99 (162)
                      .-..+. .|++++|...|.+..                    .+...|+.+-.++.+.|++++|+..+++..+.. +-+.
T Consensus        33 ~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~  111 (169)
T d1ihga1          33 IGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNT  111 (169)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhh
Confidence            344455 788888888776542                    234456667778888999999999999987643 2345


Q ss_pred             ccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHH
Q 045917          100 LTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFA  153 (162)
Q Consensus       100 ~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a  153 (162)
                      ..|..+-.++.+.|++++|...+....+.. +.+..+...+-.++-+.....++
T Consensus       112 ~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1         112 KALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            567778889999999999999999988864 23566666666666555444443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.68  E-value=0.0079  Score=37.08  Aligned_cols=95  Identities=8%  Similarity=-0.109  Sum_probs=70.3

Q ss_pred             HHHHhhchhhhcchhHHHHHhcCC-Cc-------------hhHHHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTSLD-HN-------------TYIISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNT   69 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~~~-~~-------------~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~   69 (162)
                      .+-..|++++|...|......-.. +.             ..+|+.+-.+|. .|++++|...++...   | ++.+|.-
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            344457889999999887654221 11             234555666677 999999999999876   5 6888889


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHH
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFV  105 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~l  105 (162)
                      +-.+|...|++++|...|++..+  +.|+.......
T Consensus       102 ~g~~~~~~g~~~~A~~~~~~al~--l~P~n~~~~~~  135 (170)
T d1p5qa1         102 RGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQ  135 (170)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHH--hCCCCHHHHHH
Confidence            99999999999999999999876  45655444333

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.50  E-value=0.0031  Score=37.08  Aligned_cols=84  Identities=5%  Similarity=-0.033  Sum_probs=58.5

Q ss_pred             hhC-CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCc-------cHHHHHHHhhh
Q 045917           44 TSL-PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNL-------TYPFVVKASDQ  111 (162)
Q Consensus        44 ~~~-~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------t~~~li~~~~~  111 (162)
                      .+. .|++++|...|++..    .+...|..+-.+|.+.|++++|.+.+++..+..- .+..       +|..+-..+..
T Consensus        13 ~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~-~~~~~~~~~a~~~~~lg~~~~~   91 (128)
T d1elra_          13 DAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGR-ENREDYRQIAKAYARIGNSYFK   91 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH-HSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHHHHHHH
Confidence            455 788999999888776    4577888888888889999999999988754211 1122       34444455566


Q ss_pred             hccchhhhHHHHHHHHH
Q 045917          112 CLLIGVGGSVHSLIFKV  128 (162)
Q Consensus       112 ~~~~~~a~~i~~~~~~~  128 (162)
                      .+++++|...+......
T Consensus        92 ~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          92 EEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHhc
Confidence            66777787777666543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=96.43  E-value=0.016  Score=34.96  Aligned_cols=55  Identities=9%  Similarity=-0.172  Sum_probs=33.4

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      ++.+-.+|. .|++++|...++..-   | +..+|-.+-.++...|++++|...|++..+
T Consensus        70 ~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          70 NLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444455 666666666666554   3 456666666666666666666666666544

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.34  E-value=0.011  Score=35.73  Aligned_cols=94  Identities=9%  Similarity=-0.152  Sum_probs=62.4

Q ss_pred             HHHHH--HHHHHcCCCchHHHHHHHHHHHc-CCCCC----------CccHHHHHHHhhhhccchhhhHHHHHHHHHh---
Q 045917           66 AYNTL--IRAYAKTSCSIESIKLFDEMLKT-GLRPD----------NLTYPFVVKASDQCLLIGVGGSVHSLIFKVG---  129 (162)
Q Consensus        66 ~~~~l--i~~~~~~~~~~~a~~~~~~m~~~-~~~p~----------~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~---  129 (162)
                      +|..+  -..+.+.|++++|+..|++-.+. .-.|+          ...|+.+-.++.+.|++++|..-+....+..   
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            44444  33444568888888888886542 11122          2456777888888999998888777765421   


Q ss_pred             c--Cc-----chhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          130 L--HS-----DKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       130 ~--~~-----~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .  .+     ....+..+=.+|.+.|++++|...|++
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~  125 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKK  125 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            1  11     122456677889999999999998875

>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=96.34  E-value=0.0055  Score=37.68  Aligned_cols=92  Identities=13%  Similarity=0.003  Sum_probs=69.0

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHc--------------CCCC-CCccHHHHHHHhhhhccchhhhHHHHHHHHHhcC
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLKT--------------GLRP-DNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLH  131 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~--------------~~~p-~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~  131 (162)
                      +...-..+.+.|++++|+..|++..+.              .+.| +...+..+-..+.+.|++++|...+....+.. +
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            344455667789999999988776431              0111 23345556677888999999999999988764 3


Q ss_pred             cchhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          132 SDKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       132 ~~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      .+...|..+-.+|.+.|++++|.+.|++
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~  136 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKK  136 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHH
Confidence            4678899999999999999999998875

>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=96.23  E-value=0.026  Score=34.52  Aligned_cols=106  Identities=11%  Similarity=-0.003  Sum_probs=74.8

Q ss_pred             HhhC-CCChHHHHHHhhhhC------C-------------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccH
Q 045917           43 LTSL-PISLHFTRSLFNNVM------P-------------PLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTY  102 (162)
Q Consensus        43 ~~~~-~~~~~~a~~~~~~m~------~-------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~  102 (162)
                      ..+. .|++.+|...|+...      +             ....|+.+-.+|.+.|++++|+..+++..+.. +.+..+|
T Consensus        23 ~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~  101 (168)
T d1kt1a1          23 TVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGL  101 (168)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHH
Confidence            3455 899999999988654      1             12235556667888999999999999987642 3456667


Q ss_pred             HHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917          103 PFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus       103 ~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      ..+..++...|++++|...+....+.. +.+..+...+-.+..+.+..
T Consensus       102 ~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~~~~~~  148 (168)
T d1kt1a1         102 YRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQKKAKEH  148 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHhH
Confidence            778889999999999999999987653 23455555555454444433

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=95.89  E-value=0.002  Score=43.14  Aligned_cols=45  Identities=7%  Similarity=-0.057  Sum_probs=21.8

Q ss_pred             CCChHHHHHHhhhhC----CChhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           47 PISLHFTRSLFNNVM----PPLFAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      .|++++|...+++..    .|...+..+...|+..|++++|...|+...
T Consensus         9 ~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~   57 (264)
T d1zbpa1           9 EGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSI   57 (264)
T ss_dssp             TTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            344555555544443    234445555555555555555555555443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.87  E-value=0.017  Score=39.19  Aligned_cols=27  Identities=11%  Similarity=-0.126  Sum_probs=21.8

Q ss_pred             chhHHHHHHHHHHhcCChhHHHHhhcc
Q 045917          133 DKYIGNTLLRMYAACKEIDFAKALFDE  159 (162)
Q Consensus       133 ~~~~~~~ll~~y~~~g~~~~a~~~~~~  159 (162)
                      +...+..+-.+|.+.|+.++|.+.|++
T Consensus       275 ~~~~~~~l~~~~~~~~~~~eA~~~~~~  301 (334)
T d1dcea1         275 CLLTIILLMRALDPLLYEKETLQYFST  301 (334)
T ss_dssp             HHHHHHHHHHHHCTGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            456677788888899999999988875

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=95.75  E-value=0.037  Score=33.76  Aligned_cols=97  Identities=6%  Similarity=-0.100  Sum_probs=69.1

Q ss_pred             HHHHhhchhhhcchhHHHHHhc---CCCc-----------hhHHHHHHHhhC-CCChHHHHHHhhhhC----CChhHHHH
Q 045917            9 LIQLSKTAHHHHQLPALFLKTS---LDHN-----------TYIISRFILTSL-PISLHFTRSLFNNVM----PPLFAYNT   69 (162)
Q Consensus         9 ~l~~~~~~~~a~~~~~~~~~~~---~~~~-----------~~~~~~ll~~~~-~~~~~~a~~~~~~m~----~~~~~~~~   69 (162)
                      .+-..|++.+|...|......-   ..++           ...|+.+-.+|. .|++++|...++...    .+..+|..
T Consensus        24 ~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~  103 (168)
T d1kt1a1          24 VYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYR  103 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHH
Confidence            3455678899999987765321   1111           122334445566 999999999999876    56778888


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHH
Q 045917           70 LIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVK  107 (162)
Q Consensus        70 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~  107 (162)
                      +-.++...|++++|...|.+..+  +.|+.......+.
T Consensus       104 ~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l~  139 (168)
T d1kt1a1         104 RGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQIF  139 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            88999999999999999999876  5576655444433

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.54  E-value=0.028  Score=38.02  Aligned_cols=139  Identities=5%  Similarity=-0.025  Sum_probs=83.9

Q ss_pred             hhhcchhHHHHHhcCCCch-hHHHH---HHHhhC--------CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCC--
Q 045917           17 HHHHQLPALFLKTSLDHNT-YIISR---FILTSL--------PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTS--   78 (162)
Q Consensus        17 ~~a~~~~~~~~~~~~~~~~-~~~~~---ll~~~~--------~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~--   78 (162)
                      ++|.+++....+..  |+- ..|+.   ++....        .|.+++|...++...   | +...|..+-.++...+  
T Consensus        46 ~~al~~~~~~l~~~--P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~  123 (334)
T d1dcea1          46 ESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEP  123 (334)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccc
Confidence            56777777776543  432 23322   222222        234667777777764   3 5666766666665654  


Q ss_pred             CchHHHHHHHHHHHcCCCCCCccHHH-HHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhh
Q 045917           79 CSIESIKLFDEMLKTGLRPDNLTYPF-VVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALF  157 (162)
Q Consensus        79 ~~~~a~~~~~~m~~~~~~p~~~t~~~-li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~  157 (162)
                      +.++|...+.+..+..- ++...+.. .-..+...+..++|...+....+... -+...|..+-.+|.+.|++++|...+
T Consensus       124 ~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~  201 (334)
T d1dcea1         124 NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQG  201 (334)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            46788888888766421 22333332 33455556778888887777766543 45777888888888888888776555


Q ss_pred             cc
Q 045917          158 DE  159 (162)
Q Consensus       158 ~~  159 (162)
                      .+
T Consensus       202 ~~  203 (334)
T d1dcea1         202 RL  203 (334)
T ss_dssp             SS
T ss_pred             HH
Confidence            43

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=95.47  E-value=0.0014  Score=43.90  Aligned_cols=108  Identities=11%  Similarity=-0.012  Sum_probs=70.7

Q ss_pred             hhchhhhcchhHHHHHhcCCCchhHHHHHHHhhC-CCChHHHHHHhhhhC---CC-hhHHHHHHHHHHcCCCchHHHHHH
Q 045917           13 SKTAHHHHQLPALFLKTSLDHNTYIISRFILTSL-PISLHFTRSLFNNVM---PP-LFAYNTLIRAYAKTSCSIESIKLF   87 (162)
Q Consensus        13 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~a~~~~~~m~---~~-~~~~~~li~~~~~~~~~~~a~~~~   87 (162)
                      .|++++|...+....+.. +-++..+..+...++ .|++++|...|+...   |+ ...+..+-..+.       +..-.
T Consensus         9 ~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~-------a~~~~   80 (264)
T d1zbpa1           9 EGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVK-------AAQAR   80 (264)
T ss_dssp             TTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH-------HHHHH
T ss_pred             CCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH-------hcccc
Confidence            478899999998887764 557788999999999 999999999999887   54 333333322222       22222


Q ss_pred             HHHHHc----CCCCCCcc---HHHHHHHhhhhccchhhhHHHHHHHHH
Q 045917           88 DEMLKT----GLRPDNLT---YPFVVKASDQCLLIGVGGSVHSLIFKV  128 (162)
Q Consensus        88 ~~m~~~----~~~p~~~t---~~~li~~~~~~~~~~~a~~i~~~~~~~  128 (162)
                      .+....    .+..+...   .......+...|+.++|...+..+.+.
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            333221    12112222   233345667789999999998887765

>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=94.09  E-value=0.24  Score=29.44  Aligned_cols=81  Identities=17%  Similarity=0.034  Sum_probs=57.6

Q ss_pred             CCChHHHHHHhhhhC------CC----------hhHHHHHHHHHHcCCCchHHHHHHHHHHHc-----CCCCCC-----c
Q 045917           47 PISLHFTRSLFNNVM------PP----------LFAYNTLIRAYAKTSCSIESIKLFDEMLKT-----GLRPDN-----L  100 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~------~~----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~p~~-----~  100 (162)
                      .|++++|...|++..      |+          ...|+.+-.+|.+.|++++|..-+++....     ...++.     .
T Consensus        22 ~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  101 (156)
T d2hr2a1          22 AGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWIS  101 (156)
T ss_dssp             HTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHH
Confidence            678888888877664      22          356888888889999999999888886532     222221     1


Q ss_pred             cHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917          101 TYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus       101 t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      .++.+-.++...|++++|...+....+
T Consensus       102 a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1         102 AVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            355566788888999999988887654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=93.62  E-value=0.13  Score=30.42  Aligned_cols=30  Identities=10%  Similarity=-0.051  Sum_probs=17.3

Q ss_pred             HHHhhchhhhcchhHHHHHhcCCCchhHHHH
Q 045917           10 IQLSKTAHHHHQLPALFLKTSLDHNTYIISR   40 (162)
Q Consensus        10 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   40 (162)
                      +.+.+.+++|.+.++...+.. |.++..+..
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~   36 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTR   36 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHH
Confidence            345566777777777776654 333333333

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.54  E-value=0.14  Score=28.44  Aligned_cols=59  Identities=10%  Similarity=0.035  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHH
Q 045917           83 SIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLR  142 (162)
Q Consensus        83 a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~  142 (162)
                      ..+-++.+....+.|++....+.+++|-+.+++..|..+++.+..+ +.++...|..++.
T Consensus        25 ~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          25 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            3334444444556666666666666666666666666666555433 2233445554443

>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=92.38  E-value=0.2  Score=27.23  Aligned_cols=17  Identities=0%  Similarity=-0.142  Sum_probs=9.3

Q ss_pred             HHcCCCchHHHHHHHHH
Q 045917           74 YAKTSCSIESIKLFDEM   90 (162)
Q Consensus        74 ~~~~~~~~~a~~~~~~m   90 (162)
                      +.+.|++++|...|++-
T Consensus        15 ~~~~g~y~~A~~~~~~A   31 (95)
T d1tjca_          15 AYTEADYYHTELWMEQA   31 (95)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHH
Confidence            34455566665555554

>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=92.09  E-value=0.3  Score=26.42  Aligned_cols=51  Identities=10%  Similarity=0.006  Sum_probs=36.9

Q ss_pred             HHhhC-CCChHHHHHHhhhhC----------CC-hhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 045917           42 ILTSL-PISLHFTRSLFNNVM----------PP-LFAYNTLIRAYAKTSCSIESIKLFDEMLK   92 (162)
Q Consensus        42 l~~~~-~~~~~~a~~~~~~m~----------~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~   92 (162)
                      =..+. .|++++|...|++..          ++ ..+++.+=.++.+.|++++|.+.|++..+
T Consensus        12 G~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          12 GKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            33445 888888888887653          11 34577777888888888888888888765

>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=91.63  E-value=0.11  Score=37.45  Aligned_cols=79  Identities=6%  Similarity=-0.128  Sum_probs=46.6

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-CccHHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHH
Q 045917           67 YNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYA  145 (162)
Q Consensus        67 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~  145 (162)
                      +..+=..+...|++++|...|++..+.  .|+ ...|+.+-..+...|+..+|...+....... +|....+..|...|.
T Consensus       155 ~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         155 LVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            444444555566777777777665442  333 3456666666666677766666665555433 355666666666665


Q ss_pred             hcC
Q 045917          146 ACK  148 (162)
Q Consensus       146 ~~g  148 (162)
                      +..
T Consensus       232 ~~~  234 (497)
T d1ya0a1         232 KAL  234 (497)
T ss_dssp             HHT
T ss_pred             Hhh
Confidence            544

>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=90.69  E-value=0.9  Score=26.58  Aligned_cols=56  Identities=9%  Similarity=-0.160  Sum_probs=31.8

Q ss_pred             HHHHHHHhhhhccchhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          102 YPFVVKASDQCLLIGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       102 ~~~li~~~~~~~~~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +...++.....|.-+.-+++...+.+.+ +|++...-.+-.+|-+.|...++-.++.
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~  144 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLI  144 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHH
Confidence            4444555555555556666666655533 4555666666666666666666666554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=90.62  E-value=1.2  Score=30.19  Aligned_cols=106  Identities=7%  Similarity=-0.109  Sum_probs=66.9

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccch
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIG  116 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~  116 (162)
                      |..++..+. .+++..|...+.... +..+|..+...+....+..-+     .+.......+......++..|-..|.++
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~-~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e  116 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN-STRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFE  116 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT-CHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC-CHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChH
Confidence            345555556 666666666655443 444666667766665544432     2222334445555677888888888888


Q ss_pred             hhhHHHHHHHHHhcCcchhHHHHHHHHHHhcCCh
Q 045917          117 VGGSVHSLIFKVGLHSDKYIGNTLLRMYAACKEI  150 (162)
Q Consensus       117 ~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g~~  150 (162)
                      +...+++..... -..+...++.++.+|++.+.-
T Consensus       117 ~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~~  149 (336)
T d1b89a_         117 ELITMLEAALGL-ERAHMGMFTELAILYSKFKPQ  149 (336)
T ss_dssp             HHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHcC-CccchHHHHHHHHHHHHhChH
Confidence            887777765432 245677889999999997653

>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=89.88  E-value=0.22  Score=29.37  Aligned_cols=33  Identities=6%  Similarity=-0.079  Sum_probs=16.8

Q ss_pred             chhhhHHHHHHHHHhcCcchhHHHHHHHHHHhcC
Q 045917          115 IGVGGSVHSLIFKVGLHSDKYIGNTLLRMYAACK  148 (162)
Q Consensus       115 ~~~a~~i~~~~~~~~~~~~~~~~~~ll~~y~~~g  148 (162)
                      +++|...++...+.. +.+...|..+=.+|...|
T Consensus        57 ~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g   89 (145)
T d1zu2a1          57 IQEAITKFEEALLID-PKKDEAVWCIGNAYTSFA   89 (145)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcc
Confidence            445555555555443 223555555555555443

>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=88.35  E-value=0.56  Score=33.52  Aligned_cols=45  Identities=13%  Similarity=0.132  Sum_probs=22.1

Q ss_pred             CCChHHHHHHhhhhC---C-ChhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 045917           47 PISLHFTRSLFNNVM---P-PLFAYNTLIRAYAKTSCSIESIKLFDEML   91 (162)
Q Consensus        47 ~~~~~~a~~~~~~m~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~   91 (162)
                      .+++++|...|+...   | +..+|+.+=..+...|+..+|...|.+-.
T Consensus       165 ~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral  213 (497)
T d1ya0a1         165 RNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSI  213 (497)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455555555555443   2 23445555555555555555555554443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.08  E-value=0.79  Score=26.42  Aligned_cols=44  Identities=20%  Similarity=0.027  Sum_probs=18.5

Q ss_pred             cchhhhHHHHHHHHHhcCcc-hhHHHHHHHHHHhcCChhHHHHhhc
Q 045917          114 LIGVGGSVHSLIFKVGLHSD-KYIGNTLLRMYAACKEIDFAKALFD  158 (162)
Q Consensus       114 ~~~~a~~i~~~~~~~~~~~~-~~~~~~ll~~y~~~g~~~~a~~~~~  158 (162)
                      +..+|..+++.+.+.+. .+ ...+-.|--+|.+.|++++|.+.++
T Consensus        53 d~~~gI~lLe~~~~~~p-~~~rd~lY~Lav~yyklgdy~~A~~~~~   97 (124)
T d2pqrb1          53 DERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVD   97 (124)
T ss_dssp             HHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            34444455544443321 11 1222233334555555555555544

>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=82.60  E-value=3.1  Score=24.26  Aligned_cols=83  Identities=10%  Similarity=-0.172  Sum_probs=59.0

Q ss_pred             CChHHHHHHhhhhCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHhhhhccchhhhHHHHHHHH
Q 045917           48 ISLHFTRSLFNNVMPPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKASDQCLLIGVGGSVHSLIFK  127 (162)
Q Consensus        48 ~~~~~a~~~~~~m~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~~~~~~~~~a~~i~~~~~~  127 (162)
                      +++.....-+-.+..+..-.+-.+....+.|+-++-.++++++.. .-+|++...-.+-.+|.+.|+..++.++..+.-+
T Consensus        70 ~Nlk~vv~C~~~~n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          70 QNLKSVVECGVINNTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             SCTHHHHHHHHHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcHHHHHHHHHHhcchHHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            344444444433334555567778888888988888899998655 3456666667788899999999999999988888


Q ss_pred             HhcC
Q 045917          128 VGLH  131 (162)
Q Consensus       128 ~~~~  131 (162)
                      .|.+
T Consensus       149 ~G~K  152 (161)
T d1wy6a1         149 KGEK  152 (161)
T ss_dssp             TTCH
T ss_pred             HhHH
Confidence            8763

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.94  E-value=3.1  Score=23.85  Aligned_cols=61  Identities=13%  Similarity=0.195  Sum_probs=44.7

Q ss_pred             HHHHHHhhC-CCChHHHHHHhhhhC-CC---hhHHHHHHHHHHcCCCch-H-HHHHHHHHHHcCCCCC
Q 045917           38 ISRFILTSL-PISLHFTRSLFNNVM-PP---LFAYNTLIRAYAKTSCSI-E-SIKLFDEMLKTGLRPD   98 (162)
Q Consensus        38 ~~~ll~~~~-~~~~~~a~~~~~~m~-~~---~~~~~~li~~~~~~~~~~-~-a~~~~~~m~~~~~~p~   98 (162)
                      ...+++-|. .|+.++|.+-++++. |.   ...+.++..+.-+.++-. + +..++..+...|+.+.
T Consensus        10 ~~~ll~EY~~~~D~~Ea~~~l~eL~~p~~~~e~V~~~i~~ale~~~~~r~~~~~~Ll~~L~~~~~is~   77 (129)
T d2nsza1          10 IDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITI   77 (129)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHCCCCCH
Confidence            578899999 999999999999998 43   345555666665655543 3 5679999988776443

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=81.33  E-value=2.8  Score=23.02  Aligned_cols=47  Identities=15%  Similarity=0.344  Sum_probs=34.6

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCCCccHHHHHHHh
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPDNLTYPFVVKAS  109 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~li~~~  109 (162)
                      |.+....+.+.+|-+.+++.-|.+++.-.+.+ +.++...|..+++-.
T Consensus        39 PeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqel   85 (105)
T d1v54e_          39 PEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQEL   85 (105)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHHH
Confidence            88888888888888888888888888877644 434566676665543

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.01  E-value=1.5  Score=27.30  Aligned_cols=59  Identities=5%  Similarity=-0.129  Sum_probs=31.6

Q ss_pred             chhHHHHHHHHhhchhhhcchhHHHHHhcCCCchhHHHHHHHhhCCCChHHHHHHhhhh
Q 045917            2 ISRQIETLIQLSKTAHHHHQLPALFLKTSLDHNTYIISRFILTSLPISLHFTRSLFNNV   60 (162)
Q Consensus         2 ~~~~~~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~a~~~~~~m   60 (162)
                      |+++++..+...|+++..++++..-...--..|..-++.|..+...|+.+-+.-+.+..
T Consensus         2 ~~~~~~~~~a~~G~~~~v~~~l~~~~~~~~~~D~~G~TpLh~Aa~~g~~e~~~~l~~~~   60 (223)
T d1uoha_           2 VSNLMVCNLAYSGKLEELKESILADKSLATRTDQDSRTALHWACSAGHTEIVEFLLQLG   60 (223)
T ss_dssp             CSSSHHHHHHHTTCHHHHHHHHHHCGGGGGCCCTTSCCHHHHHHHHTCHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHhCCCcCcCcCCCCCCHHHHHHHhhhhcccccccccc
Confidence            45677777888888887766654422111123333334433332256666555555443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=80.46  E-value=6.4  Score=26.51  Aligned_cols=89  Identities=8%  Similarity=0.036  Sum_probs=54.7

Q ss_pred             CChhHHHHHHHHHHcCCCchHHHHHHHHHHHcCCCCC-----------CccHHHHHHHhhhhccchhhhHHHHHHHHHhc
Q 045917           62 PPLFAYNTLIRAYAKTSCSIESIKLFDEMLKTGLRPD-----------NLTYPFVVKASDQCLLIGVGGSVHSLIFKVGL  130 (162)
Q Consensus        62 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-----------~~t~~~li~~~~~~~~~~~a~~i~~~~~~~~~  130 (162)
                      ++..-....+..+.+..+++...++.....+.  .|+           ...-.-+++.+.+.+++......++.....| 
T Consensus       202 ~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n-  278 (336)
T d1b89a_         202 TDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN-  278 (336)
T ss_dssp             TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC-
T ss_pred             hhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC-
Confidence            44444555667777777777777766665442  121           1122344555555566666666666655544 


Q ss_pred             CcchhHHHHHHHHHHhcCChhHHHH
Q 045917          131 HSDKYIGNTLLRMYAACKEIDFAKA  155 (162)
Q Consensus       131 ~~~~~~~~~ll~~y~~~g~~~~a~~  155 (162)
                        +..+.++|.+.|...++++.-++
T Consensus       279 --~~~vn~al~~lyie~~d~~~l~~  301 (336)
T d1b89a_         279 --NKSVNESLNNLFITEEDYQALRT  301 (336)
T ss_dssp             --CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             --hHHHHHHHHHHHhCcchhHHHHH
Confidence              34688999999999998655443