Citrus Sinensis ID: 043265

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-----
Protein Sequence
DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRDKTT
Secondary Structure (PSIPRED)
ccHHHHHHHHHcccHHHHHHHHHHcHHccccccHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHcHHcccccccHHHHHHHHHHHcccccHHHHHHHHHHcccccccccHHHHHHccccccccccccccHHHHHHHHHHHcccccccHHHHHcccHHHHHHHHHHHHHHHHHHHHccccccccEEEEEcccccccHHHHHHHHHHHHHccEEEEccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHcHHHccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccEEEEEccEEEcccHHHHHHHHHHHcccEEEEEcccc
Coil and Loop (DISEMBL)
DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAgkrfendgvrpnwsTFVGVITAcgcfgavdegFQHFesvtrdydinptlehFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAqtepglllgepssslrlsnkkkdagympyteYVLRDLDQeakekpqtyRSERLAVAYGlistppgrtlrikknlriCGECHNFIKKLSSIENREIIVRDKTT
Flexible Loop (DISEMBL)
dlnselkhlcrEREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKrfendgvrpNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTepglllgepssslrlsnkkkdagymPYTEYVLRDLDQEAKEKPQTYRSERLAvayglistppgrtlriKKNLRICGECHNfikklssienreiivrdktt
Low Complexity Region (SEG)
DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTepglllgepssslrlsNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRDKTT
Disordered region (IsUnstruct)
********LCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLL******************YMPYTEYVLRD**************ERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIV*****
Disordered Region (DISOPRED)
DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDAS*VVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRDKT*
Disordered Region (DISEMBL)
DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRDKTT
Disordered Region (DISPRO)
DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRDK**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRDKTT
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	245	2.2.26 [Sep-21-2011]
Q9ZQE5	579	Pentatricopeptide repeat-	yes	no	0.746	0.316	0.356	3e-37
P0C7R1	239	Pentatricopeptide repeat-	no	no	0.338	0.347	0.674	6e-28
Q9SI53	630	Pentatricopeptide repeat-	no	no	0.979	0.380	0.272	3e-26
O23266	612	Pentatricopeptide repeat-	no	no	0.942	0.377	0.297	5e-24
Q0WSH6	684	Pentatricopeptide repeat-	no	no	0.746	0.267	0.320	1e-23
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.787	0.181	0.278	5e-23
Q9SUH6	792	Pentatricopeptide repeat-	no	no	0.755	0.233	0.298	1e-21
Q680H3	615	Pentatricopeptide repeat-	no	no	0.751	0.299	0.307	2e-21
Q9FIB2	995	Putative pentatricopeptid	no	no	0.771	0.189	0.302	3e-21
Q9SMZ2	990	Pentatricopeptide repeat-	no	no	0.963	0.238	0.287	2e-20

>sp|Q9ZQE5|PP153_ARATH Pentatricopeptide repeat-containing protein At2g15690 OS=Arabidopsis thaliana GN=PCMP-H66 PE=2 SV=2

 Score =  155 bits (391), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 82/230 (35%), Positives = 122/230 (53%), Gaps = 47/230 (20%)

Query: 60  GVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAE 119
           G++PN  TF+ V  AC   G ++E F HF+S+  ++ I+P  EH+LG++ + G+   + E
Sbjct: 332 GLKPNEETFLTVFLACATVGGIEEAFLHFDSMKNEHGISPKTEHYLGVLGVLGKCGHLVE 391

Query: 120 AREFIRNMQIDASSVVWETLEKYAQTEPGLLLGE----------------------PSSS 157
           A ++IR++  + ++  WE +  YA+    + L +                      P  S
Sbjct: 392 AEQYIRDLPFEPTADFWEAMRNYARLHGDIDLEDYMEELMVDVDPSKAVINKIPTPPPKS 451

Query: 158 LRLSN-------------------------KKKDAGYMPYTEYVLRDLDQEAKEKPQTYR 192
            + +N                          KK   Y+P T +VL D+DQEAKE+   Y 
Sbjct: 452 FKETNMVTSKSRILEFRNLTFYKDEAKEMAAKKGVVYVPDTRFVLHDIDQEAKEQALLYH 511

Query: 193 SERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           SERLA+AYG+I TPP +TL I KNLR+CG+CHNFIK +S I  R +IVRD
Sbjct: 512 SERLAIAYGIICTPPRKTLTIIKNLRVCGDCHNFIKIMSKIIGRVLIVRD 561

Arabidopsis thaliana (taxid: 3702)

>sp|P0C7R1|PPR74_ARATH Pentatricopeptide repeat-containing protein At1g47580, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H50 PE=2 SV=1

 Score =  124 bits (311), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 56/83 (67%), Positives = 71/83 (85%)

Query: 160 LSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRI 219
           L  + +DAGY+P T+YVL D+D+EAKEK   + SERLA+A+G+I+TPPG T+R+ KNLRI
Sbjct: 139 LGKEVRDAGYVPETKYVLHDIDEEAKEKALMHHSERLAIAFGIINTPPGTTIRVMKNLRI 198

Query: 220 CGECHNFIKKLSSIENREIIVRD 242
           CG+CHNFIK LSSIE+REIIVRD
Sbjct: 199 CGDCHNFIKILSSIEDREIIVRD 221

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H44 PE=2 SV=1

 Score =  118 bits (296), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 86/316 (27%), Positives = 146/316 (46%), Gaps = 76/316 (24%)

Query: 3   NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVR 62
           N+ +   C+   ++ AL V +++K   +   S  I  L       + L+  +R ++ G +
Sbjct: 297 NALVDMYCKCGSLEDALRVFNQMKERDVITWSTMISGLAQNGYSQEALKLFERMKSSGTK 356

Query: 63  PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEARE 122
           PN+ T VGV+ AC   G +++G+ +F S+ + Y I+P  EH+  ++DL G+  K+ +A +
Sbjct: 357 PNYITIVGVLFACSHAGLLEDGWYYFRSMKKLYGIDPVREHYGCMIDLLGKAGKLDDAVK 416

Query: 123 FI----------------------RNM-------------------------QIDASSVV 135
            +                      RNM                          I A+S  
Sbjct: 417 LLNEMECEPDAVTWRTLLGACRVQRNMVLAEYAAKKVIALDPEDAGTYTLLSNIYANSQK 476

Query: 136 WETLEKY--------AQTEPG------------LLLGEPSSSLRLSNKKK---------D 166
           W+++E+          + EPG             ++G+ S    +   KK          
Sbjct: 477 WDSVEEIRTRMRDRGIKKEPGCSWIEVNKQIHAFIIGDNSHPQIVEVSKKLNQLIHRLTG 536

Query: 167 AGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNF 226
            GY+P T +VL+DL+ E  E    + SE+LA+A+GL++ P  + +RI+KNLRICG+CH F
Sbjct: 537 IGYVPETNFVLQDLEGEQMEDSLRHHSEKLALAFGLMTLPIEKVIRIRKNLRICGDCHVF 596

Query: 227 IKKLSSIENREIIVRD 242
            K  S +E R I++RD
Sbjct: 597 CKLASKLEIRSIVIRD 612

Arabidopsis thaliana (taxid: 3702)

>sp|O23266|PP308_ARATH Pentatricopeptide repeat-containing protein At4g14050, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H13 PE=2 SV=3

 Score =  111 bits (277), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 92/309 (29%), Positives = 133/309 (43%), Gaps = 78/309 (25%)

Query: 14  EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVIT 73
           +V AA ++  ++++  +   +  I+ +       K L       + GV+PN  TFVG+I 
Sbjct: 288 DVIAAKDIFSRMRHRDVVSWTSLIVGMAQHGQAEKALALYDDMVSHGVKPNEVTFVGLIY 347

Query: 74  ACGCFGAVDEGFQHFESVTRDYDIN----------------------------------- 98
           AC   G V++G + F+S+T+DY I                                    
Sbjct: 348 ACSHVGFVEKGRELFQSMTKDYGIRPSLQHYTCLLDLLGRSGLLDEAENLIHTMPFPPDE 407

Query: 99  PTLEHFLGIVDLYGRLQ-------------KIAEAREFIRNMQIDASSVVW----ETLEK 141
           PT    L      GR Q             K+ +   +I    I AS+ +W    E   K
Sbjct: 408 PTWAALLSACKRQGRGQMGIRIADHLVSSFKLKDPSTYILLSNIYASASLWGKVSEARRK 467

Query: 142 YAQTE----PG------------LLLGEPSSSL-----RLSNKKKDA-----GYMPYTEY 175
             + E    PG               GE S  L     RL  K ++      GY+P T +
Sbjct: 468 LGEMEVRKDPGHSSVEVRKETEVFYAGETSHPLKEDIFRLLKKLEEEMRIRNGYVPDTSW 527

Query: 176 VLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIEN 235
           +L D+D++ KEK   + SER AVAYGL+   PG  +RI KNLR+CG+CH  +K +S I  
Sbjct: 528 ILHDMDEQEKEKLLFWHSERSAVAYGLLKAVPGTPIRIVKNLRVCGDCHVVLKHISEITE 587

Query: 236 REIIVRDKT 244
           REIIVRD T
Sbjct: 588 REIIVRDAT 596

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WSH6|PP312_ARATH Pentatricopeptide repeat-containing protein At4g14850 OS=Arabidopsis thaliana GN=LOI1 PE=1 SV=1

 Score =  109 bits (273), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 83/259 (32%), Positives = 114/259 (44%), Gaps = 76/259 (29%)

Query: 60  GVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAE 119
           G  PN+ TFV +++AC   GAV+ G + F+S+   Y I P  EH+  IVD+ GR   +  
Sbjct: 408 GPTPNYMTFVSLLSACSRAGAVENGMKIFDSMRSTYGIEPGAEHYSCIVDMLGRAGMVER 467

Query: 120 AREFIRNMQIDASSVVWETLEK----YAQTEPGLLLGE------PSSS---LRLSNK--- 163
           A EFI+ M I  +  VW  L+     + + + GLL  E      P  S   + LSN    
Sbjct: 468 AYEFIKKMPIQPTISVWGALQNACRMHGKPQLGLLAAENLFKLDPKDSGNHVLLSNTFAA 527

Query: 164 -------------------KKDAGY------------------------MPYTEYVLRDL 180
                              KK AGY                        +  T   LR+ 
Sbjct: 528 AGRWAEANTVREELKGVGIKKGAGYSWITVKNQVHAFQAKDRSHILNKEIQTTLAKLRNE 587

Query: 181 DQEAKEKPQ-----------------TYRSERLAVAYGLISTPPGRTLRIKKNLRICGEC 223
            + A  KP                  ++ SE+LA+A+GL+S P    +RI KNLRICG+C
Sbjct: 588 MEAAGYKPDLKLSLYDLEEEEKAAEVSHHSEKLALAFGLLSLPLSVPIRITKNLRICGDC 647

Query: 224 HNFIKKLSSIENREIIVRD 242
           H+F K +S    REIIVRD
Sbjct: 648 HSFFKFVSGSVKREIIVRD 666

Acts as a regulatory factor of isoprenoid biosynthesis. Could bind RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g13650 OS=Arabidopsis thaliana GN=PCMP-H42 PE=2 SV=2

 Score =  108 bits (269), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 75/269 (27%), Positives = 122/269 (45%), Gaps = 76/269 (28%)

Query: 50   LEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD 109
            L++  +  +  VRPN  T VGV++AC   G VD+G  +FES+  +Y ++P  EH++ +VD
Sbjct: 778  LDSFDQMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVD 837

Query: 110  LYGRLQKIAEAREFI----------------------RNMQI--------------DASS 133
            +  R   ++ A+EFI                      +NM+I              D+++
Sbjct: 838  MLTRAGLLSRAKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSAT 897

Query: 134  VV-----------WETL--------EKYAQTEPGLLLGEPSSSLR--------------- 159
             V           W+          EK  + EPG    E  +S+                
Sbjct: 898  YVLLSNLYAVSKKWDARDLTRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEI 957

Query: 160  ------LSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRI 213
                  L+ +  + GY+     +L +L  E K+      SE+LA+++GL+S P    + +
Sbjct: 958  HEYFQDLTKRASEIGYVQDCFSLLNELQHEQKDPIIFIHSEKLAISFGLLSLPATVPINV 1017

Query: 214  KKNLRICGECHNFIKKLSSIENREIIVRD 242
             KNLR+C +CH +IK +S + NREIIVRD
Sbjct: 1018 MKNLRVCNDCHAWIKFVSKVSNREIIVRD 1046

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SUH6|PP341_ARATH Pentatricopeptide repeat-containing protein At4g30700 OS=Arabidopsis thaliana GN=DYW9 PE=2 SV=1

 Score =  103 bits (256), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 78/261 (29%), Positives = 112/261 (42%), Gaps = 76/261 (29%)

Query: 58  NDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKI 117
           N G+ P   TF+ V+ AC   G V EG + F S+   Y   P+++H+  +VD+ GR   +
Sbjct: 514 NSGITPTPVTFLCVLYACSHAGLVKEGDEIFNSMIHRYGFEPSVKHYACMVDILGRAGHL 573

Query: 118 AEAREFIRNMQIDASSVVWETL-----------------EKYAQTEP-----GLLLGE-- 153
             A +FI  M I+  S VWETL                 EK  + +P      +LL    
Sbjct: 574 QRALQFIEAMSIEPGSSVWETLLGACRIHKDTNLARTVSEKLFELDPDNVGYHVLLSNIH 633

Query: 154 -------PSSSLRLSNKKKDAGYMP--------YTEYVLRDLDQ---------------- 182
                   ++++R + KK+     P         T +V    DQ                
Sbjct: 634 SADRNYPQAATVRQTAKKRKLAKAPGYTLIEIGETPHVFTSGDQSHPQVKEIYEKLEKLE 693

Query: 183 ----EAKEKPQT-----------------YRSERLAVAYGLISTPPGRTLRIKKNLRICG 221
               EA  +P+T                   SERLA+A+GLI+T PG  +RI KNLR+C 
Sbjct: 694 GKMREAGYQPETELALHDVEEEERELMVKVHSERLAIAFGLIATEPGTEIRIIKNLRVCL 753

Query: 222 ECHNFIKKLSSIENREIIVRD 242
           +CH   K +S I  R I+VRD
Sbjct: 754 DCHTVTKLISKITERVIVVRD 774

Arabidopsis thaliana (taxid: 3702)

>sp|Q680H3|PP170_ARATH Pentatricopeptide repeat-containing protein At2g25580 OS=Arabidopsis thaliana GN=PCMP-H75 PE=2 SV=2

 Score =  102 bits (255), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 79/257 (30%), Positives = 115/257 (44%), Gaps = 73/257 (28%)

Query: 55  RFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDL---- 110
           RF+ +G  P+   F G+  ACG  G VDEG  HFES++RDY I P++E ++ +V++    
Sbjct: 345 RFKEEGNIPDGQLFRGIFYACGMLGDVDEGLLHFESMSRDYGIAPSIEDYVSLVEMYALP 404

Query: 111 -------------------------------YGRLQ---KIAEAREFIR----NMQ---- 128
                                          +G L+     AE  EF+     N Q    
Sbjct: 405 GFLDEALEFVERMPMEPNVDVWETLMNLSRVHGNLELGDYCAEVVEFLDPTRLNKQSREG 464

Query: 129 ---IDASSVVWETLEKYAQTEPGLLLGEPSSS-------------------LR-LSNKKK 165
              + AS V  E+L+K      G+L G  SS                    LR L     
Sbjct: 465 FIPVKASDVEKESLKK----RSGILHGVKSSMQEFRAGDTNLPENDELFQLLRNLKMHMV 520

Query: 166 DAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHN 225
           + GY+  T   L D+DQE+KE      SER+A A  ++++ P +   + KNLR+C +CHN
Sbjct: 521 EVGYVAETRMALHDIDQESKETLLLGHSERIAFARAVLNSAPRKPFTVIKNLRVCVDCHN 580

Query: 226 FIKKLSSIENREIIVRD 242
            +K +S I  RE+I RD
Sbjct: 581 ALKIMSDIVGREVITRD 597

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIB2|PP373_ARATH Putative pentatricopeptide repeat-containing protein At5g09950 OS=Arabidopsis thaliana GN=PCMP-H35 PE=3 SV=1

 Score =  102 bits (253), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 84/278 (30%), Positives = 127/278 (45%), Gaps = 89/278 (32%)

Query: 51  EAGKRFEN---DG-VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLG 106
           EA K FE    DG   P+  TFVGV++AC   G ++EGF+HFES++  Y + P +EHF  
Sbjct: 703 EALKLFETMKLDGQTPPDHVTFVGVLSACSHAGLLEEGFKHFESMSDSYGLAPRIEHFSC 762

Query: 107 IVDLYGRLQKIAEAREFIRNMQIDASSVVWETL-------------------EKYAQTEP 147
           + D+ GR  ++ +  +FI  M +  + ++W T+                   E   Q EP
Sbjct: 763 MADVLGRAGELDKLEDFIEKMPMKPNVLIWRTVLGACCRANGRKAELGKKAAEMLFQLEP 822

Query: 148 G-----LLLGEPSSS-------------LRLSNKKKDAGY------------------MP 171
                 +LLG   ++             ++ ++ KK+AGY                   P
Sbjct: 823 ENAVNYVLLGNMYAAGGRWEDLVKARKKMKDADVKKEAGYSWVTMKDGVHMFVAGDKSHP 882

Query: 172 YTEYVLRDLDQ------EAKEKPQT-----------------YRSERLAVAYGLI----S 204
             + + + L +      +A   PQT                 Y SE+LAVA+ L     S
Sbjct: 883 DADVIYKKLKELNRKMRDAGYVPQTGFALYDLEQENKEEILSYHSEKLAVAFVLAAQRSS 942

Query: 205 TPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           T P   +RI KNLR+CG+CH+  K +S IE R+II+RD
Sbjct: 943 TLP---IRIMKNLRVCGDCHSAFKYISKIEGRQIILRD 977

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SMZ2|PP347_ARATH Pentatricopeptide repeat-containing protein At4g33170 OS=Arabidopsis thaliana GN=PCMP-H53 PE=3 SV=1

 Score = 99.8 bits (247), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 83/289 (28%), Positives = 137/289 (47%), Gaps = 53/289 (18%)

Query: 3   NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLL-EAGKRFE---- 57
           N+ L  L +  E K  L++  ++K++GI  D    I +L+ C    L+ EA K       
Sbjct: 688 NAMLVGLAQHGEGKETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHG 747

Query: 58  NDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQ-- 115
           + G++P    +  +  A G  G V +     ES++ +   +      L    + G  +  
Sbjct: 748 DYGIKPEIEHYSCLADALGRAGLVKQAENLIESMSMEASAS-MYRTLLAACRVQGDTETG 806

Query: 116 -----KIAE-------AREFIRNMQIDASSVVWETLEKYAQT---------EPGLLLGEP 154
                K+ E       A   + NM   AS   W+ + K A+T         +PG    E 
Sbjct: 807 KRVATKLLELEPLDSSAYVLLSNMYAAASK--WDEM-KLARTMMKGHKVKKDPGFSWIEV 863

Query: 155 SSSLRL------SNKK---------------KDAGYMPYTEYVLRDLDQEAKEKPQTYRS 193
            + + +      SN++               K  GY+P T++ L D+++E KE+   Y S
Sbjct: 864 KNKIHIFVVDDRSNRQTELIYRKVKDMIRDIKQEGYVPETDFTLVDVEEEEKERALYYHS 923

Query: 194 ERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           E+LAVA+GL+STPP   +R+ KNLR+CG+CHN +K ++ + NREI++RD
Sbjct: 924 EKLAVAFGLLSTPPSTPIRVIKNLRVCGDCHNAMKYIAKVYNREIVLRD 972

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	245
302142415	576	unnamed protein product [Vitis vinifera]	0.755	0.321	0.540	1e-59
224136634	238	predicted protein [Populus trichocarpa]	0.763	0.785	0.531	3e-55
225428796	593	PREDICTED: pentatricopeptide repeat-cont	0.787	0.325	0.412	5e-42
147834943	627	hypothetical protein VITISV_021220 [Viti	0.787	0.307	0.412	9e-42
224070865	334	predicted protein [Populus trichocarpa]	0.787	0.577	0.387	5e-38
357501047	468	Pentatricopeptide repeat-containing prot	0.767	0.401	0.415	9e-38
147835805	497	hypothetical protein VITISV_013147 [Viti	0.759	0.374	0.385	3e-37
225444971	476	PREDICTED: pentatricopeptide repeat-cont	0.759	0.390	0.385	3e-37
357501199	446	Pentatricopeptide repeat-containing prot	0.914	0.502	0.381	4e-37
449519292	588	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.787	0.328	0.392	5e-37

>gi|302142415|emb|CBI19618.3| unnamed protein product [Vitis vinifera]

 Score =  235 bits (600), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 121/224 (54%), Positives = 152/224 (67%), Gaps = 39/224 (17%)

Query: 55  RFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRL 114
           + + DG+ P+ STF+GV++AC C GAV+EG  HF S++ DY I P++EHF  IVDL+GRL
Sbjct: 338 KLKKDGIEPDGSTFIGVLSACECLGAVEEGLAHFNSMSTDYGITPSMEHFAIIVDLFGRL 397

Query: 115 QKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPS-----SSLRLSNKK----- 164
           QKIAEA+EFI +M ++ SS++W+TL+KY +TE    + EP+     S L+LS+KK     
Sbjct: 398 QKIAEAKEFIASMPLEPSSMIWQTLQKYLKTER---VDEPAPLTTGSGLKLSHKKRVKSN 454

Query: 165 --------------------------KDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAV 198
                                     K+AGY+  T YVL DLDQEAKEK   Y SERLA+
Sbjct: 455 FVSKQKNASPEKSKAYEKLRSLHKGVKEAGYVSDTRYVLHDLDQEAKEKSLLYHSERLAI 514

Query: 199 AYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           AYGLISTPPG TLRI KNLRICG+CHNFIK LS+IE REIIVRD
Sbjct: 515 AYGLISTPPGTTLRIIKNLRICGDCHNFIKILSNIEKREIIVRD 558

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136634|ref|XP_002326908.1| predicted protein [Populus trichocarpa] gi|222835223|gb|EEE73658.1| predicted protein [Populus trichocarpa]

 Score =  220 bits (561), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 117/220 (53%), Positives = 145/220 (65%), Gaps = 33/220 (15%)

Query: 56  FENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQ 115
            + DG+RP+ S+FVGV+ AC C GA  EG +HFES++RDY I PT+EH+   VDL GR  
Sbjct: 1   MKGDGIRPDGSSFVGVLMACVCLGAEKEGQKHFESMSRDYGITPTVEHYEVFVDLLGRTG 60

Query: 116 KIAEAREFIRNMQIDASSVVWETLEKYAQ-----------TEPGLLLGEPSSS------- 157
           KIAEA+E + NM ID +S +WETL+KY++           + PGL LG+   +       
Sbjct: 61  KIAEAKELVSNMPIDPNSRIWETLQKYSKARTQGQLGYPVSPPGLKLGDMKRAKDNTNTN 120

Query: 158 --------------LR-LSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGL 202
                         LR LS + +DAGY+P T +VL DLDQEAKEK   Y SERLA+AYGL
Sbjct: 121 HRRVTSDRSKAYEKLRSLSKEVRDAGYVPDTRFVLHDLDQEAKEKALFYHSERLAIAYGL 180

Query: 203 ISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           I+T PG TLRI KNLRICG+CHNFIK LS IE+RE IVRD
Sbjct: 181 INTSPGTTLRIMKNLRICGDCHNFIKILSKIEDREFIVRD 220

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428796|ref|XP_002285135.1| PREDICTED: pentatricopeptide repeat-containing protein At2g15690 [Vitis vinifera]

 Score =  176 bits (447), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 101/245 (41%), Positives = 134/245 (54%), Gaps = 52/245 (21%)

Query: 47  LKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLG 106
           L+L E  ++    G+ PN  TF+ V++ C    AV+EGF HFES+  +Y I PT EH++G
Sbjct: 334 LQLYEQMRKL---GLEPNEQTFLAVLSTCASAEAVEEGFIHFESMKTEYGITPTFEHYVG 390

Query: 107 IVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSL-------- 158
           I+D+ G+   + EA+EFI  M ++ S+VVWE L  YA+    + L + +  L        
Sbjct: 391 IIDVLGKSGHVIEAKEFIEQMPVEPSAVVWEALMNYAKIHGDIDLEDHAEELMVALDPLK 450

Query: 159 ------------------------RLS-----------------NKKKDAGYMPYTEYVL 177
                                   RLS                 N  K+AGY+P T YVL
Sbjct: 451 AVANKTPTPPPKKRTAINMLDGKNRLSEFRNPTLYKDDEKLKSLNGMKEAGYVPDTRYVL 510

Query: 178 RDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENRE 237
            D+DQEAKE+   Y SERLA+AYGLISTP    LRI KNLR+CG+CHN IK +S I  RE
Sbjct: 511 HDIDQEAKEQALLYHSERLAIAYGLISTPARTPLRIIKNLRVCGDCHNAIKIMSKIVGRE 570

Query: 238 IIVRD 242
           +IVRD
Sbjct: 571 LIVRD 575

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147834943|emb|CAN70199.1| hypothetical protein VITISV_021220 [Vitis vinifera]

 Score =  176 bits (445), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 101/245 (41%), Positives = 134/245 (54%), Gaps = 52/245 (21%)

Query: 47  LKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLG 106
           L+L E  ++    G+ PN  TF+ V++ C    AV+EGF HFES+  +Y I PT EH++G
Sbjct: 368 LQLYEQMRKL---GLEPNEQTFLAVLSTCASAEAVEEGFIHFESMKTEYGITPTFEHYVG 424

Query: 107 IVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSL-------- 158
           I+D+ G+   + EA+EFI  M ++ S+VVWE L  YA+    + L + +  L        
Sbjct: 425 IIDVLGKSGHVIEAKEFIEQMPVEPSAVVWEALMNYAKIHGDIDLEDHAEELMVALDPLK 484

Query: 159 ------------------------RLS-----------------NKKKDAGYMPYTEYVL 177
                                   RLS                 N  K+AGY+P T YVL
Sbjct: 485 AVANKTPTPPPKKRTAINMLDGKNRLSEFRNPTLYKDDEKLKSLNGMKEAGYVPDTRYVL 544

Query: 178 RDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENRE 237
            D+DQEAKE+   Y SERLA+AYGLISTP    LRI KNLR+CG+CHN IK +S I  RE
Sbjct: 545 HDIDQEAKEQALLYHSERLAIAYGLISTPARTPLRIIKNLRVCGDCHNAIKIMSKIVGRE 604

Query: 238 IIVRD 242
           +IVRD
Sbjct: 605 LIVRD 609

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224070865|ref|XP_002303271.1| predicted protein [Populus trichocarpa] gi|222840703|gb|EEE78250.1| predicted protein [Populus trichocarpa]

 Score =  163 bits (413), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 95/245 (38%), Positives = 132/245 (53%), Gaps = 52/245 (21%)

Query: 47  LKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLG 106
           L+L E  K+    G+ P   TF  V++AC    AV+EGF +FE ++R++ I+PTLEH+L 
Sbjct: 75  LELFEQMKKL---GLEPTGETFHAVLSACASAEAVEEGFLYFEEMSREFGISPTLEHYLS 131

Query: 107 IVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPS--------SSL 158
           I+D+ G+   + EA E+I  +  + +  +WE L KYA++   + L + +        SS 
Sbjct: 132 IIDVLGKSAYLNEAVEYIEKLPFEPTVEIWEALRKYARSHGDIDLEDHAEELIVSLDSSK 191

Query: 159 RLSNK-----------------------------------------KKDAGYMPYTEYVL 177
            ++NK                                          K  GY+P T YVL
Sbjct: 192 AVANKIPTPPPKKYNLISMLEGKNRVAEFRNPTFYKDDEKLKELREMKTGGYVPDTRYVL 251

Query: 178 RDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENRE 237
            D+DQEAKE+   Y SERLA+AYGLISTP    LRI KNLR+CG+CHN IK +S I  RE
Sbjct: 252 HDIDQEAKEQALLYHSERLAIAYGLISTPARMPLRIIKNLRVCGDCHNAIKIMSKIVGRE 311

Query: 238 IIVRD 242
           +IVRD
Sbjct: 312 LIVRD 316

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357501047|ref|XP_003620812.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355495827|gb|AES77030.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  162 bits (411), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 94/226 (41%), Positives = 126/226 (55%), Gaps = 38/226 (16%)

Query: 54  KRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGR 113
           K+    GV P+  TF  V+  C     V+EG   FES+ ++Y I P +EH+LG+V+++G 
Sbjct: 189 KQMRQQGVVPDEETFALVLAVCALVDGVEEGLMQFESM-KEYGIVPGMEHYLGVVNIFGC 247

Query: 114 LQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGL---------LLGEPSSS----LRL 160
              + EA+EFI NM I+A   VWETL  +A+    L          + +PS +    + L
Sbjct: 248 AGPLDEAQEFIENMPIEAGVDVWETLRNFARIYGDLEREDRAKLLTVRDPSKAAADKMPL 307

Query: 161 SNKKK------------------------DAGYMPYTEYVLRDLDQEAKEKPQTYRSERL 196
             +KK                        +AGY+P T YVL D+D+E KEK   Y SERL
Sbjct: 308 PQRKKQSAINMLEEKNRVSEYRCLTGQIREAGYVPDTRYVLHDIDEEEKEKALRYHSERL 367

Query: 197 AVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           A+AYGLISTPP   LRI KNLRICG+CHN IK +S I   ++IVRD
Sbjct: 368 AIAYGLISTPPRTMLRIIKNLRICGDCHNAIKFMSKIVGMKLIVRD 413

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147835805|emb|CAN64107.1| hypothetical protein VITISV_013147 [Vitis vinifera]

 Score =  161 bits (407), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 93/241 (38%), Positives = 129/241 (53%), Gaps = 55/241 (22%)

Query: 54  KRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGR 113
           +R    G+RP   TFV V++ACG   +V+EG  +FE + ++  I P +EH+LG++D+ G+
Sbjct: 223 ERMRKVGLRPVGETFVAVLSACG---SVEEGLMYFELMKKECGIIPGIEHYLGVIDVLGK 279

Query: 114 LQKIAEAREFIRNMQIDASSVVWETLEKYAQ----------TEPGLLLGEPSSSLR---- 159
              I EA EF+  M I+ ++ VWE L  +A+           E  L   +PS ++     
Sbjct: 280 FGHINEAEEFVDKMPIEPTAEVWEALRNFARIHGAIELEDRAEEMLAALDPSKAITDKIP 339

Query: 160 --------------------------------------LSNKKKDAGYMPYTEYVLRDLD 181
                                                 L+ + ++AGY+P T YVL D+D
Sbjct: 340 TPPQKKQLAVNMLEGKNRVSEYRSTNPYKGDAYEKLKGLNGQMREAGYVPDTRYVLHDID 399

Query: 182 QEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVR 241
           QEAKE+   Y SERLA+AYGLISTP    LRI KNLRICG+CHN IK +S I  RE+IVR
Sbjct: 400 QEAKEQALLYHSERLAIAYGLISTPARTPLRIIKNLRICGDCHNAIKIMSKIVGRELIVR 459

Query: 242 D 242
           D
Sbjct: 460 D 460

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225444971|ref|XP_002279824.1| PREDICTED: pentatricopeptide repeat-containing protein At2g15690-like [Vitis vinifera]

 Score =  161 bits (407), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 93/241 (38%), Positives = 129/241 (53%), Gaps = 55/241 (22%)

Query: 54  KRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGR 113
           +R    G+RP   TFV V++ACG   +V+EG  +FE + ++  I P +EH+LG++D+ G+
Sbjct: 221 ERMRKVGLRPVGETFVAVLSACG---SVEEGLMYFELMKKECGIIPGIEHYLGVIDVLGK 277

Query: 114 LQKIAEAREFIRNMQIDASSVVWETLEKYAQ----------TEPGLLLGEPSSSLR---- 159
              I EA EF+  M I+ ++ VWE L  +A+           E  L   +PS ++     
Sbjct: 278 FGHINEAEEFVDKMPIEPTAEVWEALRNFARIHGAIELEDRAEEMLAALDPSKAITDKIP 337

Query: 160 --------------------------------------LSNKKKDAGYMPYTEYVLRDLD 181
                                                 L+ + ++AGY+P T YVL D+D
Sbjct: 338 TPPQKKQLAVNMLEGKNRVSEYRSTNPYKGDAYEKLKGLNGQMREAGYVPDTRYVLHDID 397

Query: 182 QEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVR 241
           QEAKE+   Y SERLA+AYGLISTP    LRI KNLRICG+CHN IK +S I  RE+IVR
Sbjct: 398 QEAKEQALLYHSERLAIAYGLISTPARTPLRIIKNLRICGDCHNAIKIMSKIVGRELIVR 457

Query: 242 D 242
           D
Sbjct: 458 D 458

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357501199|ref|XP_003620888.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355495903|gb|AES77106.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  160 bits (405), Expect = 4e-37,   Method: Compositional matrix adjust.
 Identities = 108/283 (38%), Positives = 148/283 (52%), Gaps = 59/283 (20%)

Query: 15  VKAALEVMDKL--KNIGIFLDSPDIIELLNV-CMDLKLLEAGKRFENDGVRPNWSTFVGV 71
           VK A +V DK+  +N+G       +I   NV  + +  L   K+    GV P+  TF  V
Sbjct: 150 VKDARKVFDKMPDRNVGSL---NLMIGGYNVNGLGIDGLLVFKQMRQQGVVPDEETFALV 206

Query: 72  ITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDA 131
           +  C     V+EG   FES+ ++Y I P +EH+LG+V+++G   ++ EA EFI NM I+A
Sbjct: 207 LAVCALVDGVEEGLMQFESM-KEYGIVPGMEHYLGVVNIFGCAGRLDEAHEFIENMPIEA 265

Query: 132 SSVVWET----------LEKYAQTEPGLLLGEPSSS------------------------ 157
              +WET          LE+    +  L + +PS +                        
Sbjct: 266 GVELWETLRNFARIHGDLEREDCADELLTVLDPSKAAADKVPLPQRKKQSAINMLEEKNR 325

Query: 158 -----------------LR-LSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVA 199
                            LR L+ + ++AGY+P T YVL D+D+E KEK   Y SERLA+A
Sbjct: 326 VSEYRCNMPYKEEGDVKLRGLTGQMREAGYVPDTRYVLHDIDEEEKEKALQYHSERLAIA 385

Query: 200 YGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           YGLISTPP  TLRI KNLRICG+CHN IK +S I  RE+IVRD
Sbjct: 386 YGLISTPPRTTLRIIKNLRICGDCHNAIKIMSKIVGRELIVRD 428

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449519292|ref|XP_004166669.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At2g15690-like [Cucumis sativus]

 Score =  160 bits (404), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 95/242 (39%), Positives = 129/242 (53%), Gaps = 49/242 (20%)

Query: 50  LEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD 109
           LE  +  +N G++PN  TF+ V++AC    AV+EGF +FES+  DY I P   H+LG++ 
Sbjct: 329 LELFENMKNLGLQPNSQTFLYVMSACASANAVEEGFLYFESMKNDYHITPDTNHYLGLLG 388

Query: 110 LYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSL--------RLS 161
           + G    I EA E++  + ++ +  VWETL+ YA+    + L + +  L         +S
Sbjct: 389 ILGEPGHIHEAFEYVEKLPMEPTVEVWETLKNYARIHGDVDLEDYAEELIVDLDPTKAVS 448

Query: 162 NK-----------------------------------------KKDAGYMPYTEYVLRDL 180
           NK                                          K+ GY+P T YVL D+
Sbjct: 449 NKISTPPPKNXSAISMLDGKNRIVEFRNPTLYKDDXKLKALKAMKEQGYVPDTRYVLHDI 508

Query: 181 DQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIV 240
           DQEAKE+   Y SERLA+AYGLISTP    LRI KNLRICG+CHN IK +S I  RE+IV
Sbjct: 509 DQEAKEQALLYHSERLAIAYGLISTPARTPLRIIKNLRICGDCHNAIKIMSRIVGRELIV 568

Query: 241 RD 242
           RD
Sbjct: 569 RD 570

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	245
TAIR|locus:2040135	615	MEF8 "AT2G25580" [Arabidopsis	0.346	0.138	0.423	3.5e-34
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.318	0.078	0.512	1.3e-33
TAIR|locus:2049562	584	AT2G01510 "AT2G01510" [Arabido	0.330	0.138	0.469	2.2e-33
TAIR|locus:2055919	786	AT2G22070 "AT2G22070" [Arabido	0.326	0.101	0.562	2.9e-33
TAIR|locus:2178188	995	MEF7 "AT5G09950" [Arabidopsis	0.322	0.079	0.512	7.1e-33
TAIR|locus:2126352	632	AT4G37380 [Arabidopsis thalian	0.322	0.125	0.518	1.3e-32
TAIR|locus:2056794	630	REME1 "required for efficiency	0.306	0.119	0.493	2.3e-32
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.334	0.132	0.457	1.3e-31
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.326	0.102	0.5	2.4e-31
TAIR|locus:2157368	534	AT5G50990 "AT5G50990" [Arabido	0.330	0.151	0.456	2.7e-31

TAIR|locus:2040135 MEF8 "AT2G25580" [Arabidopsis thaliana (taxid:3702)]

 Score = 191 (72.3 bits), Expect = 3.5e-34, Sum P(3) = 3.5e-34
 Identities = 36/85 (42%), Positives = 54/85 (63%)

Query:    55 RFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRL 114
             RF+ +G  P+   F G+  ACG  G VDEG  HFES++RDY I P++E ++ +V++Y   
Sbjct:   345 RFKEEGNIPDGQLFRGIFYACGMLGDVDEGLLHFESMSRDYGIAPSIEDYVSLVEMYALP 404

Query:   115 QKIAEAREFIRNMQIDASSVVWETL 139
               + EA EF+  M ++ +  VWETL
Sbjct:   405 GFLDEALEFVERMPMEPNVDVWETL 429

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2125899 AT4G33170 [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 1.3e-33, Sum P(2) = 1.3e-33
 Identities = 40/78 (51%), Positives = 60/78 (76%)

Query:   165 KDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECH 224
             K  GY+P T++ L D+++E KE+   Y SE+LAVA+GL+STPP   +R+ KNLR+CG+CH
Sbjct:   895 KQEGYVPETDFTLVDVEEEEKERALYYHSEKLAVAFGLLSTPPSTPIRVIKNLRVCGDCH 954

Query:   225 NFIKKLSSIENREIIVRD 242
             N +K ++ + NREI++RD
Sbjct:   955 NAMKYIAKVYNREIVLRD 972

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2049562 AT2G01510 "AT2G01510" [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 2.2e-33, Sum P(3) = 2.2e-33
 Identities = 38/81 (46%), Positives = 54/81 (66%)

Query:   163 KKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGE 222
             K +  GY+P T  V  D++ E KE   ++ SE+LA+A+GLI   PG  +R+ KNLR C +
Sbjct:   487 KIRKMGYVPDTCSVFHDVEMEEKECSLSHHSEKLAIAFGLIKGRPGHPIRVMKNLRTCDD 546

Query:   223 CHNFIKKLSSIENREIIVRDK 243
             CH F K +SS+ + EII+RDK
Sbjct:   547 CHAFSKFVSSLTSTEIIMRDK 567

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2055919 AT2G22070 "AT2G22070" [Arabidopsis thaliana (taxid:3702)]

 Score = 227 (85.0 bits), Expect = 2.9e-33, Sum P(2) = 2.9e-33
 Identities = 45/80 (56%), Positives = 57/80 (71%)

Query:   165 KDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECH 224
             K  GY+P T  VL DL++E KE+   + SE+LA+A+GLISTP   TLRI KNLR+C +CH
Sbjct:   691 KKMGYVPDTASVLHDLEEEVKEQILRHHSEKLAIAFGLISTPDKTTLRIMKNLRVCNDCH 750

Query:   225 NFIKKLSSIENREIIVRDKT 244
               IK +S +  REIIVRD T
Sbjct:   751 TAIKFISKLVGREIIVRDTT 770

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2178188 MEF7 "AT5G09950" [Arabidopsis thaliana (taxid:3702)]

 Score = 206 (77.6 bits), Expect = 7.1e-33, Sum P(3) = 7.1e-33
 Identities = 42/82 (51%), Positives = 59/82 (71%)

Query:   163 KKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTL--RIKKNLRIC 220
             K +DAGY+P T + L DL+QE KE+  +Y SE+LAVA+ +++     TL  RI KNLR+C
Sbjct:   897 KMRDAGYVPQTGFALYDLEQENKEEILSYHSEKLAVAF-VLAAQRSSTLPIRIMKNLRVC 955

Query:   221 GECHNFIKKLSSIENREIIVRD 242
             G+CH+  K +S IE R+II+RD
Sbjct:   956 GDCHSAFKYISKIEGRQIILRD 977

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0009451 "RNA modification" evidence=IMP

TAIR|locus:2126352 AT4G37380 [Arabidopsis thaliana (taxid:3702)]

 Score = 216 (81.1 bits), Expect = 1.3e-32, Sum P(2) = 1.3e-32
 Identities = 41/79 (51%), Positives = 55/79 (69%)

Query:   165 KDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECH 224
             K  GY+P T  VL+DL++  KE+     SERLA+AYGLIST PG  L+I KNLR+C +CH
Sbjct:   537 KSHGYVPNTNTVLQDLEETEKEQSLQVHSERLAIAYGLISTKPGSPLKIFKNLRVCSDCH 596

Query:   225 NFIKKLSSIENREIIVRDK 243
                K +S I  R+I++RD+
Sbjct:   597 TVTKLISKITGRKIVMRDR 615

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009062 "fatty acid catabolic process" evidence=RCA

TAIR|locus:2056794 REME1 "required for efficiency of mitochondrial editing 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 202 (76.2 bits), Expect = 2.3e-32, Sum P(2) = 2.3e-32
 Identities = 37/75 (49%), Positives = 54/75 (72%)

Query:   168 GYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFI 227
             GY+P T +VL+DL+ E  E    + SE+LA+A+GL++ P  + +RI+KNLRICG+CH F 
Sbjct:   538 GYVPETNFVLQDLEGEQMEDSLRHHSEKLALAFGLMTLPIEKVIRIRKNLRICGDCHVFC 597

Query:   228 KKLSSIENREIIVRD 242
             K  S +E R I++RD
Sbjct:   598 KLASKLEIRSIVIRD 612

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

TAIR|locus:2154855 AT5G66520 "AT5G66520" [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 1.3e-31, Sum P(2) = 1.3e-31
 Identities = 38/83 (45%), Positives = 54/83 (65%)

Query:   163 KKKDAGYMPYTEYVLRDL-DQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICG 221
             K ++ GY+P  E +L DL D + +E      SE+LA+ YGLI T PG  +RI KNLR+C 
Sbjct:   522 KLEENGYVPELEEMLLDLVDDDEREAIVHQHSEKLAITYGLIKTKPGTIIRIMKNLRVCK 581

Query:   222 ECHNFIKKLSSIENREIIVRDKT 244
             +CH   K +S I  R+I++RD+T
Sbjct:   582 DCHKVTKLISKIYKRDIVMRDRT 604

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 2.4e-31, Sum P(2) = 2.4e-31
 Identities = 40/80 (50%), Positives = 55/80 (68%)

Query:   163 KKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGE 222
             + K AGY+  T  VL D+++E KE+   Y SERLAVAYG++    GR +R+ KNLR+C +
Sbjct:   684 RMKKAGYVSKTSVVLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKNLRVCED 743

Query:   223 CHNFIKKLSSIENREIIVRD 242
             CHN IK ++ I  R II+RD
Sbjct:   744 CHNAIKYMARITGRLIILRD 763

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2157368 AT5G50990 "AT5G50990" [Arabidopsis thaliana (taxid:3702)]

 Score = 206 (77.6 bits), Expect = 2.7e-31, Sum P(2) = 2.7e-31
 Identities = 37/81 (45%), Positives = 58/81 (71%)

Query:   163 KKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGE 222
             K K  G++  T+ VL D+ +E KE+   Y SE+LA+AY ++ + PG  +RI+KN+R+C +
Sbjct:   437 KTKSQGFVSDTDLVLMDVSEEEKEENLNYHSEKLALAYVILKSSPGTEIRIQKNIRMCSD 496

Query:   223 CHNFIKKLSSIENREIIVRDK 243
             CHN+IK +S + NR II+RD+
Sbjct:   497 CHNWIKAVSKLLNRVIIMRDR 517

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!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00014707001 SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (617 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	245
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-23
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-19
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	4e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-12

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

 Score = 98.4 bits (245), Expect = 2e-23
 Identities = 68/274 (24%), Positives = 111/274 (40%), Gaps = 76/274 (27%)

Query: 45  MDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHF 104
              K +E  +R   +GV PN  TF+ V++AC   G  ++G++ F+S++ ++ I P   H+
Sbjct: 406 RGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHY 465

Query: 105 LGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETL-----------------EKYAQTEP 147
             +++L GR   + EA   IR      +  +W  L                 EK     P
Sbjct: 466 ACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGP 525

Query: 148 ------GLLLGEPSSSLRLSN------------------------KKKDAGYM------P 171
                  +LL   +SS R +                         KK+D  +       P
Sbjct: 526 EKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHP 585

Query: 172 YTEYVLRDLDQEAKE-------------KPQTYRSE----------RLAVAYGLISTPPG 208
            +  + + LD+  KE              P     E          +LA+A+GLI+T   
Sbjct: 586 QSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEW 645

Query: 209 RTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
             L+I ++ RIC +CH  IK ++ +  REI+VRD
Sbjct: 646 TPLQITQSHRICKDCHKVIKFIALVTKREIVVRD 679

Length = 697

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

 Score = 84.9 bits (210), Expect = 7e-19
 Identities = 39/120 (32%), Positives = 56/120 (46%)

Query: 50  LEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD 109
           +E   R    GV P+  TF+ ++ AC   G V +G ++F S+   Y I P L+H+  +VD
Sbjct: 574 VELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVD 633

Query: 110 LYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGY 169
           L GR  K+ EA  FI  M I     VW  L    +    + LGE ++           GY
Sbjct: 634 LLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGY 693

Length = 857

>gnl|CDD|222749 pfam14432, DYW_deaminase, DYW family of nucleic acid deaminases

 Score = 69.0 bits (169), Expect = 4e-15
 Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 11/97 (11%)

Query: 152 GEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAK----EKPQTY--RSERLAVAYGLIST 205
             P+S   L  + K  G +P T+ +  D+D E       K +     +E+ A+AYG    
Sbjct: 17  SHPTSKEELFQRIKVEGVVPETKEIGHDVDAEEFRDNGIKGKLLASHAEKQALAYG---- 72

Query: 206 PPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
               T  IK   R+CG+CH F + ++    REIIVRD
Sbjct: 73  -LLTTRIIKVLKRMCGDCHEFFRYIAKYTGREIIVRD 108

A family of nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members of this family are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. The classical DYW family contain an additional C-terminal metal-binding cluster composed of 2 histidines and a CxC motif and are often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems. Length = 116

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

 Score = 64.5 bits (157), Expect = 7e-12
 Identities = 28/50 (56%), Positives = 36/50 (72%)

Query: 193 SERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRD 242
           SERLA+A+GLI+T PG  + + KNL +C  CHN +K +S I  REI VRD
Sbjct: 792 SERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRD 841

Length = 857

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	245
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PF13041	50	PPR_2: PPR repeat family	99.57
PF13041	50	PPR_2: PPR repeat family	99.54
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.46
PF12854	34	PPR_1: PPR repeat	99.18
PF12854	34	PPR_1: PPR repeat	99.13
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.0
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	98.99
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.97
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.91
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.75
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.73
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.58
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.53
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.52
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.4
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.39
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.24
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.21
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.19
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.17
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.06
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.01
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.0
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.93
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	97.85
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	97.83
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.74
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.74
PRK12370	553	invasion protein regulator; Provisional	97.72
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.7
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	97.66
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.63
KOG2003	840	consensus TPR repeat-containing protein [General f	97.62
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.54
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.54
PRK14574	822	hmsH outer membrane protein; Provisional	97.53
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.51
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.45
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.43
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.42
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.4
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.4
PRK14574	822	hmsH outer membrane protein; Provisional	97.3
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	97.27
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.24
KOG1126	638	consensus DNA-binding cell division cycle control	97.22
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.17
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.09
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.07
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.05
PRK12370	553	invasion protein regulator; Provisional	96.99
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	96.98
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.94
KOG1126	638	consensus DNA-binding cell division cycle control	96.94
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.94
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.86
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	96.8
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	96.77
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.71
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	96.69
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	96.64
KOG1129	478	consensus TPR repeat-containing protein [General f	96.56
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	96.54
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.51
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	96.4
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.36
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	96.33
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	96.32
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	96.26
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	96.26
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.23
TIGR02552	135	LcrH_SycD type III secretion low calcium response	96.2
PRK11189	296	lipoprotein NlpI; Provisional	96.18
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.13
PRK15359	144	type III secretion system chaperone protein SscB;	96.11
PRK15359	144	type III secretion system chaperone protein SscB;	96.11
KOG2003	840	consensus TPR repeat-containing protein [General f	96.09
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.0
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.98
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	95.96
TIGR02552	135	LcrH_SycD type III secretion low calcium response	95.94
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	95.92
PRK10370	198	formate-dependent nitrite reductase complex subuni	95.85
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	95.84
PRK11189	296	lipoprotein NlpI; Provisional	95.83
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	95.82
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	95.77
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	95.65
KOG3785	557	consensus Uncharacterized conserved protein [Funct	95.65
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	95.61
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	95.61
KOG3941	406	consensus Intermediate in Toll signal transduction	95.58
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	95.55
KOG1915	677	consensus Cell cycle control protein (crooked neck	95.51
KOG3616	1636	consensus Selective LIM binding factor [Transcript	95.45
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	95.26
KOG3941	406	consensus Intermediate in Toll signal transduction	94.94
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	94.83
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	94.73
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	94.73
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	94.72
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	94.71
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	94.67
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	94.6
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	94.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	94.45
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	94.39
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	94.28
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	94.23
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.22
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	94.17
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	94.01
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	93.96
KOG4340	459	consensus Uncharacterized conserved protein [Funct	93.85
PF03704	146	BTAD: Bacterial transcriptional activator domain;	93.79
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	93.72
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	93.69
PF12688	120	TPR_5: Tetratrico peptide repeat	93.65
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	93.62
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	93.56
KOG1128	777	consensus Uncharacterized conserved protein, conta	93.51
PF03704	146	BTAD: Bacterial transcriptional activator domain;	93.36
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	93.15
KOG2047	835	consensus mRNA splicing factor [RNA processing and	93.04
KOG2376	652	consensus Signal recognition particle, subunit Srp	92.95
COG4783	484	Putative Zn-dependent protease, contains TPR repea	92.93
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	92.89
KOG1128	777	consensus Uncharacterized conserved protein, conta	92.78
KOG2796	366	consensus Uncharacterized conserved protein [Funct	92.66
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	92.66
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	92.51
KOG0553	304	consensus TPR repeat-containing protein [General f	92.48
KOG2041	1189	consensus WD40 repeat protein [General function pr	92.28
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	92.22
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	92.15
KOG0495	913	consensus HAT repeat protein [RNA processing and m	92.09
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	91.62
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	91.58
COG4783	484	Putative Zn-dependent protease, contains TPR repea	91.43
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	91.27
KOG1915	677	consensus Cell cycle control protein (crooked neck	91.0
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	90.91
KOG1129	478	consensus TPR repeat-containing protein [General f	90.74
KOG2076	895	consensus RNA polymerase III transcription factor	90.7
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	90.44
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	90.35
KOG3785	557	consensus Uncharacterized conserved protein [Funct	90.3
PF13371	73	TPR_9: Tetratricopeptide repeat	90.24
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.75
PRK14720	906	transcript cleavage factor/unknown domain fusion p	89.38
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	89.13
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	88.97
PF13929	292	mRNA_stabil: mRNA stabilisation	88.92
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	88.78
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	88.47
KOG0547	606	consensus Translocase of outer mitochondrial membr	88.05
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	87.9
KOG0495	913	consensus HAT repeat protein [RNA processing and m	87.36
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	87.2
PRK14720	906	transcript cleavage factor/unknown domain fusion p	87.0
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.8
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	86.8
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	86.7
PRK10803	263	tol-pal system protein YbgF; Provisional	86.63
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	86.46
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	85.79
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	85.6
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	85.57
KOG2047	835	consensus mRNA splicing factor [RNA processing and	85.39
KOG2076	895	consensus RNA polymerase III transcription factor	85.33
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	84.96
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	84.9
PF13428	44	TPR_14: Tetratricopeptide repeat	84.7
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	84.4
COG3629	280	DnrI DNA-binding transcriptional activator of the	84.24
KOG4570	418	consensus Uncharacterized conserved protein [Funct	84.19
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	84.19
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.06
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	83.56
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.45
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	83.27
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	83.18
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	82.86
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	82.81
PRK10803	263	tol-pal system protein YbgF; Provisional	82.79
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	81.99
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	81.8
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.73
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	81.15
PRK04841	903	transcriptional regulator MalT; Provisional	80.54
COG3898	531	Uncharacterized membrane-bound protein [Function u	80.45
PF12688	120	TPR_5: Tetratrico peptide repeat	80.18

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

Probab=100.00  E-value=7.3e-46  Score=340.06  Aligned_cols=245  Identities=29%  Similarity=0.510  Sum_probs=228.4

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH------------------------
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF------------------------   56 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~------------------------   56 (245)
                      |||+||.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|.++.++++                        
T Consensus       292 t~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~  371 (697)
T PLN03081        292 AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYS  371 (697)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHH
Confidence            69999999999999999999999999999999999999999999888777766554                        


Q ss_pred             ----------------------------------------------HhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHH
Q 043265           57 ----------------------------------------------ENDGVRPNWSTFVGVITACGCFGAVDEGFQHFES   90 (245)
Q Consensus        57 ----------------------------------------------~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~   90 (245)
                                                                    .+.|+.||..||+++|++|++.|.+++|.++|++
T Consensus       372 k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~  451 (697)
T PLN03081        372 KWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQS  451 (697)
T ss_pred             HCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence                                                          5679999999999999999999999999999999


Q ss_pred             hhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCccccccc--cccccccc----
Q 043265           91 VTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK----  164 (245)
Q Consensus        91 m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~----  164 (245)
                      |.++.|+.|+..+|++||++|++.|++++|.++|++|+.+||..+|++||.+|+.+|+++.|+.+.  ++++.|+.    
T Consensus       452 m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y  531 (697)
T PLN03081        452 MSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNY  531 (697)
T ss_pred             HHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcch
Confidence            987789999999999999999999999999999999999999999999999999999999988776  66776653    


Q ss_pred             ----------------------------------------------------------------------ccCCcccccc
Q 043265          165 ----------------------------------------------------------------------KDAGYMPYTE  174 (245)
Q Consensus       165 ----------------------------------------------------------------------~~~g~~~~~~  174 (245)
                                                                                            +..|++|+..
T Consensus       532 ~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~  611 (697)
T PLN03081        532 VVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEEN  611 (697)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence                                                                                  6688899988


Q ss_pred             cccccCchhhhhcccccchHHHHHHHHhhcCCCCCeEEeeccccccCchhhHHHHhhhhcCceeeeccCCC
Q 043265          175 YVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIVRDKTT  245 (245)
Q Consensus       175 ~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  245 (245)
                      ..++++++..++..+..|+++|++|++++...|+.+|+++++++.|||||+|.++++++.+|.|||||.+|
T Consensus       612 ~~~~~~~~~~~~~~~~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~r  682 (697)
T PLN03081        612 ELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASR  682 (697)
T ss_pred             hhhccccHHHHHHHHHhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCc
Confidence            88888988888888999999999999999999999999999999999999999999999999999999997

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-43  Score=330.54  Aligned_cols=239  Identities=32%  Similarity=0.466  Sum_probs=220.5

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHH----HHHHhcCCCCcHhhHHHHHHHhc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAG----KRFENDGVRPNWSTFVGVITACG   76 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~----~~~~~~~~~p~~~t~~~ll~~~~   76 (245)
                      ++|+||.+|+|+|++++|.++|++|     .||.++||++|.+|++.|..++|    .+|.+.|+.||..||+++|.+|+
T Consensus       526 ~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~  600 (857)
T PLN03077        526 LPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS  600 (857)
T ss_pred             echHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh
Confidence            3689999999999999999999987     68999999999999999866665    56788999999999999999999


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           77 CFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +.|++++|.++|++|.++.|+.|+..+|++|+++|++.|++++|++++++|+++||..+|++||.+|+.+|+++.++.+.
T Consensus       601 ~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a  680 (857)
T PLN03077        601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAA  680 (857)
T ss_pred             hcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Confidence            99999999999999986689999999999999999999999999999999999999999999999999999999988777


Q ss_pred             --cccccccc----------------------------------------------------------------------
Q 043265          157 --SLRLSNKK----------------------------------------------------------------------  164 (245)
Q Consensus       157 --~~~~~~~~----------------------------------------------------------------------  164 (245)
                        ++++.|+.                                                                      
T Consensus       681 ~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l  760 (857)
T PLN03077        681 QHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGF  760 (857)
T ss_pred             HHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHH
Confidence              77888776                                                                      


Q ss_pred             ----ccCCcccccccccccCchhhhhcccccchHHHHHHHHhhcCCCCCeEEeeccccccCchhhHHHHhhhhcCceeee
Q 043265          165 ----KDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHNFIKKLSSIENREIIV  240 (245)
Q Consensus       165 ----~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  240 (245)
                          +..|++||....+ ..++..++..+..|+++|++|++++++.|+.+|+++++++.|+|||+|.++++++.+|.|||
T Consensus       761 ~~~~~~~g~~~~~~~~~-~~~~~~k~~~~~~hse~la~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~  839 (857)
T PLN03077        761 YEKMKASGLAGSESSSM-DEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISV  839 (857)
T ss_pred             HHHHHhCCcCCCcchhc-cccHHHHHHHHHhccHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHHHHHHHHHHhCeEEEE
Confidence                6788888877655 44666778888999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCC
Q 043265          241 RDKTT  245 (245)
Q Consensus       241 ~~~~~  245 (245)
                      ||.+|
T Consensus       840 rd~~r  844 (857)
T PLN03077        840 RDTEQ  844 (857)
T ss_pred             ecCCc
Confidence            99997

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.6e-36  Score=279.00  Aligned_cols=225  Identities=15%  Similarity=0.250  Sum_probs=136.2

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHH----HHHHhcCCCCcHhhHHHHHHHhc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAG----KRFENDGVRPNWSTFVGVITACG   76 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~----~~~~~~~~~p~~~t~~~ll~~~~   76 (245)
                      +||+||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|.++.|    .+|.+.|+.||..||++||.+|+
T Consensus       474 tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~  553 (1060)
T PLN03218        474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG  553 (1060)
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            36666666666666666666666666666666666666666666666655554    33455666666666666666666


Q ss_pred             ccCcHHHHHHHHHHhhhh-cCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCcHHHHHHHHHHHHhCCCCccc
Q 043265           77 CFGAVDEGFQHFESVTRD-YDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDASSVVWETLEKYAQTEPGLLLG  152 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~-~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~~~~~~~li~~~~~~g~~~~~  152 (245)
                      +.|++++|.++|++|... .|+.||.++|++||++|++.|++++|.++|+.|.   +.|+..+||+||.+|++.|+++. 
T Consensus       554 k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~de-  632 (1060)
T PLN03218        554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDF-  632 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHH-
Confidence            666666666666666432 3566666666666666666666666666666664   45666666666666666666665 


Q ss_pred             ccccccccccccccCCcccccccccccCchhhhhcccccchHHHHHHHHhhcCCCCCe--------EEeeccccccCchh
Q 043265          153 EPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRT--------LRIKKNLRICGECH  224 (245)
Q Consensus       153 ~~~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~~--------~~l~~~~~~~g~~~  224 (245)
                          +++++.+|...|+.||..+|...+....       +.+.++.|..++..|....        ..++++|.++|+++
T Consensus       633 ----Al~lf~eM~~~Gv~PD~~TynsLI~a~~-------k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~e  701 (1060)
T PLN03218        633 ----ALSIYDDMKKKGVKPDEVFFSALVDVAG-------HAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK  701 (1060)
T ss_pred             ----HHHHHHHHHHcCCCCCHHHHHHHHHHHH-------hCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHH
Confidence                4455555667778888777666555322       2333444444444443111        12555555556655


Q ss_pred             hHHHHhhhhcCce
Q 043265          225 NFIKKLSSIENRE  237 (245)
Q Consensus       225 ~a~~~~~~~~~~~  237 (245)
                      +|.++|++|.+.+
T Consensus       702 eA~~lf~eM~~~g  714 (1060)
T PLN03218        702 KALELYEDIKSIK  714 (1060)
T ss_pred             HHHHHHHHHHHcC
Confidence            5555555555443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.4e-35  Score=274.28  Aligned_cols=228  Identities=14%  Similarity=0.147  Sum_probs=197.7

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHH----HHh--cCCCCcHhhHHHHHHH
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKR----FEN--DGVRPNWSTFVGVITA   74 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~----~~~--~~~~p~~~t~~~ll~~   74 (245)
                      |||+||.+|++.|++++|.++|++|.+.|+.||.+||++||.+|++.|.++.|.+    |..  .|+.||..||++||.+
T Consensus       509 TynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~a  588 (1060)
T PLN03218        509 TFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA  588 (1060)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999998888765    443  5799999999999999


Q ss_pred             hcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCcHHHHHHHHHHHHhCCCCcc
Q 043265           75 CGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDASSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~~~~~~~li~~~~~~g~~~~  151 (245)
                      |++.|++++|.++|++|.+ .|+.|+..+|++||++|++.|++++|.++|++|.   +.||..||++||.+|++.|+++.
T Consensus       589 y~k~G~ldeA~elf~~M~e-~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee  667 (1060)
T PLN03218        589 CANAGQVDRAKEVYQMIHE-YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK  667 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHH-cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            9999999999999999988 7999999999999999999999999999999996   68999999999999999999888


Q ss_pred             cccccccccccccccCCcccccccccccCchhhhhcccccchHHHHHHHHhhcCCCCC--------eEEeeccccccCch
Q 043265          152 GEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGR--------TLRIKKNLRICGEC  223 (245)
Q Consensus       152 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~--------~~~l~~~~~~~g~~  223 (245)
                           +++++.+|...|+.|+..++...+..       +.+.+++..|..++..|...        ...++++|+++|++
T Consensus       668 -----A~~l~~eM~k~G~~pd~~tynsLI~a-------y~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~  735 (1060)
T PLN03218        668 -----AFEILQDARKQGIKLGTVSYSSLMGA-------CSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQL  735 (1060)
T ss_pred             -----HHHHHHHHHHcCCCCCHHHHHHHHHH-------HHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCH
Confidence                 55566666788999999888777764       33456666777776666311        12478888888888


Q ss_pred             hhHHHHhhhhcCceeeec
Q 043265          224 HNFIKKLSSIENREIIVR  241 (245)
Q Consensus       224 ~~a~~~~~~~~~~~~~~~  241 (245)
                      ++|.++|++|.+.++.++
T Consensus       736 eeAlelf~eM~~~Gi~Pd  753 (1060)
T PLN03218        736 PKALEVLSEMKRLGLCPN  753 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCC
Confidence            888888888888776654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=7.5e-34  Score=266.18  Aligned_cols=227  Identities=15%  Similarity=0.158  Sum_probs=178.7

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh---------------------------------
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL---------------------------------   47 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~---------------------------------   47 (245)
                      |||+||.+|++.|++++|.++|++|...|+.||.+||+++|++|+..                                 
T Consensus       154 ~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~  233 (857)
T PLN03077        154 SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYV  233 (857)
T ss_pred             EHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHh
Confidence            69999999999999999999999999999999988887766665443                                 


Q ss_pred             --hhHHHHHH-----------------------------------HHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHH
Q 043265           48 --KLLEAGKR-----------------------------------FENDGVRPNWSTFVGVITACGCFGAVDEGFQHFES   90 (245)
Q Consensus        48 --~~~~~~~~-----------------------------------~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~   90 (245)
                        |.++.|.+                                   |.+.|+.||..||+++|.+|++.|+++.|.+++..
T Consensus       234 k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~  313 (857)
T PLN03077        234 KCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGY  313 (857)
T ss_pred             cCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHH
Confidence              33333332                                   25567888888888888888888888888888888


Q ss_pred             hhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCcccccccccccccccccCCcc
Q 043265           91 VTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYM  170 (245)
Q Consensus        91 m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~  170 (245)
                      |.+ .|+.||..+||+||++|+++|++++|.++|++|. +||.++||+||.+|.+.|+.+.     +++++.+|...|+.
T Consensus       314 ~~~-~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~-~~d~~s~n~li~~~~~~g~~~~-----A~~lf~~M~~~g~~  386 (857)
T PLN03077        314 VVK-TGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME-TKDAVSWTAMISGYEKNGLPDK-----ALETYALMEQDNVS  386 (857)
T ss_pred             HHH-hCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC-CCCeeeHHHHHHHHHhCCCHHH-----HHHHHHHHHHhCCC
Confidence            876 6899999999999999999999999999999999 8999999999999999999888     66677777888999


Q ss_pred             cccccccccCchhhhhcccccchHHHHHHHHhhcCCCCCe--------EEeeccccccCchhhHHHHhhhhcCceeeec
Q 043265          171 PYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRT--------LRIKKNLRICGECHNFIKKLSSIENREIIVR  241 (245)
Q Consensus       171 ~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~~--------~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  241 (245)
                      ||..++...+....+       .+.++.+..+...+...+        ..++++|.+||++++|.++|++|.+++++.+
T Consensus       387 Pd~~t~~~ll~a~~~-------~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~  458 (857)
T PLN03077        387 PDEITIASVLSACAC-------LGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISW  458 (857)
T ss_pred             CCceeHHHHHHHHhc-------cchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeH
Confidence            999999888775433       333344444333332111        1367788888888888888888887776643

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

Probab=100.00  E-value=4.4e-33  Score=255.75  Aligned_cols=178  Identities=14%  Similarity=0.127  Sum_probs=144.0

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~   80 (245)
                      ||+++|.+|++.++++.|.+++..|.+.|+.||..+||.|+.+|++.|.++.|.++...-..||..|||++|.+|++.|+
T Consensus       125 t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~  204 (697)
T PLN03081        125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGN  204 (697)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcC
Confidence            46777777777777777777777777777777777777777777777777777777666666777777777777777777


Q ss_pred             HHHHHHHHHHhhhh----------------------------------cCCCcchHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           81 VDEGFQHFESVTRD----------------------------------YDINPTLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        81 ~~~a~~~~~~m~~~----------------------------------~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      +++|.++|++|.+.                                  .|+.||..+||+||++|+++|++++|.++|++
T Consensus       205 ~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~  284 (697)
T PLN03081        205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG  284 (697)
T ss_pred             HHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHh
Confidence            77777777777541                                  34556666778999999999999999999999


Q ss_pred             cCCCCcHHHHHHHHHHHHhCCCCcccccccccccccccccCCcccccccccccCchhh
Q 043265          127 MQIDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEA  184 (245)
Q Consensus       127 m~~~~~~~~~~~li~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~  184 (245)
                      |+ ++|+++||+||.+|++.|+.+.     +++++.+|...|+.||..+|...+....
T Consensus       285 m~-~~~~vt~n~li~~y~~~g~~~e-----A~~lf~~M~~~g~~pd~~t~~~ll~a~~  336 (697)
T PLN03081        285 MP-EKTTVAWNSMLAGYALHGYSEE-----ALCLYYEMRDSGVSIDQFTFSIMIRIFS  336 (697)
T ss_pred             CC-CCChhHHHHHHHHHHhCCCHHH-----HHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            99 8999999999999999999988     6677777788899999999887776543

>PF13041 PPR_2: PPR repeat family

Probab=99.57  E-value=6.4e-15  Score=89.01  Aligned_cols=50  Identities=16%  Similarity=0.307  Sum_probs=47.5

Q ss_pred             CcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhc
Q 043265           63 PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGR  113 (245)
Q Consensus        63 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~  113 (245)
                      ||..+||++|.+|++.|++++|.++|++|.+ .|+.||..||++||++|+|
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~-~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKK-RGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHcC
Confidence            8999999999999999999999999999987 7999999999999999986

>PF13041 PPR_2: PPR repeat family

Probab=99.54  E-value=1.4e-14  Score=87.44  Aligned_cols=46  Identities=24%  Similarity=0.326  Sum_probs=44.4

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMD   46 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~   46 (245)
                      |||++|++|++.|++++|.++|++|++.|++||..||+++|++|++
T Consensus         5 ~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    5 TYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            6999999999999999999999999999999999999999999985

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.46  E-value=3.9e-13  Score=112.08  Aligned_cols=231  Identities=12%  Similarity=0.150  Sum_probs=166.5

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~   80 (245)
                      ||.+||.++||--..+.|.+++++-.....+.+..+||.+|.+-+-...-+...+|....++||..|||+++++..+.|+
T Consensus       209 t~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~  288 (625)
T KOG4422|consen  209 TVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGK  288 (625)
T ss_pred             hHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcc
Confidence            68899999999999999999999999888889999999999998888788889999999999999999999999999998


Q ss_pred             HHH----HHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHH-HHHHHHhc----C---CC---C-cHHHHHHHHHHHH
Q 043265           81 VDE----GFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAE-AREFIRNM----Q---ID---A-SSVVWETLEKYAQ  144 (245)
Q Consensus        81 ~~~----a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~-a~~~~~~m----~---~~---~-~~~~~~~li~~~~  144 (245)
                      ++.    |.+++.+|++ .|++|...+|..+|..+.+-++..+ |..+..++    .   ++   | |..-|.+-++-|.
T Consensus       289 F~~ar~aalqil~EmKe-iGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~  367 (625)
T KOG4422|consen  289 FEDARKAALQILGEMKE-IGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICS  367 (625)
T ss_pred             hHHHHHHHHHHHHHHHH-hCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHH
Confidence            876    4668889988 8999999999999999999888754 33333322    1   22   2 5567788888888


Q ss_pred             hCCCCccccccc-ccccccccccCCcccccccccccCchhhhhcccccchHHHHHHHHhhcCCCCC--------eEEeec
Q 043265          145 TEPGLLLGEPSS-SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGR--------TLRIKK  215 (245)
Q Consensus       145 ~~g~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~--------~~~l~~  215 (245)
                      ...|.+.|+.+. +++...+-+..|--.....|....      ..+.+..+.++.-+..-.++..+        .+.++.
T Consensus       368 ~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~------~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lr  441 (625)
T KOG4422|consen  368 SLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKF------FDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLR  441 (625)
T ss_pred             HhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHH
Confidence            888888888766 554433332222211112222211      22333444444444444444211        123555


Q ss_pred             cccccCchhhHHHHhhhhcCcee
Q 043265          216 NLRICGECHNFIKKLSSIENREI  238 (245)
Q Consensus       216 ~~~~~g~~~~a~~~~~~~~~~~~  238 (245)
                      +....|.++-.-+++.++..-|.
T Consensus       442 A~~v~~~~e~ipRiw~D~~~~gh  464 (625)
T KOG4422|consen  442 ALDVANRLEVIPRIWKDSKEYGH  464 (625)
T ss_pred             HHhhcCcchhHHHHHHHHHHhhh
Confidence            56666777777777777766553

>PF12854 PPR_1: PPR repeat

Probab=99.18  E-value=4e-11  Score=65.83  Aligned_cols=33  Identities=21%  Similarity=0.424  Sum_probs=21.7

Q ss_pred             CCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           96 DINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        96 ~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      |+.||.+|||+||++|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            566666666666666666666666666666663

>PF12854 PPR_1: PPR repeat

Probab=99.13  E-value=6.3e-11  Score=65.04  Aligned_cols=34  Identities=29%  Similarity=0.516  Sum_probs=32.3

Q ss_pred             cCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhh
Q 043265           59 DGVRPNWSTFVGVITACGCFGAVDEGFQHFESVT   92 (245)
Q Consensus        59 ~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~   92 (245)
                      +|++||..|||+||.+||+.|++++|.++|++|+
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            4899999999999999999999999999999984

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.00  E-value=2.4e-09  Score=89.78  Aligned_cols=170  Identities=12%  Similarity=0.100  Sum_probs=132.9

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh-------hHHHHHHH-------------------HhcCCCC
Q 043265           10 CREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLK-------LLEAGKRF-------------------ENDGVRP   63 (245)
Q Consensus        10 ~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~-------~~~~~~~~-------------------~~~~~~p   63 (245)
                      ...|.+.++.-+|+.|++.|+..+.-.--.|++.-+-.+       .++.+.+|                   ...-.+-
T Consensus       126 IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~PK  205 (625)
T KOG4422|consen  126 ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETLPK  205 (625)
T ss_pred             HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhcCC
Confidence            456789999999999999999888777777776644331       34455444                   2223345


Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCcHHHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDASSVVWETLE  140 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~~~~~~~li  140 (245)
                      ...||++||.+.|+.-+.+.|.+++++-.+ ...+.+..++|.+|.+-+-.    ...++..+|.   +.||..|+|+++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~-~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRA-AKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHH-hhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHH
Confidence            788999999999999999999999999877 57788999999998775532    2366777773   689999999999


Q ss_pred             HHHHhCCCCcccccccccccccccccCCcccccccccccCchhhh
Q 043265          141 KYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAK  185 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~  185 (245)
                      +..+++|+++.+... +++..++|+..|+.|.-.+|...+....+
T Consensus       281 ~c~akfg~F~~ar~a-alqil~EmKeiGVePsLsSyh~iik~f~r  324 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKA-ALQILGEMKEIGVEPSLSSYHLIIKNFKR  324 (625)
T ss_pred             HHHHHhcchHHHHHH-HHHHHHHHHHhCCCcchhhHHHHHHHhcc
Confidence            999999998876554 77788999999999999888766654433

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.00  E-value=7.2e-09  Score=89.15  Aligned_cols=158  Identities=16%  Similarity=0.065  Sum_probs=110.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH----HhcCCCCc----HhhHHHHHH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF----ENDGVRPN----WSTFVGVIT   73 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~----~~~~~~p~----~~t~~~ll~   73 (245)
                      ++.+...|.+.|++++|+++|.++.+.. .++..+++.+...|.+.|.++.|.+.    .+.+..++    ...|..+..
T Consensus       110 ~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~  188 (389)
T PRK11788        110 LQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQ  188 (389)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence            4567788888899999999998887652 34677888888888888877777554    22222221    123556667


Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc--HHHHHHHHHHHHhCCCC
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS--SVVWETLEKYAQTEPGL  149 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~--~~~~~~li~~~~~~g~~  149 (245)
                      .+.+.|++++|..+|+++.+.   .|+ ...+..+...|.+.|+.++|.++|+++. ..|+  ..+++.+..+|...|+.
T Consensus       189 ~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~  265 (389)
T PRK11788        189 QALARGDLDAARALLKKALAA---DPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDE  265 (389)
T ss_pred             HHHhCCCHHHHHHHHHHHHhH---CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCH
Confidence            778888888888888887552   233 4567777888888888888888888775 2344  35577777888888888


Q ss_pred             ccccccc--ccccccc
Q 043265          150 LLGEPSS--SLRLSNK  163 (245)
Q Consensus       150 ~~~~~~~--~~~~~~~  163 (245)
                      +.|....  +.+..|+
T Consensus       266 ~~A~~~l~~~~~~~p~  281 (389)
T PRK11788        266 AEGLEFLRRALEEYPG  281 (389)
T ss_pred             HHHHHHHHHHHHhCCC
Confidence            8776655  4444443

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=98.99  E-value=4.6e-10  Score=79.67  Aligned_cols=74  Identities=55%  Similarity=0.957  Sum_probs=59.7

Q ss_pred             cCCcccccccccccCchhhh--------hcccccchHHHHHHHHhhcCCCCCeEEeeccc-cccCchhhHHHHhhhhcCc
Q 043265          166 DAGYMPYTEYVLRDLDQEAK--------EKPQTYRSERLAVAYGLISTPPGRTLRIKKNL-RICGECHNFIKKLSSIENR  236 (245)
Q Consensus       166 ~~g~~~~~~~~~~~l~~~~~--------~~~~~~~~~~l~~a~~l~~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~  236 (245)
                      ..|+.|+.......+....+        ...+..|+++|++|+++++.      .++++. +.|+|||++.+++++..+|
T Consensus        29 ~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAiafgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~R  102 (116)
T PF14432_consen   29 EEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAIAFGLINT------RVVKNLKRVCGDCHSFIKFISKITGR  102 (116)
T ss_pred             HcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHHHhcccce------eEEecCCccchHHHHHHHHHHHHHCe
Confidence            45666666655555444322        34578899999999999887      478888 9999999999999999999


Q ss_pred             eeeeccCCC
Q 043265          237 EIIVRDKTT  245 (245)
Q Consensus       237 ~~~~~~~~~  245 (245)
                      .|+|||.+|
T Consensus       103 eIiVRD~~r  111 (116)
T PF14432_consen  103 EIIVRDSNR  111 (116)
T ss_pred             EEEEeCCCe
Confidence            999999987

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.97  E-value=1e-08  Score=88.16  Aligned_cols=160  Identities=18%  Similarity=0.157  Sum_probs=111.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDS----PDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITA   74 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~----~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~   74 (245)
                      ++.+...|.+.|++++|.++|..+.+.+-.++.    ..|..+...+.+.|.++.|.+.....  ..| +...+..+...
T Consensus       144 ~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~  223 (389)
T PRK11788        144 LQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDL  223 (389)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHH
Confidence            567888888888898898888888876544332    23455666677777777776553331  223 35567777788


Q ss_pred             hcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCcccc
Q 043265           75 CGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGE  153 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~  153 (245)
                      +.+.|++++|.++|+++... +-.....+++.+..+|.+.|+.++|...++++. ..|+...+..+...+...|+.+.|.
T Consensus       224 ~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~  302 (389)
T PRK11788        224 ALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQ  302 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHH
Confidence            88888888888888887652 211123567788888888888888888888774 4577666777778888888888776


Q ss_pred             ccc--cccccc
Q 043265          154 PSS--SLRLSN  162 (245)
Q Consensus       154 ~~~--~~~~~~  162 (245)
                      ...  +++..|
T Consensus       303 ~~l~~~l~~~P  313 (389)
T PRK11788        303 ALLREQLRRHP  313 (389)
T ss_pred             HHHHHHHHhCc
Confidence            655  444433

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

Probab=98.91  E-value=2.5e-08  Score=93.62  Aligned_cols=150  Identities=9%  Similarity=-0.019  Sum_probs=71.9

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc---CCCCcHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND---GVRPNWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~---~~~p~~~t~~~ll~~~~~~g   79 (245)
                      ..+...|.+.|++++|.++|.++.+.. +.+..++..+...+...|.++.+.++.+.   ..+++...+..+...+.+.|
T Consensus       639 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  717 (899)
T TIGR02917       639 LLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQK  717 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCC
Confidence            344555666666666666666655432 12345555555555555555555443211   12233444455555555555


Q ss_pred             cHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           80 AVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++++|.+.|..+..   ..|+..++..+..+|.+.|+.++|.+.++++.  .+.+...++.+...|...|+.+.|...+
T Consensus       718 ~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  793 (899)
T TIGR02917       718 DYPAAIQAYRKALK---RAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHY  793 (899)
T ss_pred             CHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            55555555554433   12333444445555555555555555444442  1223344444444444445544444433

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.88  E-value=3.7e-09  Score=58.22  Aligned_cols=34  Identities=29%  Similarity=0.481  Sum_probs=32.7

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCH
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDS   34 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~   34 (245)
                      |||+||.+|++.|++++|.++|.+|.+.|++||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7999999999999999999999999999999983

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

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

Probab=98.75  E-value=1.5e-07  Score=88.38  Aligned_cols=121  Identities=9%  Similarity=0.082  Sum_probs=60.7

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g   79 (245)
                      ..+...|.+.|++++|.++++++.+.. ..+..+|..+...|.+.|.++.+....+..   .+.+...+..+..++.+.|
T Consensus       571 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  649 (899)
T TIGR02917       571 LALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMK  649 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcC
Confidence            345566666666666666666665432 334556666666666666555554432211   1123444555555555555


Q ss_pred             cHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           80 AVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ++++|..+|+.+.+   ..| +..++..+...+.+.|++++|..+++.+
T Consensus       650 ~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  695 (899)
T TIGR02917       650 NYAKAITSLKRALE---LKPDNTEAQIGLAQLLLAAKRTESAKKIAKSL  695 (899)
T ss_pred             CHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555555554432   122 2344444444444444444444444444

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.73  E-value=1.8e-08  Score=55.13  Aligned_cols=32  Identities=25%  Similarity=0.407  Sum_probs=31.2

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFL   32 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p   32 (245)
                      |||++|.+|++.|+++.|.++|++|++.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            69999999999999999999999999999988

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

Probab=98.58  E-value=6.8e-08  Score=51.58  Aligned_cols=30  Identities=33%  Similarity=0.605  Sum_probs=28.8

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGI   30 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~   30 (245)
                      |||+||++|++.|++++|.++|++|++.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            799999999999999999999999999885

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.

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

Probab=98.53  E-value=4.9e-08  Score=88.36  Aligned_cols=88  Identities=11%  Similarity=0.124  Sum_probs=56.6

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHH---HHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcC
Q 043265           20 EVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGK---RFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYD   96 (245)
Q Consensus        20 ~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~---~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~   96 (245)
                      .++..+...|+.|+.+||..+|.-||..|+.+.|-   -|+-...+.+...|++++.+....++.+.+.           
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaatif~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAATIFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCccccchhhhhcccccccchhHHHHHhcccccccccCCC-----------
Confidence            34556666777777777777777777666665543   3444455556666777777777777665544           


Q ss_pred             CCcchHHHHHHHHHHhccCCHHH
Q 043265           97 INPTLEHFLGIVDLYGRLQKIAE  119 (245)
Q Consensus        97 ~~p~~~~~~~li~~y~~~g~~~~  119 (245)
                       +|...||+.|..+|..+|++..
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH
Confidence             4556677777777777776654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.52  E-value=1.3e-07  Score=51.78  Aligned_cols=35  Identities=23%  Similarity=0.389  Sum_probs=31.4

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcch
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDINPTL  101 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~  101 (245)
                      .|||++|.+|++.|++++|.++|++|.+ .|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~-~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLE-RGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHH-cCCCCCC
Confidence            4799999999999999999999999987 6999984

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=98.41  E-value=3.7e-07  Score=49.80  Aligned_cols=33  Identities=24%  Similarity=0.544  Sum_probs=30.2

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDINP   99 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p   99 (245)
                      .||+++|.+|++.|+++.|.++|++|++ .|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~-~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKE-QGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHH-hCCCC
Confidence            6899999999999999999999999988 68887

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.40  E-value=1.7e-05  Score=62.23  Aligned_cols=153  Identities=13%  Similarity=-0.010  Sum_probs=115.6

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC---CCcHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV---RPNWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~---~p~~~t~~~ll~~~~~~g   79 (245)
                      ..+-..|.+.|++++|.+.|++..+.. +.+...+..+...|...|.++.+.+..+..+   +.+...+..+-..+...|
T Consensus        35 ~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g  113 (234)
T TIGR02521        35 VQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQG  113 (234)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcc
Confidence            445677889999999999999987653 2346778888888888898888876543322   335667888888999999


Q ss_pred             cHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc
Q 043265           80 AVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++++|.+.++..............+..+-.+|.+.|+.++|...|.+.. ..| +...|..+...+...|+.+.|....
T Consensus       114 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  192 (234)
T TIGR02521       114 KYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYL  192 (234)
T ss_pred             cHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999987532222234567778889999999999999998764 333 4567777778888888888866544

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

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

Probab=98.39  E-value=1.6e-06  Score=78.79  Aligned_cols=145  Identities=13%  Similarity=0.024  Sum_probs=107.3

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhc------------------------CCCCCHHHHHHHHHHhhhhhhHHHHHHH
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNI------------------------GIFLDSPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~------------------------g~~p~~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      ||..+|.-||..|+++.|- +|..|+-+                        --+|.+.||+.|+.+|+.+|++..++.+
T Consensus        27 tyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDli~fe~v  105 (1088)
T KOG4318|consen   27 TYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDLILFEVV  105 (1088)
T ss_pred             hHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccchHHHHHH
Confidence            6889999999999999998 77776211                        1257789999999999999977766543


Q ss_pred             --------------------------------------------------------------------------------
Q 043265           57 --------------------------------------------------------------------------------   56 (245)
Q Consensus        57 --------------------------------------------------------------------------------   56 (245)
                                                                                                      
T Consensus       106 eqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~n  185 (1088)
T KOG4318|consen  106 EQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDN  185 (1088)
T ss_pred             HHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCC
Confidence                                                                                            


Q ss_pred             ---------HhcCC-CCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           57 ---------ENDGV-RPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        57 ---------~~~~~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                               .+.+. .|+..+|.+++.+-.-.|+++.|..++.+|++ .|+..+..-|-.|+-+   .++...++.+...
T Consensus       186 tpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke-~gfpir~HyFwpLl~g---~~~~q~~e~vlrg  261 (1088)
T KOG4318|consen  186 TPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE-KGFPIRAHYFWPLLLG---INAAQVFEFVLRG  261 (1088)
T ss_pred             chHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH-cCCCcccccchhhhhc---CccchHHHHHHHH
Confidence                     11222 48888888888888888888888888888877 5887777656666655   5666666666666


Q ss_pred             cC---CCCcHHHHHHHHHHHHhCCCCc
Q 043265          127 MQ---IDASSVVWETLEKYAQTEPGLL  150 (245)
Q Consensus       127 m~---~~~~~~~~~~li~~~~~~g~~~  150 (245)
                      |.   ++|+..|+.--+..|..+|...
T Consensus       262 mqe~gv~p~seT~adyvip~l~N~~t~  288 (1088)
T KOG4318|consen  262 MQEKGVQPGSETQADYVIPQLSNGQTK  288 (1088)
T ss_pred             HHHhcCCCCcchhHHHHHhhhcchhhh
Confidence            64   6788888887777776655433

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

Probab=98.24  E-value=1.3e-06  Score=46.41  Aligned_cols=28  Identities=18%  Similarity=0.425  Sum_probs=21.3

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhh
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTR   93 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~   93 (245)
                      +|||++|++|++.|++++|.++|++|.+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~   28 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRE   28 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhH
Confidence            3677777777777777777777777766

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.

>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=98.21  E-value=2.5e-05  Score=71.58  Aligned_cols=219  Identities=9%  Similarity=0.025  Sum_probs=135.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccC
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFG   79 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g   79 (245)
                      .+-..+...|++++|+..|++..+.  .|+ ...|..+-..+...|.++.|.......  ..| +...|..+-..+...|
T Consensus       336 ~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g  413 (615)
T TIGR00990       336 LRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKG  413 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3344556678888888888887654  344 456777777777777777776543321  223 4677788888888888


Q ss_pred             cHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc
Q 043265           80 AVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++++|...|+....   +.|+ ...+..+-.+|.+.|++++|...|++.. ..| +...|+.+-..+...|+++.|...+
T Consensus       414 ~~~~A~~~~~kal~---l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~  490 (615)
T TIGR00990       414 EFAQAGKDYQKSID---LDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKF  490 (615)
T ss_pred             CHHHHHHHHHHHHH---cCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHH
Confidence            88888888887754   3453 5667777888888888888888887663 334 4567777778888888888877666


Q ss_pred             --ccccccccccCCcccccccccccCchhhhhcccccchHHHHHHHHhhcC----CCCCe---EEeeccccccCchhhHH
Q 043265          157 --SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLIST----PPGRT---LRIKKNLRICGECHNFI  227 (245)
Q Consensus       157 --~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~----~~~~~---~~l~~~~~~~g~~~~a~  227 (245)
                        ++++.|+..  +...+...+.....      ......+.+..|..+.+.    -|...   ..+-..|...|+.+.|+
T Consensus       491 ~~Al~l~p~~~--~~~~~~~~l~~~a~------~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi  562 (615)
T TIGR00990       491 DTAIELEKETK--PMYMNVLPLINKAL------ALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEAL  562 (615)
T ss_pred             HHHHhcCCccc--cccccHHHHHHHHH------HHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHH
Confidence              555544321  11111110000000      011112333444333322    12222   23566677889999999


Q ss_pred             HHhhhhcC
Q 043265          228 KKLSSIEN  235 (245)
Q Consensus       228 ~~~~~~~~  235 (245)
                      +.|++..+
T Consensus       563 ~~~e~A~~  570 (615)
T TIGR00990       563 KLFERAAE  570 (615)
T ss_pred             HHHHHHHH
Confidence            99987643

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.19  E-value=9.4e-05  Score=58.00  Aligned_cols=150  Identities=9%  Similarity=0.017  Sum_probs=113.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC-----CCcHhhHHHHHHHhc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV-----RPNWSTFVGVITACG   76 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~-----~p~~~t~~~ll~~~~   76 (245)
                      +..+-..|.+.|++++|.+.|.+..+.+- .+...+..+-..+...|.++.+.+.....+     ..+...+..+-..+.
T Consensus        68 ~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  146 (234)
T TIGR02521        68 YLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCAL  146 (234)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHH
Confidence            34566788899999999999999887643 355677788888888898888877544322     223456777888899


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCcccc
Q 043265           77 CFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGE  153 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~  153 (245)
                      ..|++++|.+.+++....   .| +...+..+...|.+.|++++|...+++.. . +.+...+..+...+...|+.+.+.
T Consensus       147 ~~g~~~~A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  223 (234)
T TIGR02521       147 KAGDFDKAEKYLTRALQI---DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQ  223 (234)
T ss_pred             HcCCHHHHHHHHHHHHHh---CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHH
Confidence            999999999999988652   33 45678889999999999999999998764 2 345566666667777778877755


Q ss_pred             cc
Q 043265          154 PS  155 (245)
Q Consensus       154 ~~  155 (245)
                      ..
T Consensus       224 ~~  225 (234)
T TIGR02521       224 RY  225 (234)
T ss_pred             HH
Confidence            43

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

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

Probab=98.17  E-value=2.4e-05  Score=64.45  Aligned_cols=152  Identities=13%  Similarity=0.070  Sum_probs=95.3

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCc-HhhHHHHHHHhccc
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIG-IFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPN-WSTFVGVITACGCF   78 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~-~~t~~~ll~~~~~~   78 (245)
                      ..++..+.+.++++++.++++...... ..++...|..+-..+.+.|..+.|.+..+..  ..|+ ....+.++..+...
T Consensus       114 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~  193 (280)
T PF13429_consen  114 LSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDM  193 (280)
T ss_dssp             ----H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTT
T ss_pred             hHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC
Confidence            456677888888999998888876432 3457777888888888888888887765543  3464 66778888888888


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      |+.+++.+++......  ...|...+..+-.+|...|+.++|...|++.. ..| |+.+...+-.++...|+.+.|..+.
T Consensus       194 ~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~  271 (280)
T PF13429_consen  194 GDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLR  271 (280)
T ss_dssp             CHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT------------
T ss_pred             CChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9888888888877653  23455667888888888999999999888764 345 4444444558888888888876654

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

Probab=98.06  E-value=6e-05  Score=52.42  Aligned_cols=72  Identities=15%  Similarity=0.173  Sum_probs=49.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhhhh------------hHHHHHHHHhcCCCCcHhhHHH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGI-FLDSPDIIELLNVCMDLK------------LLEAGKRFENDGVRPNWSTFVG   70 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~-~p~~~t~~~ll~~~~~~~------------~~~~~~~~~~~~~~p~~~t~~~   70 (245)
                      ..|..+...+++....-+|+.+++.|+ .|+..+|+.+|.+-++..            .+.-+..|...+++|+..||+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            346666677999999999999999999 899999999998877642            1112233445555555555555


Q ss_pred             HHHHh
Q 043265           71 VITAC   75 (245)
Q Consensus        71 ll~~~   75 (245)
                      +|...
T Consensus       110 vl~~L  114 (120)
T PF08579_consen  110 VLGSL  114 (120)
T ss_pred             HHHHH
Confidence            55443

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=98.01  E-value=0.0002  Score=66.16  Aligned_cols=143  Identities=8%  Similarity=-0.133  Sum_probs=72.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcH-hhHHHHHHHhcccCcHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPNW-STFVGVITACGCFGAVD   82 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~-~t~~~ll~~~~~~g~~~   82 (245)
                      -..+.+.|++++|...|++..... ..+...+..+...+...|.++.|......  ...|+. ..+.. +..+.+.|+++
T Consensus       117 a~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~-~~~l~~~g~~~  194 (656)
T PRK15174        117 ASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIAT-CLSFLNKSRLP  194 (656)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHH-HHHHHHcCCHH
Confidence            345556666666666666665431 12345555666666666666655443211  122222 22222 22355666666


Q ss_pred             HHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcc
Q 043265           83 EGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~  151 (245)
                      +|..+++.+... .-.++...+..+...+.+.|+.++|...|.... ..| +...+..+-..+...|+.+.
T Consensus       195 eA~~~~~~~l~~-~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~e  264 (656)
T PRK15174        195 EDHDLARALLPF-FALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSRE  264 (656)
T ss_pred             HHHHHHHHHHhc-CCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchh
Confidence            666666665432 111223333444556666677777766666553 233 34444455566666666654

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

Probab=98.00  E-value=7.4e-06  Score=67.50  Aligned_cols=138  Identities=13%  Similarity=0.106  Sum_probs=33.0

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CCcHhhHHHHHHHhcccCcHHHHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RPNWSTFVGVITACGCFGAVDEGFQHFE   89 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~   89 (245)
                      .++++.|.+.++++...+.. ++..+..++.. ...+.++.+.++...++  .++...+..++..+.+.++++++.++++
T Consensus        57 ~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~  134 (280)
T PF13429_consen   57 LGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLE  134 (280)
T ss_dssp             ---------------------------------------------------------------H-HHHTT-HHHHHHHHH
T ss_pred             cccccccccccccccccccc-ccccccccccc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHH
Confidence            34455555555555443322 22333333333 34444444444333321  2333444444444555555555555555


Q ss_pred             HhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCcc
Q 043265           90 SVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        90 ~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~  151 (245)
                      .........++...|..+-..|.+.|+.++|.+.+++.- ..|+ ....+.++..+...|+.+.
T Consensus       135 ~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~  198 (280)
T PF13429_consen  135 KLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDE  198 (280)
T ss_dssp             HHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHH
T ss_pred             HHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHH
Confidence            443322223344444445555555555555555554432 2332 3444444444444444433

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

Probab=97.93  E-value=0.00018  Score=62.23  Aligned_cols=125  Identities=15%  Similarity=0.057  Sum_probs=96.3

Q ss_pred             HHHHHH---hcCCCCCHHHHHHHHHHhhhhhhHHHHHHH----Hhc--CCCCcHhhHHHHHHHhcccCcHHHHHHHHHHh
Q 043265           21 VMDKLK---NIGIFLDSPDIIELLNVCMDLKLLEAGKRF----END--GVRPNWSTFVGVITACGCFGAVDEGFQHFESV   91 (245)
Q Consensus        21 lf~~m~---~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~----~~~--~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m   91 (245)
                      ++..|.   ..+...+......+++.+.....++.++..    ...  .+..-..|..++|+.|...|..+.+.+++..=
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~  129 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNR  129 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhCh
Confidence            455553   234556888999999999999888887664    222  44444556679999999999999999999877


Q ss_pred             hhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCcHHHHHHHHHHHHhC
Q 043265           92 TRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDASSVVWETLEKYAQTE  146 (245)
Q Consensus        92 ~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~~~~~~~li~~~~~~  146 (245)
                      .. +||-||.+++|.||+.+.+.|++..|.++...|-   .-.+..|+.--+.+|.+.
T Consensus       130 ~~-yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  130 LQ-YGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hh-cccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            66 9999999999999999999999999999998774   223445555555555554

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 [].

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.90  E-value=0.00042  Score=66.43  Aligned_cols=152  Identities=11%  Similarity=-0.005  Sum_probs=93.1

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcHhhHHHHHHHhcccCcHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDLKLLEAGKRFEND--GVRPNWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      .+.+.|++++|.+.|+...+.+  |+ ...+..+.....+.|.+++|....+.  ...|+...|..+-..+.+.|+.++|
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHH
Confidence            4455566666666666655443  22 22222222223233666666554333  3346677777777777888888888


Q ss_pred             HHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc--ccc
Q 043265           85 FQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS--SLR  159 (245)
Q Consensus        85 ~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~--~~~  159 (245)
                      ...+++..+   ..|+ ...++.+-.++...|+.++|...|++.- ..| +...+..+-.++...|+.+.|...+  +++
T Consensus       629 ~~~l~~AL~---l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        629 VSDLRAALE---LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            888777654   3453 4556666677777888888888777653 344 3455666667777778877777666  666


Q ss_pred             ccccc
Q 043265          160 LSNKK  164 (245)
Q Consensus       160 ~~~~~  164 (245)
                      +.|+.
T Consensus       706 l~P~~  710 (987)
T PRK09782        706 DIDNQ  710 (987)
T ss_pred             cCCCC
Confidence            66666

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=97.85  E-value=0.00061  Score=62.96  Aligned_cols=155  Identities=8%  Similarity=-0.018  Sum_probs=110.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHH----HHHHHhc--CCCC-cHhhHHHHHHHhccc
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEA----GKRFEND--GVRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~----~~~~~~~--~~~p-~~~t~~~ll~~~~~~   78 (245)
                      ...+.+.|++++|++.|.+....+ ..+...+..+-.++.+.|.+++    |....+.  ...| +...+..+-..+.+.
T Consensus       219 ~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~  297 (656)
T PRK15174        219 VDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRT  297 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHC
Confidence            456667788888888888777653 2245666667777777776664    3333222  2334 467888889999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHH-HHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETL-EKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~l-i~~~~~~g~~~~~~~~  155 (245)
                      |++++|...+++...   ..|+ ...+..+..+|.+.|++++|...|+.+. ..|+...+... -.++...|+.+.|...
T Consensus       298 g~~~eA~~~l~~al~---l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~  374 (656)
T PRK15174        298 GQNEKAIPLLQQSLA---THPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESV  374 (656)
T ss_pred             CCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999998865   3454 4556778899999999999999998875 46765554443 3677888998888877


Q ss_pred             c--cccccccc
Q 043265          156 S--SLRLSNKK  164 (245)
Q Consensus       156 ~--~~~~~~~~  164 (245)
                      +  +++..|+.
T Consensus       375 l~~al~~~P~~  385 (656)
T PRK15174        375 FEHYIQARASH  385 (656)
T ss_pred             HHHHHHhChhh
Confidence            7  66666654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=97.83  E-value=0.00032  Score=67.20  Aligned_cols=152  Identities=9%  Similarity=0.058  Sum_probs=105.4

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCc-HhhHHHHHHHhcccCcHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPN-WSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~-~~t~~~ll~~~~~~g~~~~a   84 (245)
                      .+.+.|++++|...|+++...  .|+...+..+..++.+.|+++.|.+....-  ..|+ ...+..+.....+.|++++|
T Consensus       518 al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eA  595 (987)
T PRK09782        518 QAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELA  595 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHH
Confidence            345788999999999887543  344455666666777778877776543221  1232 33333334444556999999


Q ss_pred             HHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH-HHHHHHHHHHHhCCCCccccccc--cccc
Q 043265           85 FQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS-VVWETLEKYAQTEPGLLLGEPSS--SLRL  160 (245)
Q Consensus        85 ~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~-~~~~~li~~~~~~g~~~~~~~~~--~~~~  160 (245)
                      ...+++..+   ..|+...|..+-.++.+.|+.++|...|++.. ..|+. ..++.+-.++...|+.+.|....  ++++
T Consensus       596 l~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        596 LNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999987754   46777888888899999999999999998774 55654 44555556788888888877766  7777


Q ss_pred             cccc
Q 043265          161 SNKK  164 (245)
Q Consensus       161 ~~~~  164 (245)
                      .|+.
T Consensus       673 ~P~~  676 (987)
T PRK09782        673 LPDD  676 (987)
T ss_pred             CCCC
Confidence            7665

>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=97.74  E-value=0.00093  Score=57.51  Aligned_cols=120  Identities=13%  Similarity=0.140  Sum_probs=91.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCC---CcHhhHHHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVR---PNWSTFVGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~---p~~~t~~~ll~~~~~~g~   80 (245)
                      +++..+...++++.|.++|+++.+..  |++  ...+.+.+-..+.-.+|.++....++   -|......-...|.+.++
T Consensus       174 ~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  174 TLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCC
Confidence            56777788899999999999999876  554  34466666655555556555444433   244555555666889999


Q ss_pred             HHHHHHHHHHhhhhcCCCcch-HHHHHHHHHHhccCCHHHHHHHHHhcCCC
Q 043265           81 VDEGFQHFESVTRDYDINPTL-EHFLGIVDLYGRLQKIAEAREFIRNMQID  130 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~y~~~g~~~~a~~~~~~m~~~  130 (245)
                      .+.|..+.++..+   ..|+. .+|..|..+|.+.|++++|+..++.+++-
T Consensus       250 ~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  250 YELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             HHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            9999999998854   67865 59999999999999999999999999843

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

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.74  E-value=0.0014  Score=56.98  Aligned_cols=149  Identities=11%  Similarity=-0.018  Sum_probs=90.3

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCH-------HHHHHHHHHhhhhhhHHHHHHHHh---cCCCCcHhhHHHHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDS-------PDIIELLNVCMDLKLLEAGKRFEN---DGVRPNWSTFVGVI   72 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~-------~t~~~ll~~~~~~~~~~~~~~~~~---~~~~p~~~t~~~ll   72 (245)
                      ..+...|.+.|+|++|.+++..+.+.+..++.       .+|..++..-....+.+...++.+   ...+.++.....+.
T Consensus       191 ~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A  270 (398)
T PRK10747        191 RLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMA  270 (398)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHH
Confidence            45678899999999999999999988765332       133333333333323333333211   12344666777777


Q ss_pred             HHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHH-HHHHHHHhCCCCc
Q 043265           73 TACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWE-TLEKYAQTEPGLL  150 (245)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~-~li~~~~~~g~~~  150 (245)
                      .++...|+.++|.+++++..+   ..||..  -.++.+....++.+++.+..+... ..||..... ++=..|...++++
T Consensus       271 ~~l~~~g~~~~A~~~L~~~l~---~~~~~~--l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~  345 (398)
T PRK10747        271 EHLIECDDHDTAQQIILDGLK---RQYDER--LVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQ  345 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHh---cCCCHH--HHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHH
Confidence            777888888888877776644   233331  223444445577777777776663 345544433 3337777777777


Q ss_pred             cccccc
Q 043265          151 LGEPSS  156 (245)
Q Consensus       151 ~~~~~~  156 (245)
                      .|+..+
T Consensus       346 ~A~~~l  351 (398)
T PRK10747        346 EASLAF  351 (398)
T ss_pred             HHHHHH
Confidence            776665

>PRK12370 invasion protein regulator; Provisional

Probab=97.72  E-value=0.0013  Score=59.62  Aligned_cols=77  Identities=12%  Similarity=-0.095  Sum_probs=32.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc-HhhHHHHHHHhcccCcHHHHHHHHHH
Q 043265           14 EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN-WSTFVGVITACGCFGAVDEGFQHFES   90 (245)
Q Consensus        14 ~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~   90 (245)
                      ++++|...+++..+.+- -+...+..+-..+...|.++.|....+.  ...|+ ...+..+-..+...|+.++|...++.
T Consensus       319 ~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        319 AMIKAKEHAIKATELDH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            34555555555444321 1233344443344444444444433222  12222 33344444444555555555555554


Q ss_pred             h
Q 043265           91 V   91 (245)
Q Consensus        91 m   91 (245)
                      .
T Consensus       398 A  398 (553)
T PRK12370        398 C  398 (553)
T ss_pred             H
Confidence            4

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

Probab=97.70  E-value=0.00022  Score=61.65  Aligned_cols=110  Identities=9%  Similarity=0.027  Sum_probs=86.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHhhhhhhHHHHHHHHh----cCCCCcHhhHHHHHHHhcc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNI--GIFLDSPDIIELLNVCMDLKLLEAGKRFEN----DGVRPNWSTFVGVITACGC   77 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~--g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~----~~~~p~~~t~~~ll~~~~~   77 (245)
                      ..++.+....+++.+..++.+.+..  ....-..|..++++.|-+.|..+.+..|..    .|+-||..|||.||..+.+
T Consensus        71 ~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~  150 (429)
T PF10037_consen   71 IFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLK  150 (429)
T ss_pred             HHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhh
Confidence            4556666667788899999888755  222223445699999999999999988854    5999999999999999999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhcc
Q 043265           78 FGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRL  114 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~  114 (245)
                      .|++..|.++..+|.. .+...+..|+..-+.++.+.
T Consensus       151 ~~~~~~A~~V~~~~~l-Qe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  151 KGNYKSAAKVATEMML-QEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             cccHHHHHHHHHHHHH-hhccCCchHHHHHHHHHHHh
Confidence            9999999999999977 45556667776666665554

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 [].

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

Probab=97.66  E-value=0.002  Score=59.16  Aligned_cols=157  Identities=11%  Similarity=0.009  Sum_probs=111.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~   78 (245)
                      |..+-..+...|++++|...|++..+.+ .-+...|..+-..+...|.++.|....+..  ..| +...+..+-..+.+.
T Consensus       368 ~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~  446 (615)
T TIGR00990       368 YIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKE  446 (615)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHC
Confidence            3445566788999999999999987653 234678888888888889999887764432  334 466777788888999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH--------HHHHHHHHHHHhCCC
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS--------VVWETLEKYAQTEPG  148 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~--------~~~~~li~~~~~~g~  148 (245)
                      |++++|...|++..+   ..| +...|+.+-.+|...|++++|.+.|+.-. ..|+.        ..++.....+...|+
T Consensus       447 g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~  523 (615)
T TIGR00990       447 GSIASSMATFRRCKK---NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQD  523 (615)
T ss_pred             CCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhh
Confidence            999999999998865   234 46778889999999999999999998743 33431        112222233344577


Q ss_pred             Cccccccc--cccccc
Q 043265          149 LLLGEPSS--SLRLSN  162 (245)
Q Consensus       149 ~~~~~~~~--~~~~~~  162 (245)
                      ++.|....  ++++.|
T Consensus       524 ~~eA~~~~~kAl~l~p  539 (615)
T TIGR00990       524 FIEAENLCEKALIIDP  539 (615)
T ss_pred             HHHHHHHHHHHHhcCC
Confidence            77766655  454433

>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=97.63  E-value=0.00057  Score=53.27  Aligned_cols=86  Identities=13%  Similarity=0.192  Sum_probs=68.1

Q ss_pred             CCCHHHHHHHHHHhhhh-----hhHHHH----HHHHhcCCCCcHhhHHHHHHHhccc----------------CcHHHHH
Q 043265           31 FLDSPDIIELLNVCMDL-----KLLEAG----KRFENDGVRPNWSTFVGVITACGCF----------------GAVDEGF   85 (245)
Q Consensus        31 ~p~~~t~~~ll~~~~~~-----~~~~~~----~~~~~~~~~p~~~t~~~ll~~~~~~----------------g~~~~a~   85 (245)
                      ..+..+|..+++.|.+.     |.++-.    ..|.+-|+.-|..+|+.||+.+=+.                .+-+-|.
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            34778888888888765     444432    4577888888888888888887542                2456789


Q ss_pred             HHHHHhhhhcCCCcchHHHHHHHHHHhccCCH
Q 043265           86 QHFESVTRDYDINPTLEHFLGIVDLYGRLQKI  117 (245)
Q Consensus        86 ~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~  117 (245)
                      +++++|+. +|+.||..|+..+++.|++.+..
T Consensus       124 ~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  124 DLLEQMEN-NGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHHH-cCCCCcHHHHHHHHHHhccccHH
Confidence            99999977 89999999999999999998863

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

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

Probab=97.62  E-value=0.00071  Score=58.06  Aligned_cols=101  Identities=12%  Similarity=0.094  Sum_probs=78.1

Q ss_pred             CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHH
Q 043265           61 VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWET  138 (245)
Q Consensus        61 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~  138 (245)
                      ++-|+...+-|-.-|-+.|+-..|.+.+-+-   +...| ++.|..=|-.-|.....++.|...|++-. ++|+.+-|..
T Consensus       588 ip~dp~ilskl~dlydqegdksqafq~~yds---yryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwql  664 (840)
T KOG2003|consen  588 IPNDPAILSKLADLYDQEGDKSQAFQCHYDS---YRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQL  664 (840)
T ss_pred             CCCCHHHHHHHHHHhhcccchhhhhhhhhhc---ccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHH
Confidence            4456888888899999999998888877543   33444 56777777788888888999999999886 7999999999


Q ss_pred             HH-HHHHhCCCCccccccc--cccccccc
Q 043265          139 LE-KYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       139 li-~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      || +++++.|+..+|-...  ..+-+|+.
T Consensus       665 miasc~rrsgnyqka~d~yk~~hrkfped  693 (840)
T KOG2003|consen  665 MIASCFRRSGNYQKAFDLYKDIHRKFPED  693 (840)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHhCccc
Confidence            99 6668889988865544  45555554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.54  E-value=0.0025  Score=59.98  Aligned_cols=157  Identities=10%  Similarity=-0.015  Sum_probs=110.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCC-CCH-HHHHHHHHHhhhhhhHHHHHHHHhcC--CCCc-----HhhHHHHHHHhc
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIF-LDS-PDIIELLNVCMDLKLLEAGKRFENDG--VRPN-----WSTFVGVITACG   76 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~-p~~-~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~-----~~t~~~ll~~~~   76 (245)
                      +.++...|++++|+..|+.+.+.+-. |+. ..+  +-.+|...|.++.|....+.-  ..|.     ......+..++.
T Consensus       244 l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~--la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~  321 (765)
T PRK10049        244 LGALLARDRYKDVISEYQRLKAEGQIIPPWAQRW--VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLL  321 (765)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHH--HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHH
Confidence            34556778999999999999887632 432 222  455777888888886653321  1222     244666777889


Q ss_pred             ccCcHHHHHHHHHHhhhhcC----------CCcc---hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHH
Q 043265           77 CFGAVDEGFQHFESVTRDYD----------INPT---LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEK  141 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~----------~~p~---~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~  141 (245)
                      ..|++++|.++++.+.....          -.|+   ...+..+...+...|+.++|.+++++.. ..| +...+..+..
T Consensus       322 ~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~  401 (765)
T PRK10049        322 ESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYAS  401 (765)
T ss_pred             hcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            99999999999998865311          1123   2345567788889999999999999874 334 4677777888


Q ss_pred             HHHhCCCCccccccc--cccccccc
Q 043265          142 YAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       142 ~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .+...|+.+.|....  ++.+.|+.
T Consensus       402 l~~~~g~~~~A~~~l~~al~l~Pd~  426 (765)
T PRK10049        402 VLQARGWPRAAENELKKAEVLEPRN  426 (765)
T ss_pred             HHHhcCCHHHHHHHHHHHHhhCCCC
Confidence            888889988888776  66666655

>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=97.54  E-value=0.0017  Score=50.73  Aligned_cols=92  Identities=15%  Similarity=0.141  Sum_probs=73.1

Q ss_pred             hhHHHHHHHHc-----CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh--------------------hhHHHHHHH
Q 043265            2 LNSELKHLCRE-----REVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL--------------------KLLEAGKRF   56 (245)
Q Consensus         2 ~n~ll~~~~~~-----g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~--------------------~~~~~~~~~   56 (245)
                      |..+|..|.+.     |.++=...-+..|.+.|+.-|..+|+.||+.+=+.                    -+++...+|
T Consensus        50 F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qM  129 (228)
T PF06239_consen   50 FLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQM  129 (228)
T ss_pred             HHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHH
Confidence            55566666654     67777777788999999999999999999998664                    156667889


Q ss_pred             HhcCCCCcHhhHHHHHHHhcccCc-HHHHHHHHHHhhh
Q 043265           57 ENDGVRPNWSTFVGVITACGCFGA-VDEGFQHFESVTR   93 (245)
Q Consensus        57 ~~~~~~p~~~t~~~ll~~~~~~g~-~~~a~~~~~~m~~   93 (245)
                      ...|+-||..|+..|+..+++.+. +.+..++.-.|.+
T Consensus       130 E~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  130 ENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            999999999999999999999886 4445555555554

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

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.53  E-value=0.0018  Score=60.93  Aligned_cols=151  Identities=11%  Similarity=0.024  Sum_probs=107.5

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHH---HHHhcccCcHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDS--PDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGV---ITACGCFGAVD   82 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~l---l~~~~~~g~~~   82 (245)
                      -..+.|+++.|+..|.+..+..  |+.  ..+ .++..+...|..++|....+.-+.|+...+..+   ...+...|+++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            3568899999999999998764  442  334 888888888999999888777777754444433   44677789999


Q ss_pred             HHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCccccccc--cc
Q 043265           83 EGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGEPSS--SL  158 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~  158 (245)
                      +|.++|+++.+.   .|+ ...+..++..|.+.++.++|.+.+++.. ..|+...+-.++..+...++...|....  ++
T Consensus       120 ~Aiely~kaL~~---dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        120 QALALWQSSLKK---DPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHhh---CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            999999999763   343 4556688999999999999999999986 5677666633323332233322233333  77


Q ss_pred             cccccc
Q 043265          159 RLSNKK  164 (245)
Q Consensus       159 ~~~~~~  164 (245)
                      +..|+.
T Consensus       197 ~~~P~n  202 (822)
T PRK14574        197 RLAPTS  202 (822)
T ss_pred             HhCCCC
Confidence            777766

>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=97.51  E-value=0.00099  Score=48.01  Aligned_cols=93  Identities=17%  Similarity=0.219  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHH
Q 043265           34 SPDIIELLNVCMDLKLLEAGKRFEND--GVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLY  111 (245)
Q Consensus        34 ~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y  111 (245)
                      ..++.++|.++++.|.++..+.+.+.  |+.++...         ..+.          ...+....||..+..+++.+|
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~---------~~~~----------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKK---------KEGD----------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCcc---------ccCc----------cCCCCCCCCCHHHHHHHHHHH
Confidence            45566666666666666666665443  22221100         0000          233356778888888888888


Q ss_pred             hccCCHHHHHHHHHhcC----CCCcHHHHHHHHHHHHh
Q 043265          112 GRLQKIAEAREFIRNMQ----IDASSVVWETLEKYAQT  145 (245)
Q Consensus       112 ~~~g~~~~a~~~~~~m~----~~~~~~~~~~li~~~~~  145 (245)
                      +.+|++..|.++.+...    ++-+..+|..|+.-+..
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            88888888887776552    45457778888844433

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

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

Probab=97.45  E-value=0.0022  Score=46.25  Aligned_cols=27  Identities=4%  Similarity=-0.090  Sum_probs=13.6

Q ss_pred             CCCcHHHHHHHHHHHHhCCCCcccccc
Q 043265          129 IDASSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus       129 ~~~~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      ..|+..+-.+++.+++..+++..|..+
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~   74 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKL   74 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHH
Confidence            345555555555555555555554443

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.43  E-value=0.0013  Score=64.76  Aligned_cols=147  Identities=14%  Similarity=0.130  Sum_probs=80.7

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      .+.+.|++++|++.|++..+..- .+...+..+-..+...|.++.|.+..+.-  ..| +...+..+...+. .++.++|
T Consensus       360 ~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A  437 (1157)
T PRK11447        360 AALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKA  437 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHH
Confidence            46688999999999999887632 34566777778888888888887754432  223 3444444444442 3445566


Q ss_pred             HHHHHHhhhhcCC-------CcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCcccccc
Q 043265           85 FQHFESVTRDYDI-------NPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        85 ~~~~~~m~~~~~~-------~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      ..+++.+.....-       ......+..+...|...|++++|...|++.. ..|+ ...+..+-..|...|+.+.|...
T Consensus       438 ~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~  517 (1157)
T PRK11447        438 LAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADAL  517 (1157)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            5555543221000       0001123344455555666666666655442 2333 33344444555555555555544


Q ss_pred             c
Q 043265          156 S  156 (245)
Q Consensus       156 ~  156 (245)
                      .
T Consensus       518 l  518 (1157)
T PRK11447        518 M  518 (1157)
T ss_pred             H
Confidence            4

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

Probab=97.42  E-value=0.0032  Score=56.26  Aligned_cols=159  Identities=14%  Similarity=0.177  Sum_probs=108.5

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc-HhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN-WSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~-~~t~~~ll~~~~~~   78 (245)
                      ||-|-.++-..|++.+|++.|.+...-.- --..+.+.|-..|...|.++.|.++-..  .+.|. ...+|.|-..|.+.
T Consensus       323 y~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqq  401 (966)
T KOG4626|consen  323 YNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQ  401 (966)
T ss_pred             HhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhc
Confidence            56666666667777777777776654321 1234566666677777777766665332  34444 45677888888888


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcch-HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTL-EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      |++++|...+++..   .|.|+- ..|+-|=..|-..|+++.|...+.+-- +.|. ...++-|-+.|...|++..|...
T Consensus       402 gnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~s  478 (966)
T KOG4626|consen  402 GNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQS  478 (966)
T ss_pred             ccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHH
Confidence            88888888887653   477763 567777777778888888888776553 4443 35567777888889998888777


Q ss_pred             c--cccccccc
Q 043265          156 S--SLRLSNKK  164 (245)
Q Consensus       156 ~--~~~~~~~~  164 (245)
                      .  ++++.|+-
T Consensus       479 Y~~aLklkPDf  489 (966)
T KOG4626|consen  479 YRTALKLKPDF  489 (966)
T ss_pred             HHHHHccCCCC
Confidence            7  88887777

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.40  E-value=0.0095  Score=51.73  Aligned_cols=42  Identities=12%  Similarity=-0.022  Sum_probs=24.0

Q ss_pred             HHHHHHHhhcCCCCCe---EEeeccccccCchhhHHHHhhhhcCc
Q 043265          195 RLAVAYGLISTPPGRT---LRIKKNLRICGECHNFIKKLSSIENR  236 (245)
Q Consensus       195 ~l~~a~~l~~~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~  236 (245)
                      .+..+....+.-|.++   +.+-..+.+.++...|.+.|++..+.
T Consensus       313 al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~  357 (398)
T PRK10747        313 LEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ  357 (398)
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            3455555555556554   12334455667777777777776554

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

Probab=97.40  E-value=0.0012  Score=54.80  Aligned_cols=115  Identities=10%  Similarity=0.009  Sum_probs=84.1

Q ss_pred             HHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHH---HHHHHHHHhccCCHH
Q 043265           42 NVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEH---FLGIVDLYGRLQKIA  118 (245)
Q Consensus        42 ~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~---~~~li~~y~~~g~~~  118 (245)
                      ..+...|.+++|.+....+  .+.......+..|.+.++++.|.+.++.|.+   +..|...   ..+.|+.+.-...+.
T Consensus       110 ~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDEDSILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCCHHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcHHHHHHHHHHHHHHhCchhHH
Confidence            3455679999999887776  5677778889999999999999999999964   3445332   234455544445789


Q ss_pred             HHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccccc--ccccc
Q 043265          119 EAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       119 ~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      +|..+|+++.  ..+++.+.|.+..+....|+++.|+.+.  +++..
T Consensus       185 ~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~  231 (290)
T PF04733_consen  185 DAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD  231 (290)
T ss_dssp             HHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-
T ss_pred             HHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc
Confidence            9999999985  4578888898888999999999998776  55443

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=97.30  E-value=0.0067  Score=57.26  Aligned_cols=159  Identities=11%  Similarity=0.022  Sum_probs=108.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---------CCCcHhhHHHHHHHh
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---------VRPNWSTFVGVITAC   75 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---------~~p~~~t~~~ll~~~   75 (245)
                      .|.++.+.|+..++++.|+.|+..|......+--.+-++|...+.++.|..+.+.-         ..++......|..++
T Consensus       298 rl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~  377 (822)
T PRK14574        298 RLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSL  377 (822)
T ss_pred             HHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHH
Confidence            46678888888888888888888887644457778888888887777776653321         122344457788888


Q ss_pred             cccCcHHHHHHHHHHhhhhcCC------------Ccch-HHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHH
Q 043265           76 GCFGAVDEGFQHFESVTRDYDI------------NPTL-EHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLE  140 (245)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~------------~p~~-~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li  140 (245)
                      ...+++++|..+++.+......            .||- ..+..++..+.-.|++.+|++.++++. . +-|...+..+-
T Consensus       378 ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A  457 (822)
T PRK14574        378 NESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALA  457 (822)
T ss_pred             HhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            8888888888888888652221            1221 223456777788888888888888884 2 33566667777


Q ss_pred             HHHHhCCCCccccccc--ccccccc
Q 043265          141 KYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      ..+...|....|+...  +..+.|+
T Consensus       458 ~v~~~Rg~p~~A~~~~k~a~~l~P~  482 (822)
T PRK14574        458 SIYLARDLPRKAEQELKAVESLAPR  482 (822)
T ss_pred             HHHHhcCCHHHHHHHHHHHhhhCCc
Confidence            8888888877777655  4433443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=97.27  E-value=0.014  Score=57.53  Aligned_cols=91  Identities=10%  Similarity=0.041  Sum_probs=55.2

Q ss_pred             CcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHH
Q 043265           63 PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETL  139 (245)
Q Consensus        63 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~l  139 (245)
                      ++...+..+-..+.+.|+.++|.+.|+...+   ..| +...+..+..+|...|+.++|...++... ..|+ ..++..+
T Consensus       601 ~~~~~~~~La~~~~~~g~~~~A~~~y~~al~---~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~l  677 (1157)
T PRK11447        601 PSTRIDLTLADWAQQRGDYAAARAAYQRVLT---REPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRV  677 (1157)
T ss_pred             CCchHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHH
Confidence            3444555666666677777777777776654   233 34566667777777777777777776554 2333 3344444


Q ss_pred             HHHHHhCCCCccccccc
Q 043265          140 EKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       140 i~~~~~~g~~~~~~~~~  156 (245)
                      -.++...|+.+.|....
T Consensus       678 a~~~~~~g~~~eA~~~~  694 (1157)
T PRK11447        678 ALAWAALGDTAAAQRTF  694 (1157)
T ss_pred             HHHHHhCCCHHHHHHHH
Confidence            45666666666665554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.24  E-value=0.001  Score=60.33  Aligned_cols=129  Identities=13%  Similarity=0.120  Sum_probs=97.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQ   86 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~   86 (245)
                      .+-..+..|.+|+.+++.++.+.+..  --|..+.+.|+..|.++.++++...+     .-|+-.|..|.+.|.+++|.+
T Consensus       740 eaai~akew~kai~ildniqdqk~~s--~yy~~iadhyan~~dfe~ae~lf~e~-----~~~~dai~my~k~~kw~da~k  812 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKTAS--GYYGEIADHYANKGDFEIAEELFTEA-----DLFKDAIDMYGKAGKWEDAFK  812 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhcccc--ccchHHHHHhccchhHHHHHHHHHhc-----chhHHHHHHHhccccHHHHHH
Confidence            44556678888888888888776532  23778888999999999998875442     345667888999999999998


Q ss_pred             HHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCcc
Q 043265           87 HFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        87 ~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~  151 (245)
                      +-++.   .|-+.++..|-+-..-+-++|++.+|++++-.+. .||..     |..|-++|..+.
T Consensus       813 la~e~---~~~e~t~~~yiakaedldehgkf~eaeqlyiti~-~p~~a-----iqmydk~~~~dd  868 (1636)
T KOG3616|consen  813 LAEEC---HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG-EPDKA-----IQMYDKHGLDDD  868 (1636)
T ss_pred             HHHHh---cCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc-CchHH-----HHHHHhhCcchH
Confidence            87655   4666778888888888889999999999998887 77743     456667665554

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

Probab=97.22  E-value=0.0028  Score=56.61  Aligned_cols=120  Identities=9%  Similarity=0.043  Sum_probs=71.9

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHH---HHhc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVI---TACG   76 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll---~~~~   76 (245)
                      ||.++=++|.-.++.+.|++.|.+...-+  | ...+|+.+=.=+.....+|.|..-.+..+.+|+..||+.-   -.|.
T Consensus       423 sWca~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~  500 (638)
T KOG1126|consen  423 SWCALGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVYL  500 (638)
T ss_pred             HHHHhcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhhee
Confidence            57777778888889999999998875432  3 3455554433344455666666666666666666666543   2455


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           77 CFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                      +.++++.|+-.|+..   ..|.|. .+....+-..|-+.|+.|+|+.+|+
T Consensus       501 Kqek~e~Ae~~fqkA---~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~  547 (638)
T KOG1126|consen  501 KQEKLEFAEFHFQKA---VEINPSNSVILCHIGRIQHQLKRKDKALQLYE  547 (638)
T ss_pred             ccchhhHHHHHHHhh---hcCCccchhHHhhhhHHHHHhhhhhHHHHHHH
Confidence            666666666666544   235553 3334445555555555555555554

>TIGR00540 hemY_coli hemY protein

Probab=97.17  E-value=0.014  Score=50.82  Aligned_cols=150  Identities=9%  Similarity=-0.039  Sum_probs=84.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh-------hhhhhHHHHHHHHhcC---CCCcHhhHHHHHH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVC-------MDLKLLEAGKRFENDG---VRPNWSTFVGVIT   73 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~-------~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~   73 (245)
                      .+...|.+.|++++|.+++..+.+.++.++...-..-..++       ......+...++....   .+.+...+..+..
T Consensus       192 ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~  271 (409)
T TIGR00540       192 LAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAE  271 (409)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHH
Confidence            56678999999999999999999987643332211111211       1111222333333222   1136777778888


Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCCcchHHH-HHHHHHH--hccCCHHHHHHHHHhcC-CCCcHH--H-HHHHHHHHHhC
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDINPTLEHF-LGIVDLY--GRLQKIAEAREFIRNMQ-IDASSV--V-WETLEKYAQTE  146 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~~li~~y--~~~g~~~~a~~~~~~m~-~~~~~~--~-~~~li~~~~~~  146 (245)
                      .+...|+.++|.+++++..+.   .||.... -.++..+  ...++.+.+.+.++... ..|+..  . ..++=..|.+.
T Consensus       272 ~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~  348 (409)
T TIGR00540       272 HLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKH  348 (409)
T ss_pred             HHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHc
Confidence            888888888888888777542   3443210 0122222  23456666666665543 344443  3 33444666677


Q ss_pred             CCCccccccc
Q 043265          147 PGLLLGEPSS  156 (245)
Q Consensus       147 g~~~~~~~~~  156 (245)
                      |+++.|...+
T Consensus       349 ~~~~~A~~~l  358 (409)
T TIGR00540       349 GEFIEAADAF  358 (409)
T ss_pred             ccHHHHHHHH
Confidence            7777665543

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

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

Probab=97.09  E-value=0.0027  Score=56.64  Aligned_cols=96  Identities=7%  Similarity=0.068  Sum_probs=50.9

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHH
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKY  142 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~  142 (245)
                      ..|..|-..|-..|++|.|...+++..+   ..|+ ...|+-|-.++-..|++.+|.+.+.+.- ..|+ .-..+-|=..
T Consensus       287 ~a~gNla~iYyeqG~ldlAI~~Ykral~---~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni  363 (966)
T KOG4626|consen  287 VAHGNLACIYYEQGLLDLAIDTYKRALE---LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNI  363 (966)
T ss_pred             hhccceEEEEeccccHHHHHHHHHHHHh---cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            3444444445555666666666654432   3443 2456666666666666666666665442 2222 2344455555


Q ss_pred             HHhCCCCccccccc--cccccccc
Q 043265          143 AQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       143 ~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      |+..|.++.|..+.  +++++|+-
T Consensus       364 ~~E~~~~e~A~~ly~~al~v~p~~  387 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALEVFPEF  387 (966)
T ss_pred             HHHhccchHHHHHHHHHHhhChhh
Confidence            66666666555555  55555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.07  E-value=0.03  Score=52.92  Aligned_cols=144  Identities=10%  Similarity=0.028  Sum_probs=105.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhcccCcH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCFGAV   81 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~g~~   81 (245)
                      .+......|+.++|+++|.+..... ..+...+..+..++.+.|.++.|.+..+..  . +.+...+..+...+...|+.
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~   99 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQY   99 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH
Confidence            3556778899999999999987622 334556888888888889888887765542  3 33466677888888999999


Q ss_pred             HHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCcccc
Q 043265           82 DEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLLGE  153 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~~~  153 (245)
                      ++|...+++..+.   .|+ .. +..+-.+|...|+.++|...+++.. ..|+ ...+..+..++...+..+.|.
T Consensus       100 ~eA~~~l~~~l~~---~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al  170 (765)
T PRK10049        100 DEALVKAKQLVSG---APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPAL  170 (765)
T ss_pred             HHHHHHHHHHHHh---CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHH
Confidence            9999999988663   443 44 7788889999999999999998874 4555 344455556666666655443

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

Probab=97.05  E-value=0.01  Score=41.44  Aligned_cols=76  Identities=9%  Similarity=0.128  Sum_probs=50.9

Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhcCC-CcchHHHHHHHHHHhccCCH--------HHHHHHHHhc---CCCCcHHHH
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDYDI-NPTLEHFLGIVDLYGRLQKI--------AEAREFIRNM---QIDASSVVW  136 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~y~~~g~~--------~~a~~~~~~m---~~~~~~~~~  136 (245)
                      ...|..|...+++.....+|+.+++ .|+ .|++.+|+.+++.-++...-        -+.+.+++.|   +++|+..||
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkR-N~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKR-NGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHh-cCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            4455556666778788888887776 577 78888888887777765421        1234455555   267888888


Q ss_pred             HHHHHHHHh
Q 043265          137 ETLEKYAQT  145 (245)
Q Consensus       137 ~~li~~~~~  145 (245)
                      |.+|+...+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888866544

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 [, , ].

>PRK12370 invasion protein regulator; Provisional

Probab=96.99  E-value=0.0095  Score=54.05  Aligned_cols=142  Identities=8%  Similarity=-0.083  Sum_probs=99.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcH-hhHHHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPNW-STFVGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~-~t~~~ll~~~~~~g~   80 (245)
                      .+=..+...|++++|...|++..+.+ ..+...|..+-.++...|.+++|....+.  ...|+. ..+..++..+...|+
T Consensus       343 ~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~  421 (553)
T PRK12370        343 LLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTG  421 (553)
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccC
Confidence            34456778899999999999998765 22456777788888889999988776544  344543 233444555677899


Q ss_pred             HHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHH-HHHHHHHHhCCC
Q 043265           81 VDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVW-ETLEKYAQTEPG  148 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~-~~li~~~~~~g~  148 (245)
                      +++|...+++....  ..|+ ...+..+-.+|...|+.++|...+.++. ..|+..+. +.+-..|...|+
T Consensus       422 ~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  490 (553)
T PRK12370        422 IDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNSE  490 (553)
T ss_pred             HHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccHH
Confidence            99999999887542  1243 4456778888999999999999998875 34554444 444456666664

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

Probab=96.98  E-value=0.029  Score=44.89  Aligned_cols=115  Identities=10%  Similarity=0.028  Sum_probs=50.2

Q ss_pred             HHHHHhhhhhhHHHHHHHHh---cCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhcc
Q 043265           39 ELLNVCMDLKLLEAGKRFEN---DGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRL  114 (245)
Q Consensus        39 ~ll~~~~~~~~~~~~~~~~~---~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~  114 (245)
                      .....-.+.|++..|....+   ..-++|...|+.+=-+|-+.|++++|..-|.+..+   +.| +...+|-|--.|.=.
T Consensus       105 ~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~---L~~~~p~~~nNlgms~~L~  181 (257)
T COG5010         105 AQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALE---LAPNEPSIANNLGMSLLLR  181 (257)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccChhHHHHHHHHHHH---hccCCchhhhhHHHHHHHc
Confidence            34444444454444443322   23344455555555555555555555555544433   111 122334444444444


Q ss_pred             CCHHHHHHHHHhcCC--CCcHHHHHHHHHHHHhCCCCccccccc
Q 043265          115 QKIAEAREFIRNMQI--DASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       115 g~~~~a~~~~~~m~~--~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      |+.++|..++..-..  ..|..+=+.+.-.....|+++.|+.+.
T Consensus       182 gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         182 GDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             CCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            555555555544431  113344444444444445555544443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.94  E-value=0.087  Score=38.41  Aligned_cols=126  Identities=10%  Similarity=0.130  Sum_probs=95.1

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVD   82 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~   82 (245)
                      ..+|..+.+.+........++.+...|. .+....|.++..|++...-+....+..   .++.....-+++.|.+.+.++
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~~~ll~~l~~---~~~~yd~~~~~~~c~~~~l~~   86 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDPQKEIERLDN---KSNHYDIEKVGKLCEKAKLYE   86 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCHHHHHHHHHh---ccccCCHHHHHHHHHHcCcHH
Confidence            3578889889999999999999988874 688899999999998754444333332   245555666999999999999


Q ss_pred             HHHHHHHHhhhhcCCCcchHHHHHHHHHHhcc-CCHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 043265           83 EGFQHFESVTRDYDINPTLEHFLGIVDLYGRL-QKIAEAREFIRNMQIDASSVVWETLEKYAQT  145 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~-g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~  145 (245)
                      ++..++..+..          |...++.+.+. ++.+.|.+++.+-.   +...|..++.+|..
T Consensus        87 ~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~~~---~~~lw~~~~~~~l~  137 (140)
T smart00299       87 EAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVKQN---NPELWAEVLKALLD  137 (140)
T ss_pred             HHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHhCC---CHHHHHHHHHHHHc
Confidence            99999976633          23344555555 88999999998754   66689999888764

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

Probab=96.94  E-value=0.012  Score=52.78  Aligned_cols=153  Identities=8%  Similarity=0.007  Sum_probs=100.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHhhhhhhHHH-HHHHHhcCCCCcHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGI--FLDSPDIIELLNVCMDLKLLEA-GKRFENDGVRPNWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~--~p~~~t~~~ll~~~~~~~~~~~-~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~   83 (245)
                      .+|-.-+++++|+++|+..++..-  .-+...|+++|...-+.=.+.. ++.+.. --+-.+.||.++=.+|+-.++.+.
T Consensus       361 rayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~-~~~~sPesWca~GNcfSLQkdh~~  439 (638)
T KOG1126|consen  361 RAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLID-TDPNSPESWCALGNCFSLQKDHDT  439 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHh-hCCCCcHHHHHhcchhhhhhHHHH
Confidence            466667889999999999875421  2356788888887755433332 222221 123357889999889999999999


Q ss_pred             HHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHH---HHHHhCCCCccccccc--c
Q 043265           84 GFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLE---KYAQTEPGLLLGEPSS--S  157 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li---~~~~~~g~~~~~~~~~--~  157 (245)
                      |.+.|+...+   +.| ..++|+.+=.=+.....+|.|...|..-- ..|..-||+.-   --|.+.+..+.|+.-+  +
T Consensus       440 Aik~f~RAiQ---ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al-~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA  515 (638)
T KOG1126|consen  440 AIKCFKRAIQ---LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL-GVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKA  515 (638)
T ss_pred             HHHHHHHhhc---cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh-cCCchhhHHHHhhhhheeccchhhHHHHHHHhh
Confidence            9988876543   455 45666666555666667778888887665 55666666665   3456667777766655  5


Q ss_pred             ccccccc
Q 043265          158 LRLSNKK  164 (245)
Q Consensus       158 ~~~~~~~  164 (245)
                      +++.|..
T Consensus       516 ~~INP~n  522 (638)
T KOG1126|consen  516 VEINPSN  522 (638)
T ss_pred             hcCCccc
Confidence            5554444

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

Probab=96.94  E-value=0.0067  Score=50.05  Aligned_cols=126  Identities=8%  Similarity=0.093  Sum_probs=56.5

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGI-FLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~-~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~   77 (245)
                      |-.+|+..-+.+..+.|..+|.+.++.+. ........++|.-++ .++.+.|.++.+.|   +.-+..-|..-|.-+.+
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~-~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l~~   82 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYC-NKDPKRARKIFERGLKKFPSDPDFWLEYLDFLIK   82 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHT-CS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            44555556666666666666666654322 222222233332221 12233333333332   23344455555555555


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           78 FGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      .++.+.|..+|+.......-.. ....|...++-=.+.|+++.+.++.+++.
T Consensus        83 ~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~  134 (280)
T PF05843_consen   83 LNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAE  134 (280)
T ss_dssp             TT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHH
T ss_pred             hCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5566666666655543211111 11355555555555565555555555553

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=96.86  E-value=0.031  Score=49.79  Aligned_cols=155  Identities=12%  Similarity=0.131  Sum_probs=113.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHh-----cCC-CCCH-HHHHHHHHHhhhhhhHHHHHHHHhc-------CCCCc---
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKN-----IGI-FLDS-PDIIELLNVCMDLKLLEAGKRFEND-------GVRPN---   64 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~-----~g~-~p~~-~t~~~ll~~~~~~~~~~~~~~~~~~-------~~~p~---   64 (245)
                      ++.|=..|.+.|++++|...+++..+     .|. .|.+ .-++.+...|+..+.++++..+.+.       -+.++   
T Consensus       286 l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~  365 (508)
T KOG1840|consen  286 LNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVN  365 (508)
T ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchH
Confidence            45566789999999999998888632     222 2333 3456666677888888887665222       22232   


Q ss_pred             -HhhHHHHHHHhcccCcHHHHHHHHHHhhhhc---CC--Cc-chHHHHHHHHHHhccCCHHHHHHHHHhcC--------C
Q 043265           65 -WSTFVGVITACGCFGAVDEGFQHFESVTRDY---DI--NP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ--------I  129 (245)
Q Consensus        65 -~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---~~--~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~--------~  129 (245)
                       ..+|+.|-..|-+.|++.+|+++|++.....   +.  .+ ....++-|-..|.+.+..++|.++|.+-.        .
T Consensus       366 ~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~  445 (508)
T KOG1840|consen  366 LAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPD  445 (508)
T ss_pred             HHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCC
Confidence             4679999999999999999999999875421   11  22 24567888899999999999999997653        2


Q ss_pred             CCc-HHHHHHHHHHHHhCCCCccccccc
Q 043265          130 DAS-SVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       130 ~~~-~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      .|+ ..+|..|...|...|+.+.|..+.
T Consensus       446 ~~~~~~~~~nL~~~Y~~~g~~e~a~~~~  473 (508)
T KOG1840|consen  446 HPDVTYTYLNLAALYRAQGNYEAAEELE  473 (508)
T ss_pred             CCchHHHHHHHHHHHHHcccHHHHHHHH
Confidence            344 377999999999999999987766

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

Probab=96.80  E-value=0.055  Score=45.87  Aligned_cols=153  Identities=16%  Similarity=0.091  Sum_probs=104.1

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCH-------HHHHHHHHHhhhhhhHHH---HHHHHhcCCCCcHhhHHHHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDS-------PDIIELLNVCMDLKLLEA---GKRFENDGVRPNWSTFVGVI   72 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~-------~t~~~ll~~~~~~~~~~~---~~~~~~~~~~p~~~t~~~ll   72 (245)
                      +....+|.+.|++.+...+...|.+.|+--|.       .+|..+++-....+..+.   ..+=+....+-++..-.+++
T Consensus       191 rLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a  270 (400)
T COG3071         191 RLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYA  270 (400)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHH
Confidence            45678999999999999999999999985544       578888887776654444   22223334455566666777


Q ss_pred             HHhcccCcHHHHHHHHHHhhhhcCCCcc------------------------------hHHHHHHHHHHhccCCHHHHHH
Q 043265           73 TACGCFGAVDEGFQHFESVTRDYDINPT------------------------------LEHFLGIVDLYGRLQKIAEARE  122 (245)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~~~~p~------------------------------~~~~~~li~~y~~~g~~~~a~~  122 (245)
                      .-+.++|+-++|.++..+-.+ .++-|+                              ...+.+|=..|.+++.+.+|..
T Consensus       271 ~~li~l~~~~~A~~~i~~~Lk-~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~  349 (400)
T COG3071         271 ERLIRLGDHDEAQEIIEDALK-RQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLWGKASE  349 (400)
T ss_pred             HHHHHcCChHHHHHHHHHHHH-hccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHH
Confidence            777777777777777665544 233222                              1334555566777777777777


Q ss_pred             HHHhc-CCCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265          123 FIRNM-QIDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       123 ~~~~m-~~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      .|+.- +.+|+..+|+-+-.++...|+...+....
T Consensus       350 ~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r  384 (400)
T COG3071         350 ALEAALKLRPSASDYAELADALDQLGEPEEAEQVR  384 (400)
T ss_pred             HHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHH
Confidence            77643 35677777777777777777777666554

>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=96.77  E-value=0.075  Score=40.12  Aligned_cols=121  Identities=14%  Similarity=0.129  Sum_probs=88.6

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccC--cHHHHHHHHHHhhhhc
Q 043265           18 ALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFG--AVDEGFQHFESVTRDY   95 (245)
Q Consensus        18 A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g--~~~~a~~~~~~m~~~~   95 (245)
                      -.+.+..+.+.|+.|+...|..+++.+.+.|.+....++...++-||.......+-......  -..-|.+.+.++..  
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~--   90 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGT--   90 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhh--
Confidence            35666777889999999999999999999999999999999999999888877775554432  23334444444431  


Q ss_pred             CCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC
Q 043265           96 DINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPG  148 (245)
Q Consensus        96 ~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~  148 (245)
                             .+..+++.+-..|++-+|.++..... ..+......++.|....+|
T Consensus        91 -------~~~~iievLL~~g~vl~ALr~ar~~~-~~~~~~~~~fLeAA~~~~D  135 (167)
T PF07035_consen   91 -------AYEEIIEVLLSKGQVLEALRYARQYH-KVDSVPARKFLEAAANSND  135 (167)
T ss_pred             -------hHHHHHHHHHhCCCHHHHHHHHHHcC-CcccCCHHHHHHHHHHcCC
Confidence                   56788899999999999999998864 2233333445555544443

>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=96.71  E-value=0.0088  Score=37.63  Aligned_cols=62  Identities=23%  Similarity=0.293  Sum_probs=49.5

Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHH
Q 043265           77 CFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEK  141 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~  141 (245)
                      ..|++++|.++|+.+...   .| +...+-.+..+|.+.|++++|..+++... ..|+...|..++.
T Consensus         3 ~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~a   66 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLLA   66 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHHh
Confidence            578999999999998663   34 56667789999999999999999999996 4677666766653

...

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=96.69  E-value=0.017  Score=51.39  Aligned_cols=230  Identities=11%  Similarity=0.091  Sum_probs=138.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc-----CC-CCCHHHHHH-HHHHhhhhhhHHHHHHH-------Hhc---CCCC-cH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNI-----GI-FLDSPDIIE-LLNVCMDLKLLEAGKRF-------END---GVRP-NW   65 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~-----g~-~p~~~t~~~-ll~~~~~~~~~~~~~~~-------~~~---~~~p-~~   65 (245)
                      -+-..|...|++++|+.+|....+.     |. .|.+.+..- +-..|...+.+++|..+       ...   ...| -.
T Consensus       204 ~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  283 (508)
T KOG1840|consen  204 NLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVA  283 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            3678999999999999999997654     32 344433222 44455555666655443       222   2333 35


Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhh----hcCCC-cchH-HHHHHHHHHhccCCHHHHHHHHHhcC------CCCc-
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTR----DYDIN-PTLE-HFLGIVDLYGRLQKIAEAREFIRNMQ------IDAS-  132 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~~~~-p~~~-~~~~li~~y~~~g~~~~a~~~~~~m~------~~~~-  132 (245)
                      .+++.|-..|.+.|++++|..+++...+    ..|.. |.+. -++.+...+...+.+++|..++.+--      ..++ 
T Consensus       284 ~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~  363 (508)
T KOG1840|consen  284 ATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDN  363 (508)
T ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccc
Confidence            6778888889999999999888775532    12222 3332 35677788888999999999886431      1222 


Q ss_pred             ---HHHHHHHHHHHHhCCCCccccccc--ccccccccccCCcccccccccccCchhhhhccccc-chHHHHHHHHhh---
Q 043265          133 ---SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTY-RSERLAVAYGLI---  203 (245)
Q Consensus       133 ---~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~-~~~~l~~a~~l~---  203 (245)
                         ..+++.|=..|...|..+.|+..+  ++....+. ..+..+.....+..+.....+..-.. ......++.+..   
T Consensus       364 ~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~-~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~  442 (508)
T KOG1840|consen  364 VNLAKIYANLAELYLKMGKYKEAEELYKKAIQILREL-LGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLC  442 (508)
T ss_pred             hHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhc-ccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHh
Confidence               367888889999999999988877  44443222 12223333333333333222222222 222233333333   


Q ss_pred             -cCCCCCe---EEeeccccccCchhhHHHHhhhhc
Q 043265          204 -STPPGRT---LRIKKNLRICGECHNFIKKLSSIE  234 (245)
Q Consensus       204 -~~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~  234 (245)
                       ...|...   .-|...|.+-|+.++|.++.+...
T Consensus       443 g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  443 GPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             CCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             2222111   236777889999999999888765

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

Probab=96.64  E-value=0.073  Score=39.17  Aligned_cols=119  Identities=13%  Similarity=0.055  Sum_probs=59.8

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHH--HHHHhhhhhhHHHHHHH----HhcCCCCcH--hhHHHHHHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIE--LLNVCMDLKLLEAGKRF----ENDGVRPNW--STFVGVITA   74 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~--ll~~~~~~~~~~~~~~~----~~~~~~p~~--~t~~~ll~~   74 (245)
                      ..++.++ ..++...+.+.++.+.+.+-.-.......  +-..+...|.++.|...    ......|+.  .....+...
T Consensus        16 ~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~   94 (145)
T PF09976_consen   16 EQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARI   94 (145)
T ss_pred             HHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHH
Confidence            3444444 36667777777777665432111111222  22334455666655443    222211211  223334555


Q ss_pred             hcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           75 CGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                      +...|++++|+..++.... ..+.  ...+...=++|.+.|+.++|...|+
T Consensus        95 ~~~~~~~d~Al~~L~~~~~-~~~~--~~~~~~~Gdi~~~~g~~~~A~~~y~  142 (145)
T PF09976_consen   95 LLQQGQYDEALATLQQIPD-EAFK--ALAAELLGDIYLAQGDYDEARAAYQ  142 (145)
T ss_pred             HHHcCCHHHHHHHHHhccC-cchH--HHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            6666777777777655432 2332  2344556666777777777766665

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

Probab=96.56  E-value=0.014  Score=48.37  Aligned_cols=149  Identities=15%  Similarity=0.071  Sum_probs=113.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CCcHhhH-HHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RPNWSTF-VGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p~~~t~-~~ll~~~~~~g~   80 (245)
                      -|=++|.+-|.+.+|++.|+.-...  .|-+.||-.|-++|.+....+.|..+...|+  .|-.+|| .-+...+-..++
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHh
Confidence            3557899999999999999987765  4566788899999999999999998887764  4555555 556677888899


Q ss_pred             HHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           81 VDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      .++|.++++...+..  ..++....++-..|.-.++.|.|.+.+.++- + --+...|+.+=-+|...+.+|.+...+
T Consensus       306 ~~~a~~lYk~vlk~~--~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  306 QEDALQLYKLVLKLH--PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HHHHHHHHHHHHhcC--CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHH
Confidence            999999999886521  2256667788889999999999999998663 1 335566666655666666777765555

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

Probab=96.54  E-value=0.093  Score=41.51  Aligned_cols=144  Identities=10%  Similarity=0.018  Sum_probs=100.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHh--cCCCCcH-hhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEN--DGVRPNW-STFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~--~~~~p~~-~t~~~ll~~~~~~g~~~~   83 (245)
                      -+|.+.|+...|.+-+++..++.- -+.-+|..+-..|.+.|..+.+.+.-+  ..+.|+. ..-|.-=--+|..|.+++
T Consensus        43 l~YL~~gd~~~A~~nlekAL~~DP-s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~e  121 (250)
T COG3063          43 LGYLQQGDYAQAKKNLEKALEHDP-SYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEE  121 (250)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHH
Confidence            578899999999999999988752 245678888888889998888877633  3556643 333333334577889999


Q ss_pred             HHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCcc
Q 043265           84 GFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~  151 (245)
                      |...|+...++-..---..||.-+.-+..+.|+.+.|+..|++-- ..|+ ..+.-.|-......|+.-.
T Consensus       122 A~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         122 AMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchH
Confidence            999999887752222234588899999999999999999997663 3343 3333344444444444333

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

Probab=96.51  E-value=0.024  Score=49.43  Aligned_cols=47  Identities=11%  Similarity=-0.017  Sum_probs=37.3

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhhhHHHHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      -|-++|.+++|++.|....+.  .|| ++-|+..-.+|...|+|+.+.++
T Consensus       124 ~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied  171 (606)
T KOG0547|consen  124 KFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIED  171 (606)
T ss_pred             hhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHH
Confidence            466788899999999887764  577 78888888888888888877665

>TIGR00540 hemY_coli hemY protein

Probab=96.40  E-value=0.12  Score=45.07  Aligned_cols=124  Identities=10%  Similarity=-0.032  Sum_probs=80.1

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHHhcCCC--CcHhh---HHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHH
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFENDGVR--PNWST---FVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGI  107 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~--p~~~t---~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l  107 (245)
                      +...+..+...+...|..+.|.+..+...+  ||...   ...........++.+.+.+.++...+...-.|+.....++
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sL  341 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRAL  341 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHH
Confidence            677888888888888888888776555433  55442   1222222333466777777776654433333322344577


Q ss_pred             HHHHhccCCHHHHHHHHHh--c-CCCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265          108 VDLYGRLQKIAEAREFIRN--M-QIDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       108 i~~y~~~g~~~~a~~~~~~--m-~~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      =..+.+.|++++|.+.|+.  . ...||..++..+-..+...|+.+.|....
T Consensus       342 g~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~  393 (409)
T TIGR00540       342 GQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMR  393 (409)
T ss_pred             HHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            7778888888888888883  2 35688877777778888888877766555

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=96.36  E-value=0.014  Score=37.94  Aligned_cols=59  Identities=17%  Similarity=0.205  Sum_probs=27.1

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      ..+..+...+...+++++|.+.|+.....  ...+..++..+...+...|+.++|...|..
T Consensus        35 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~   93 (100)
T cd00189          35 DAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYYKLGKYEEALEAYEK   93 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            34444444455555555555555544321  111223444445555555555555555443

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

Probab=96.33  E-value=0.14  Score=42.58  Aligned_cols=134  Identities=12%  Similarity=0.071  Sum_probs=87.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcHhhH---HHHHHHhcccCcHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPNWSTF---VGVITACGCFGAVD   82 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~~t~---~~ll~~~~~~g~~~   82 (245)
                      .+...|++++|+++++.-      .+.......+..|-+.+.++.|.+..+.  .+..|....   .+.+......+.+.
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHH
Confidence            345578899998887642      3556777788888888999988775432  344443332   23333333345789


Q ss_pred             HHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCC
Q 043265           83 EGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGL  149 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~  149 (245)
                      +|..+|+++..  .+.+++.+.|.+..++...|++++|++++.+.- ..| |..+...++.++...|+.
T Consensus       185 ~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  185 DAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             HHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-T
T ss_pred             HHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCC
Confidence            99999999865  456788888999999999999999999887653 233 445555566555555554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

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

Probab=96.32  E-value=0.12  Score=43.97  Aligned_cols=115  Identities=11%  Similarity=0.066  Sum_probs=83.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHH----HHH-HHhcCCCCcHhhHHHHHHHhccc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEA----GKR-FENDGVRPNWSTFVGVITACGCF   78 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~----~~~-~~~~~~~p~~~t~~~ll~~~~~~   78 (245)
                      +++.-+.++|+.++|.++..+-.+++-.|...++    -.+.+.++.+.    +++ +...+..|  ..+.+|=.-|.+.
T Consensus       268 ~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~----~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~  341 (400)
T COG3071         268 AYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRL----IPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKN  341 (400)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHhccChhHHHH----HhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHh
Confidence            4566778899999999999998888776652222    12223332222    221 24445555  5666666778999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      +.+.+|...|+.-   ....|+..+|+-+-++|.+.|+.++|..++++-
T Consensus       342 ~~w~kA~~~leaA---l~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~  387 (400)
T COG3071         342 KLWGKASEALEAA---LKLRPSASDYAELADALDQLGEPEEAEQVRREA  387 (400)
T ss_pred             hHHHHHHHHHHHH---HhcCCChhhHHHHHHHHHHcCChHHHHHHHHHH
Confidence            9999999999844   457899999999999999999999999988754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=96.26  E-value=0.27  Score=39.02  Aligned_cols=150  Identities=13%  Similarity=0.047  Sum_probs=99.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCC-CC-HHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCcHh----hHHHHHHHh
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIF-LD-SPDIIELLNVCMDLKLLEAGKRFENDG--VRPNWS----TFVGVITAC   75 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~-p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~~~----t~~~ll~~~   75 (245)
                      .+...+.+.|++++|...|++.....-. |. ...+..+-.++.+.|.++.|....+.-  ..|+..    ++..+-.++
T Consensus        38 ~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~  117 (235)
T TIGR03302        38 EEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSN  117 (235)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHH
Confidence            3456788899999999999998765321 21 235667777888888888887654332  233222    233333333


Q ss_pred             ccc--------CcHHHHHHHHHHhhhhcCCCcchH-HH-----------------HHHHHHHhccCCHHHHHHHHHhcC-
Q 043265           76 GCF--------GAVDEGFQHFESVTRDYDINPTLE-HF-----------------LGIVDLYGRLQKIAEAREFIRNMQ-  128 (245)
Q Consensus        76 ~~~--------g~~~~a~~~~~~m~~~~~~~p~~~-~~-----------------~~li~~y~~~g~~~~a~~~~~~m~-  128 (245)
                      ...        |+.++|.+.|+.+...   .|+.. .+                 -.+-..|.+.|+.++|...|+... 
T Consensus       118 ~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~  194 (235)
T TIGR03302       118 YNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVE  194 (235)
T ss_pred             HHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            332        7889999999988653   34321 11                 134567888999999999998763 


Q ss_pred             CCC----cHHHHHHHHHHHHhCCCCccccccc
Q 043265          129 IDA----SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       129 ~~~----~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ..|    ....|..+..++...|+.+.|....
T Consensus       195 ~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~  226 (235)
T TIGR03302       195 NYPDTPATEEALARLVEAYLKLGLKDLAQDAA  226 (235)
T ss_pred             HCCCCcchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            122    2467888889999999988876544

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).

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

Probab=96.26  E-value=0.23  Score=42.01  Aligned_cols=145  Identities=10%  Similarity=0.024  Sum_probs=94.5

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHH---HHHHhhhhhhHHHHHHHHhc--CCCCc-HhhHHHHHHHhcccCcH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIE---LLNVCMDLKLLEAGKRFEND--GVRPN-WSTFVGVITACGCFGAV   81 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~---ll~~~~~~~~~~~~~~~~~~--~~~p~-~~t~~~ll~~~~~~g~~   81 (245)
                      .+...|++++|.+++++..+.. +.|...+..   ........+..+.+.+....  ...|+ ......+-..+...|++
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~  130 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQY  130 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCH
Confidence            4567799999999999987653 223334442   22222223455555554433  22233 23334555678889999


Q ss_pred             HHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CC---CcH--HHHHHHHHHHHhCCCCccccc
Q 043265           82 DEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-ID---ASS--VVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~---~~~--~~~~~li~~~~~~g~~~~~~~  154 (245)
                      ++|.+.+++..+   ..|+ ...+..+-.+|...|++++|...+++.. ..   |+.  ..|-.+-..+...|+.+.|..
T Consensus       131 ~~A~~~~~~al~---~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         131 DRAEEAARRALE---LNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             HHHHHHHHHHHh---hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999998865   3344 5667888899999999999999998764 22   232  234456677888899888766


Q ss_pred             cc
Q 043265          155 SS  156 (245)
Q Consensus       155 ~~  156 (245)
                      ..
T Consensus       208 ~~  209 (355)
T cd05804         208 IY  209 (355)
T ss_pred             HH
Confidence            55

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.

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

Probab=96.23  E-value=0.19  Score=42.24  Aligned_cols=109  Identities=14%  Similarity=0.115  Sum_probs=73.7

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVD   82 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~   82 (245)
                      +.-|.-+...|....|.++-.+.   . .||.--|-..+.+++..+.|++..++...  +-++.-|-..+.+|.+.|...
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHHHHHHHHCCCHH
Confidence            44566667777777776664443   2 36777788888888888888877777554  334477777788888888877


Q ss_pred             HHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           83 EGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      +|..+...+           ++.--+..|.++|++.+|-..--+.+
T Consensus       255 eA~~yI~k~-----------~~~~rv~~y~~~~~~~~A~~~A~~~k  289 (319)
T PF04840_consen  255 EASKYIPKI-----------PDEERVEMYLKCGDYKEAAQEAFKEK  289 (319)
T ss_pred             HHHHHHHhC-----------ChHHHHHHHHHCCCHHHHHHHHHHcC
Confidence            777666542           22566777778888877766654444

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

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

Probab=96.20  E-value=0.28  Score=35.14  Aligned_cols=104  Identities=10%  Similarity=0.055  Sum_probs=66.5

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhc---CCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFEND---GVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLY  111 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~---~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y  111 (245)
                      .....+...+.+.|..+.+.++.+.   .-+.+...+..+-..+.+.|++++|..+++.... . ...+...+-.+-..|
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~-~-~p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAA-L-DPDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-c-CCCChHHHHHHHHHH
Confidence            3344555556666777766655332   1233567777777778888888888888887644 2 122455666677788


Q ss_pred             hccCCHHHHHHHHHhcC-CCCcHHHHHHHH
Q 043265          112 GRLQKIAEAREFIRNMQ-IDASSVVWETLE  140 (245)
Q Consensus       112 ~~~g~~~~a~~~~~~m~-~~~~~~~~~~li  140 (245)
                      ...|+.++|...|+... ..|+...+.-+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  125 (135)
T TIGR02552        96 LALGEPESALKALDLAIEICGENPEYSELK  125 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHhccccchHHHHH
Confidence            88888888888887664 456655544443

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

>PRK11189 lipoprotein NlpI; Provisional

Probab=96.18  E-value=0.22  Score=41.37  Aligned_cols=112  Identities=13%  Similarity=0.060  Sum_probs=62.6

Q ss_pred             CCHHHHHHHHHHHHhcC-CCCC--HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHH
Q 043265           13 REVKAALEVMDKLKNIG-IFLD--SPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQ   86 (245)
Q Consensus        13 g~~~~A~~lf~~m~~~g-~~p~--~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~   86 (245)
                      +..+.++.-|.++.... ..|+  ...|..+-..|.+.|..+.+......  ...| +...|+.+-..+...|++++|.+
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            34555666666665432 2222  23344444455555655555443221  2233 35666666677777777777777


Q ss_pred             HHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           87 HFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        87 ~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .|+...+   +.|+ ..+|..+-.+|...|+.++|.+.|+..
T Consensus       120 ~~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~a  158 (296)
T PRK11189        120 AFDSVLE---LDPTYNYAYLNRGIALYYGGRYELAQDDLLAF  158 (296)
T ss_pred             HHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            7766643   3453 455566666666677777777776654

>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=96.13  E-value=0.11  Score=33.47  Aligned_cols=91  Identities=14%  Similarity=0.081  Sum_probs=69.5

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+...+.+.|++++|..+|.+..+..- .+...+..+...+...+.++.+.+.....   .+.+..++..+...+...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            45566788889999999999999876532 24467777888888888888887754432   233446788888999999


Q ss_pred             CcHHHHHHHHHHhhh
Q 043265           79 GAVDEGFQHFESVTR   93 (245)
Q Consensus        79 g~~~~a~~~~~~m~~   93 (245)
                      |+.+.|...+....+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            999999999987643

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.11  E-value=0.034  Score=40.98  Aligned_cols=114  Identities=7%  Similarity=0.073  Sum_probs=79.8

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcC
Q 043265           20 EVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYD   96 (245)
Q Consensus        20 ~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~   96 (245)
                      .+|++..+.  .|+  .+...-.++...|.++.+......  ...| +...|..+-.++.+.|++++|...|+....   
T Consensus        14 ~~~~~al~~--~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~---   86 (144)
T PRK15359         14 DILKQLLSV--DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALM---   86 (144)
T ss_pred             HHHHHHHHc--CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh---
Confidence            445554443  233  344555666777888877665433  3333 677888888889999999999999988865   


Q ss_pred             CCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHH
Q 043265           97 INP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLE  140 (245)
Q Consensus        97 ~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li  140 (245)
                      ..| +...+..+-.++.+.|+.++|...|+..- ..|+...|....
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~  132 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIR  132 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            344 56778888888999999999999998763 567665555544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.11  E-value=0.14  Score=37.69  Aligned_cols=84  Identities=12%  Similarity=0.026  Sum_probs=42.8

Q ss_pred             HHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhC
Q 043265           70 GVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTE  146 (245)
Q Consensus        70 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~  146 (245)
                      ..-.++...|++++|...|+....   +.| +...|..+-.++.+.|++++|...|+..- ..| +...|..+-.++...
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence            344445555666666665555432   223 34455555555556666666666555443 222 334444444555555


Q ss_pred             CCCccccccc
Q 043265          147 PGLLLGEPSS  156 (245)
Q Consensus       147 g~~~~~~~~~  156 (245)
                      |+.+.|...+
T Consensus       106 g~~~eAi~~~  115 (144)
T PRK15359        106 GEPGLAREAF  115 (144)
T ss_pred             CCHHHHHHHH
Confidence            5555555444

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

Probab=96.09  E-value=0.36  Score=42.04  Aligned_cols=133  Identities=11%  Similarity=0.009  Sum_probs=95.4

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHh---cCCCCcHhhHHHHHHHhcccCcHHHHHHHHHH
Q 043265           14 EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEN---DGVRPNWSTFVGVITACGCFGAVDEGFQHFES   90 (245)
Q Consensus        14 ~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~---~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~   90 (245)
                      +..+|++++.+..+ -+.-|+...+-|-..|-+.|+-.++-+..=   +-++.|..|.-=|-.-|....-++++..+|+.
T Consensus       573 d~aqaie~~~q~~s-lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ek  651 (840)
T KOG2003|consen  573 DPAQAIELLMQANS-LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEK  651 (840)
T ss_pred             CHHHHHHHHHHhcc-cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            34444444433221 233457777778888888887777766532   23556777776666667777778899999986


Q ss_pred             hhhhcCCCcchHHHHHHH-HHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCc
Q 043265           91 VTRDYDINPTLEHFLGIV-DLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLL  150 (245)
Q Consensus        91 m~~~~~~~p~~~~~~~li-~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~  150 (245)
                      .   .-++|+.+-|-.|| +++.+.|++..|.++++...  ++.|.-+...|++.|...|--+
T Consensus       652 a---aliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl~d  711 (840)
T KOG2003|consen  652 A---ALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGLKD  711 (840)
T ss_pred             H---HhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccchh
Confidence            6   35899999999876 56667999999999999885  5678888888888887776544

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

Probab=96.00  E-value=0.09  Score=43.39  Aligned_cols=127  Identities=12%  Similarity=0.125  Sum_probs=92.0

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcC-----CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDG-----VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD  109 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~-----~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  109 (245)
                      .+|..+++..-+.+.++.++++....     +........++|.- ...++.+.|..+|+...+.  +..+...|...|+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~-~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEY-YCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHH-HTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            57899999999999899888764332     33344444444433 3356777899999998775  4456677899999


Q ss_pred             HHhccCCHHHHHHHHHhcC-CCCc----HHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          110 LYGRLQKIAEAREFIRNMQ-IDAS----SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       110 ~y~~~g~~~~a~~~~~~m~-~~~~----~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .+.+.|+.+.|+.+|++.- .-|.    ...|...|..=.+.|+++....+.  +.+.+++.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            9999999999999999875 2233    359999999999999999877777  66666664

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.

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

Probab=95.98  E-value=0.45  Score=38.29  Aligned_cols=121  Identities=13%  Similarity=0.013  Sum_probs=80.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH--HhcCCCCc-HhhHHHHHHHhcccCcH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF--ENDGVRPN-WSTFVGVITACGCFGAV   81 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~--~~~~~~p~-~~t~~~ll~~~~~~g~~   81 (245)
                      ......+.|++..|+..|.+...- -.||..+|+.+=-+|.+.|.++.|+.-  +...+.|+ ...+|.|--.+.-.|+.
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~  184 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDL  184 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCH
Confidence            445666677788888887776553 346777777777777777777777652  33344553 45566777777777788


Q ss_pred             HHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           82 DEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      +.|..++...... + .-|+..-..+.-+.+..|++++|+++...-.
T Consensus       185 ~~A~~lll~a~l~-~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~~e~  229 (257)
T COG5010         185 EDAETLLLPAYLS-P-AADSRVRQNLALVVGLQGDFREAEDIAVQEL  229 (257)
T ss_pred             HHHHHHHHHHHhC-C-CCchHHHHHHHHHHhhcCChHHHHhhccccc
Confidence            8887777766441 2 2255556667777777778887777765443

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

Probab=95.96  E-value=0.11  Score=45.02  Aligned_cols=120  Identities=9%  Similarity=-0.054  Sum_probs=89.9

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhcc
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRL  114 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~  114 (245)
                      ....+|+..+...+.++.+..+.+.=.+.++.....+.+.+...++-.+|.+++.+...+  ..-|......-.+.+.+.
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhc
Confidence            445556666666677877777655433334445566888888888888999988877653  222566666777889999


Q ss_pred             CCHHHHHHHHHhcC-CCCcH-HHHHHHHHHHHhCCCCccccccc
Q 043265          115 QKIAEAREFIRNMQ-IDASS-VVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       115 g~~~~a~~~~~~m~-~~~~~-~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++.+.|..+.++.. ..|+. .+|..|..+|...|+++.|....
T Consensus       248 ~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaL  291 (395)
T PF09295_consen  248 KKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLAL  291 (395)
T ss_pred             CCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            99999999999885 56765 69999999999999999987655

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

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

Probab=95.94  E-value=0.22  Score=35.76  Aligned_cols=85  Identities=13%  Similarity=0.109  Sum_probs=42.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ..+.+.|++++|.+.|+.....+ ..+...|..+-..+.+.|.++.+.......   .+.+...+..+-..+...|+.++
T Consensus        25 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~  103 (135)
T TIGR02552        25 YNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPES  103 (135)
T ss_pred             HHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCHHH
Confidence            44455556666666665554433 123445555555555555555554432221   12234444445555555666666


Q ss_pred             HHHHHHHhh
Q 043265           84 GFQHFESVT   92 (245)
Q Consensus        84 a~~~~~~m~   92 (245)
                      |...|+...
T Consensus       104 A~~~~~~al  112 (135)
T TIGR02552       104 ALKALDLAI  112 (135)
T ss_pred             HHHHHHHHH
Confidence            666665443

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

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=95.92  E-value=0.23  Score=34.40  Aligned_cols=25  Identities=4%  Similarity=0.081  Sum_probs=17.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNI   28 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~   28 (245)
                      .....+.+.|++++|.+.|..+.+.
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~   31 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKK   31 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455667777788888877777653

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.

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

Probab=95.85  E-value=0.26  Score=38.42  Aligned_cols=90  Identities=12%  Similarity=0.093  Sum_probs=39.8

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHH-HhccCC--HHHHHHHHHhcC-CCCc-HHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDL-YGRLQK--IAEAREFIRNMQ-IDAS-SVVWE  137 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~-y~~~g~--~~~a~~~~~~m~-~~~~-~~~~~  137 (245)
                      |...|..+-..|...|++++|...|+...+   ..| +...+..+-.+ |...|+  .++|..++++.- ..|+ ...+.
T Consensus        72 ~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~---l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~  148 (198)
T PRK10370         72 NSEQWALLGEYYLWRNDYDNALLAYRQALQ---LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALM  148 (198)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHH
Confidence            444455555555555555555555554432   223 23334444443 234444  255555554442 2332 23333


Q ss_pred             HHHHHHHhCCCCccccccc
Q 043265          138 TLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       138 ~li~~~~~~g~~~~~~~~~  156 (245)
                      .+-..+...|+.+.|...+
T Consensus       149 ~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370        149 LLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHcCCHHHHHHHH
Confidence            3334444555555554444

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=95.84  E-value=0.24  Score=39.38  Aligned_cols=125  Identities=15%  Similarity=0.046  Sum_probs=81.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCC-CCH-HHHHHHHHHhhhh--------hhHHHHHHHHhcC--CCCcHh-hH--
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIF-LDS-PDIIELLNVCMDL--------KLLEAGKRFENDG--VRPNWS-TF--   68 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~-p~~-~t~~~ll~~~~~~--------~~~~~~~~~~~~~--~~p~~~-t~--   68 (245)
                      .+-..|.+.|++++|...|+++.+..-. |.. .++..+-.++.+.        |..+.+.+....-  ..|+.. .+  
T Consensus        75 ~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a  154 (235)
T TIGR03302        75 DLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDA  154 (235)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHH
Confidence            3456788899999999999999765322 221 1333333333332        5555555442221  123221 11  


Q ss_pred             ---------------HHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           69 ---------------VGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        69 ---------------~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                                     -.+-..+.+.|+.++|...++...+...-.| ....+..+..+|.+.|+.++|...++.+.
T Consensus       155 ~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~  230 (235)
T TIGR03302       155 KKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLG  230 (235)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                           1344567888999999999999876433233 34678899999999999999999998775

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).

>PRK11189 lipoprotein NlpI; Provisional

Probab=95.83  E-value=0.43  Score=39.67  Aligned_cols=118  Identities=8%  Similarity=-0.150  Sum_probs=87.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCc-HhhHHHHHHHhcccCcHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPN-WSTFVGVITACGCFGAVD   82 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~-~~t~~~ll~~~~~~g~~~   82 (245)
                      =..|.+.|++++|...|.+..+..- .+...|+.+-..+...|.++.|.......  +.|+ ..+|..+-.++...|+.+
T Consensus        71 g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~  149 (296)
T PRK11189         71 GVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYE  149 (296)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHH
Confidence            3467888999999999999887542 35788999999999999999887764443  4454 677788888888999999


Q ss_pred             HHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           83 EGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      +|.+.|+...+   ..|+-.........+...++.++|...|.+.
T Consensus       150 eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        150 LAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            99999988755   3454332233333445677899999999654

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

Probab=95.82  E-value=0.014  Score=38.66  Aligned_cols=53  Identities=13%  Similarity=0.098  Sum_probs=22.2

Q ss_pred             HHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           70 GVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        70 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                      .+-.+|.+.|+.++|..+++....  +.. +....-.+-.+|.+.|++++|.++|+
T Consensus        30 ~la~~~~~~~~y~~A~~~~~~~~~--~~~-~~~~~~l~a~~~~~l~~y~eAi~~l~   82 (84)
T PF12895_consen   30 NLAQCYFQQGKYEEAIELLQKLKL--DPS-NPDIHYLLARCLLKLGKYEEAIKALE   82 (84)
T ss_dssp             HHHHHHHHTTHHHHHHHHHHCHTH--HHC-HHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHhCC--CCC-CHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence            345555555555555555544111  111 11122233445555555555555544

>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=95.77  E-value=0.00054  Score=50.40  Aligned_cols=128  Identities=15%  Similarity=0.216  Sum_probs=85.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      +|..+.+.+.++.....++.+...+..-+....+.++..|++.+..+....+.+..   +..-...++..|.+.|.++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~---~~yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS---NNYDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS---SSS-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc---cccCHHHHHHHHHhcchHHHH
Confidence            56677777888888888888887776677888899999999887766666665532   224445677777777777777


Q ss_pred             HHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC
Q 043265           85 FQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPG  148 (245)
Q Consensus        85 ~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~  148 (245)
                      .-++..+...          ...+..+.+.++++.|.+.+.+..   |..+|..++..|...++
T Consensus        90 ~~Ly~~~~~~----------~~al~i~~~~~~~~~a~e~~~~~~---~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   90 VYLYSKLGNH----------DEALEILHKLKDYEEAIEYAKKVD---DPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHHCCTTH----------TTCSSTSSSTHCSCCCTTTGGGCS---SSHHHHHHHHHHCTSTC
T ss_pred             HHHHHHcccH----------HHHHHHHHHHccHHHHHHHHHhcC---cHHHHHHHHHHHHhcCc
Confidence            7777654321          112223445566666665555554   67899999999877654

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.

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

Probab=95.65  E-value=0.048  Score=35.96  Aligned_cols=79  Identities=13%  Similarity=0.135  Sum_probs=56.9

Q ss_pred             cCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHhhhhhhHHHHHHHHhc-CCCCc-HhhHHHHHHHhcccCcHHHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIF-LDSPDIIELLNVCMDLKLLEAGKRFEND-GVRPN-WSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~-p~~~t~~~ll~~~~~~~~~~~~~~~~~~-~~~p~-~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      .|+++.|+.+|+++.+..-. |+...+-.+-.+|.+.|.++.|..+.+. ...|+ ....-.+-.+|.+.|+.++|.++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            58899999999999876542 3455566688889999999999887544 23332 233445577888999999999998


Q ss_pred             HH
Q 043265           89 ES   90 (245)
Q Consensus        89 ~~   90 (245)
                      ++
T Consensus        82 ~~   83 (84)
T PF12895_consen   82 EK   83 (84)
T ss_dssp             HH
T ss_pred             hc
Confidence            74

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.65  E-value=0.1  Score=43.96  Aligned_cols=22  Identities=14%  Similarity=0.243  Sum_probs=17.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Q 043265            5 ELKHLCREREVKAALEVMDKLK   26 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~   26 (245)
                      ++-.|.+.+++++|..+..++.
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~  312 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLD  312 (557)
T ss_pred             heeeecccccHHHHHHHHhhcC
Confidence            3456788899999998887763

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

Probab=95.61  E-value=0.28  Score=39.74  Aligned_cols=49  Identities=18%  Similarity=0.205  Sum_probs=33.2

Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           77 CFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+.+.+|.-+|++|-+  ...|+.-+.+-+..+....|++++|+.+++..
T Consensus       185 ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~ea  233 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEA  233 (299)
T ss_pred             cchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHH
Confidence            34457777777777743  36666667777777777777777777777655

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=95.61  E-value=0.095  Score=36.43  Aligned_cols=61  Identities=15%  Similarity=0.172  Sum_probs=33.8

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .+..+-.++.+.|+++.|...|+.......-.| ....+..+-.+|.+.|+.++|...++..
T Consensus        41 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  102 (119)
T TIGR02795        41 AHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQV  102 (119)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            444566666666666666666666544211111 1234455556666666666666666655

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.

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

Probab=95.58  E-value=0.16  Score=41.52  Aligned_cols=40  Identities=15%  Similarity=0.219  Sum_probs=30.5

Q ss_pred             HHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCH-HHHHHHH
Q 043265           84 GFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKI-AEAREFI  124 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~-~~a~~~~  124 (245)
                      +.+++++|+. .|+.||-.+--.||++|++-|.. .+..++.
T Consensus       142 ~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~  182 (406)
T KOG3941|consen  142 AIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPTKKVKRML  182 (406)
T ss_pred             HHHHHHHHHH-cCCCCchHHHHHHHHHhccccccHHHHHHHH
Confidence            6788888866 79999998888999999888763 3444433

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=95.55  E-value=0.62  Score=41.90  Aligned_cols=87  Identities=15%  Similarity=0.233  Sum_probs=65.5

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CC-CcHHHHHHHHHHH
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-ID-ASSVVWETLEKYA  143 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~-~~~~~~~~li~~~  143 (245)
                      ++.-+-..|-+.|+.++|+++.++..+   ..|+ +..|..--..|-..|++++|.+..+.-+ +. .|-.+=+--..++
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHH
Confidence            345556778889999999999987765   3566 5677888889999999999999887765 22 3445545555888


Q ss_pred             HhCCCCccccccc
Q 043265          144 QTEPGLLLGEPSS  156 (245)
Q Consensus       144 ~~~g~~~~~~~~~  156 (245)
                      .+.|+++.|....
T Consensus       273 LRa~~~e~A~~~~  285 (517)
T PF12569_consen  273 LRAGRIEEAEKTA  285 (517)
T ss_pred             HHCCCHHHHHHHH
Confidence            8889988887755

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 [], [].

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

Probab=95.51  E-value=0.22  Score=43.57  Aligned_cols=140  Identities=14%  Similarity=0.250  Sum_probs=82.1

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCC--Cc-HhhHHHHHHHhcccCcHHHHHHHHH
Q 043265           13 REVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVR--PN-WSTFVGVITACGCFGAVDEGFQHFE   89 (245)
Q Consensus        13 g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~--p~-~~t~~~ll~~~~~~g~~~~a~~~~~   89 (245)
                      +++..|..+|+....-. ..+...|--.+..=.++..+..|+.+..+.+.  |- -.-|---+..=-..|++..|.++|+
T Consensus        87 ~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqife  165 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFE  165 (677)
T ss_pred             HHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            45677888888876644 34556666666666666666666665443321  21 1122222233334566666777766


Q ss_pred             HhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           90 SVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        90 ~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      .-   ..++|+...|.+.|+.=.+-..++.|..++++.. ++|++.+|---...=-++|++..+..+.
T Consensus       166 rW---~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  166 RW---MEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             HH---HcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            44   3466777777777776666666666777776664 4666666655555555666655555444

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=95.45  E-value=0.079  Score=48.66  Aligned_cols=107  Identities=10%  Similarity=0.166  Sum_probs=81.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCC--cHhhHHHHHHHhcccC
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRP--NWSTFVGVITACGCFG   79 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p--~~~t~~~ll~~~~~~g   79 (245)
                      |.-+-..|+..|+++.|+++|.+-         -.++--|..|++.|.|+.+-++......|  ....|.+-..-.-..|
T Consensus       768 y~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehg  838 (1636)
T KOG3616|consen  768 YGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHG  838 (1636)
T ss_pred             chHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhc
Confidence            344567899999999999999874         23677789999999999998876554444  4566777677778889


Q ss_pred             cHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           80 AVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .+.+|++++-.+.     +|+     -.|.+|-++|..++..++.++-
T Consensus       839 kf~eaeqlyiti~-----~p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  839 KFAEAEQLYITIG-----EPD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             chhhhhheeEEcc-----Cch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            9999998885442     355     3578888999888888887755

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

Probab=95.26  E-value=0.4  Score=47.10  Aligned_cols=150  Identities=11%  Similarity=0.059  Sum_probs=100.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc-CCCCC---HHHHHHHHHHhhhhhhHHHHHHHHhcCCCC-c-HhhHHHHHHHhccc
Q 043265            5 ELKHLCREREVKAALEVMDKLKNI-GIFLD---SPDIIELLNVCMDLKLLEAGKRFENDGVRP-N-WSTFVGVITACGCF   78 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~-g~~p~---~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p-~-~~t~~~ll~~~~~~   78 (245)
                      -|....+.++.++|.+++++.... +++-.   ...|.++++.--..|.-+...++.++-++- | ...|..|...|.+.
T Consensus      1464 YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~iy~k~ 1543 (1710)
T KOG1070|consen 1464 YMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLGIYEKS 1543 (1710)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            355666778999999999997643 33211   244666665554445444444443333322 2 46789999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc-CCCC---cHHHHHHHHHHHHhCCCCccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM-QIDA---SSVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m-~~~~---~~~~~~~li~~~~~~g~~~~~~~  154 (245)
                      +..++|-++++.|.++++  -....|....+.+.+...-+.|..++.+- ..-|   .+....-....-.++|+.++|+.
T Consensus      1544 ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRt 1621 (1710)
T KOG1070|consen 1544 EKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRT 1621 (1710)
T ss_pred             hcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHH
Confidence            999999999999988766  45668899999999999888898888654 2222   23333334444456788788777


Q ss_pred             cc
Q 043265          155 SS  156 (245)
Q Consensus       155 ~~  156 (245)
                      ++
T Consensus      1622 lf 1623 (1710)
T KOG1070|consen 1622 LF 1623 (1710)
T ss_pred             HH
Confidence            66

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

Probab=94.94  E-value=0.3  Score=40.00  Aligned_cols=81  Identities=17%  Similarity=0.119  Sum_probs=63.3

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh--------------------hhHHHHHHHHhcCCCCcHhhHHHHH
Q 043265           13 REVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL--------------------KLLEAGKRFENDGVRPNWSTFVGVI   72 (245)
Q Consensus        13 g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~--------------------~~~~~~~~~~~~~~~p~~~t~~~ll   72 (245)
                      +.++=...-+..|++.|++-|..+|+.||+.+-+.                    ..++..++|...|+.||..+-..||
T Consensus        86 ~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lv  165 (406)
T KOG3941|consen   86 THVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILV  165 (406)
T ss_pred             chHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHH
Confidence            45555556677899999999999999999988664                    2556667889999999999999999


Q ss_pred             HHhcccCc-HHHHHHHHHHhhh
Q 043265           73 TACGCFGA-VDEGFQHFESVTR   93 (245)
Q Consensus        73 ~~~~~~g~-~~~a~~~~~~m~~   93 (245)
                      .++++.+- ..+..++.-.|.+
T Consensus       166 n~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  166 NAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHhccccccHHHHHHHHHhhhh
Confidence            99999886 4445555555655

>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=94.83  E-value=0.24  Score=30.84  Aligned_cols=50  Identities=8%  Similarity=0.090  Sum_probs=32.1

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC
Q 043265           10 CREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG   60 (245)
Q Consensus        10 ~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~   60 (245)
                      .+.|++++|+++|.++....-. +...+-.+..+|.+.|.++.|.++.+.-
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4677888888888887665321 4555556666677777777776665543

...

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

Probab=94.73  E-value=0.78  Score=38.79  Aligned_cols=115  Identities=12%  Similarity=0.021  Sum_probs=76.7

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIFLDS-PDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQH   87 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~   87 (245)
                      .+..+.+.+.+..  .....|+. .....+-..+...|.++.+.+..+..  ..| +...+..+-..+...|++++|...
T Consensus        93 ~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~  170 (355)
T cd05804          93 SGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAF  170 (355)
T ss_pred             ccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHH
Confidence            3445555555544  22223443 33444455667778888887764442  234 456678888889999999999999


Q ss_pred             HHHhhhhcCCCcch--HHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           88 FESVTRDYDINPTL--EHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        88 ~~~m~~~~~~~p~~--~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      ++.........|+.  ..|-.+...+...|+.++|..+++...
T Consensus       171 l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         171 MESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            99876532222343  345578899999999999999999863

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.

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

Probab=94.73  E-value=0.3  Score=40.66  Aligned_cols=150  Identities=9%  Similarity=0.116  Sum_probs=95.2

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHH---HHHHHhhhhhhHHHHHHHHhcCC-CCcHh------hHHHHHHHhcccCcH
Q 043265           12 EREVKAALEVMDKLKNIGIFLDSPDII---ELLNVCMDLKLLEAGKRFENDGV-RPNWS------TFVGVITACGCFGAV   81 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~~~t~~---~ll~~~~~~~~~~~~~~~~~~~~-~p~~~------t~~~ll~~~~~~g~~   81 (245)
                      ++..++|.++|-+|.+.    |+.||-   +|=+.|-+-|-+|.|.++...=+ .||..      .---|-.-|-..|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~----d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE----DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhc----CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhh
Confidence            46789999999999874    333333   34455666789999988754432 33321      123345667789999


Q ss_pred             HHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHH-HHHHh-------CCCCcccc
Q 043265           82 DEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLE-KYAQT-------EPGLLLGE  153 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li-~~~~~-------~g~~~~~~  153 (245)
                      |.|+++|..+..+..+.+.  ..-.|+..|-....|++|.++-.+.. +.+.-+|+.-| ..||.       ..+++.|.
T Consensus       124 DRAE~~f~~L~de~efa~~--AlqqLl~IYQ~treW~KAId~A~~L~-k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~  200 (389)
T COG2956         124 DRAEDIFNQLVDEGEFAEG--ALQQLLNIYQATREWEKAIDVAERLV-KLGGQTYRVEIAQFYCELAQQALASSDVDRAR  200 (389)
T ss_pred             hHHHHHHHHHhcchhhhHH--HHHHHHHHHHHhhHHHHHHHHHHHHH-HcCCccchhHHHHHHHHHHHHHhhhhhHHHHH
Confidence            9999999988764334443  45679999999999999999888765 32333444444 33333       34555544


Q ss_pred             ccc--ccccccccccCC
Q 043265          154 PSS--SLRLSNKKKDAG  168 (245)
Q Consensus       154 ~~~--~~~~~~~~~~~g  168 (245)
                      ...  +++..|...+.+
T Consensus       201 ~~l~kAlqa~~~cvRAs  217 (389)
T COG2956         201 ELLKKALQADKKCVRAS  217 (389)
T ss_pred             HHHHHHHhhCccceehh
Confidence            444  555544443333

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

Probab=94.72  E-value=0.93  Score=33.19  Aligned_cols=89  Identities=13%  Similarity=0.054  Sum_probs=64.3

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcch--HHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHH-HH
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDINPTL--EHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLE-KY  142 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~--~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li-~~  142 (245)
                      ...-.+-..+...|++++|...|+....+ .-.|+.  ...--|...+...|++++|...++...-.+-...+..+. ..
T Consensus        49 ~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi  127 (145)
T PF09976_consen   49 LAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDI  127 (145)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHH
Confidence            33444557888899999999999999874 322322  234457889999999999999998875333344455555 88


Q ss_pred             HHhCCCCcccccc
Q 043265          143 AQTEPGLLLGEPS  155 (245)
Q Consensus       143 ~~~~g~~~~~~~~  155 (245)
                      +...|+.+.|...
T Consensus       128 ~~~~g~~~~A~~~  140 (145)
T PF09976_consen  128 YLAQGDYDEARAA  140 (145)
T ss_pred             HHHCCCHHHHHHH
Confidence            8889998887654

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

Probab=94.71  E-value=0.89  Score=44.89  Aligned_cols=150  Identities=6%  Similarity=-0.013  Sum_probs=105.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc---CCCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND---GVRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~---~~~p~~~t~~~ll~~~~~~   78 (245)
                      |-++++.-.--|.-+...++|++..+.-  -....|..|..-|.+.+..++|.++.+.   .+.-....|...+..+.+.
T Consensus      1500 WiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ 1577 (1710)
T KOG1070|consen 1500 WIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQ 1577 (1710)
T ss_pred             HHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcc
Confidence            5667777777777778888888876642  1245677888888888777776554222   3335567788888888888


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcc---hHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCcccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPT---LEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGE  153 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~  153 (245)
                      .+-+.|..++.+..+   +.|.   +....-....-.++|+.+.++.+|+..-  .+...-.|+..|..-.++|+.+.++
T Consensus      1578 ne~~aa~~lL~rAL~---~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR 1654 (1710)
T KOG1070|consen 1578 NEAEAARELLKRALK---SLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVR 1654 (1710)
T ss_pred             cHHHHHHHHHHHHHh---hcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHH
Confidence            888888888876643   4554   3334555667778888888888888774  2334568888888888888887766


Q ss_pred             ccc
Q 043265          154 PSS  156 (245)
Q Consensus       154 ~~~  156 (245)
                      .++
T Consensus      1655 ~lf 1657 (1710)
T KOG1070|consen 1655 DLF 1657 (1710)
T ss_pred             HHH
Confidence            655

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=94.67  E-value=2  Score=38.75  Aligned_cols=69  Identities=9%  Similarity=0.053  Sum_probs=40.3

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc-CCCCcHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM-QIDASSVV  135 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m-~~~~~~~~  135 (245)
                      +...|.++--.....|++++|...+++...   ..|+...|..+-..|...|+.++|...+++- .+.|...|
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~---L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAID---LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            345555554444455677777777766644   3356666666667777777777776666543 23444333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=94.60  E-value=0.96  Score=34.16  Aligned_cols=110  Identities=8%  Similarity=0.045  Sum_probs=70.0

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcCC--CCc----HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDGV--RPN----WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGI  107 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~l  107 (245)
                      ..+..+-..+...|.++.|....+..+  .|+    ...+..+-..+.+.|+.++|...+.+...   ..| +...+..+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l  112 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE---LNPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcccHHHHHHH
Confidence            445666666666677777655433322  122    35677777888888888888888887754   334 34556666


Q ss_pred             HHHHhccCC--------------HHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC
Q 043265          108 VDLYGRLQK--------------IAEAREFIRNMQIDASSVVWETLEKYAQTEPG  148 (245)
Q Consensus       108 i~~y~~~g~--------------~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~  148 (245)
                      -.+|...|+              +++|.+++++.. ..++.-|..++..+...|.
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~-~~~p~~~~~~~~~~~~~~~  166 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAI-RLAPNNYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHH-hhCchhHHHHHHHHHhcCc
Confidence            777777776              578899988775 3333335566666665554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=94.55  E-value=2.2  Score=39.91  Aligned_cols=117  Identities=17%  Similarity=0.185  Sum_probs=90.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc-HhhHHHHHHHhcccCcH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDLKLLEAGKRFEND--GVRPN-WSTFVGVITACGCFGAV   81 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~-~~t~~~ll~~~~~~g~~   81 (245)
                      -....+.|.+++|+.+++...+.  .|| ......+...+.+.+.+++|....++  -..|+ ......+-.++.+.|+.
T Consensus        93 a~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~~~g~~  170 (694)
T PRK15179         93 ARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWDEIGQS  170 (694)
T ss_pred             HHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHhcch
Confidence            34556789999999999998764  565 56677778888888888888665433  34454 55667777888899999


Q ss_pred             HHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           82 DEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ++|..+|++....   .|+ ..++..+-.++-+.|+.++|...|+.-
T Consensus       171 ~~A~~~y~~~~~~---~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a  214 (694)
T PRK15179        171 EQADACFERLSRQ---HPEFENGYVGWAQSLTRRGALWRARDVLQAG  214 (694)
T ss_pred             HHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998752   233 567888888899999999999988766

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

Probab=94.45  E-value=0.28  Score=38.25  Aligned_cols=123  Identities=10%  Similarity=-0.009  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHH-hcccCc--HHHHHHHHH
Q 043265           16 KAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITA-CGCFGA--VDEGFQHFE   89 (245)
Q Consensus        16 ~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~-~~~~g~--~~~a~~~~~   89 (245)
                      +++...+....+.+ ..|...|..+-..|...|.++.|....+.  ...| |...+..+-.+ +...|+  .++|.++++
T Consensus        56 ~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~  134 (198)
T PRK10370         56 EAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMID  134 (198)
T ss_pred             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHH
Confidence            44444444443332 34678888888889899999988776444  3445 56667777666 467776  599999999


Q ss_pred             HhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHH
Q 043265           90 SVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYA  143 (245)
Q Consensus        90 ~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~  143 (245)
                      +..+   ..| +...+..+-..+.+.|++++|...|+++-  ..|+..- ..+|..-
T Consensus       135 ~al~---~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~~~r-~~~i~~i  187 (198)
T PRK10370        135 KALA---LDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPRVNR-TQLVESI  187 (198)
T ss_pred             HHHH---hCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCccH-HHHHHHH
Confidence            8865   344 56788889999999999999999999984  3555544 3444543

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

Probab=94.39  E-value=0.12  Score=48.05  Aligned_cols=102  Identities=16%  Similarity=0.178  Sum_probs=69.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH-------------HhcCCCCc-HhhHHHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF-------------ENDGVRPN-WSTFVGVIT   73 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~-------------~~~~~~p~-~~t~~~ll~   73 (245)
                      .|+.-|+.+.|.+-++.+++.      ..|..+.+.|.+...++.|+-.             .+..-.|+ ...=.++| 
T Consensus       737 fyvtiG~MD~AfksI~~IkS~------~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvL-  809 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIKSD------SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVL-  809 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHhhh------HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHH-
Confidence            355678999998888888765      6799999999988666655432             22222332 22222333 


Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                       -...|.+++|+.++.+-++          |-.|=..|-..|++++|.++-+.-
T Consensus       810 -AieLgMlEeA~~lYr~ckR----------~DLlNKlyQs~g~w~eA~eiAE~~  852 (1416)
T KOG3617|consen  810 -AIELGMLEEALILYRQCKR----------YDLLNKLYQSQGMWSEAFEIAETK  852 (1416)
T ss_pred             -HHHHhhHHHHHHHHHHHHH----------HHHHHHHHHhcccHHHHHHHHhhc
Confidence             3467899999999987755          345566777788899888877543

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

Probab=94.28  E-value=0.61  Score=37.84  Aligned_cols=131  Identities=8%  Similarity=-0.030  Sum_probs=89.3

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc
Q 043265           20 EVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP   99 (245)
Q Consensus        20 ~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p   99 (245)
                      ++.+.+.......+...-..-...|.+.|++++|.+....+-.....  ..=+....+...++.|++-++.|..   +. 
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~--Al~VqI~lk~~r~d~A~~~lk~mq~---id-  167 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAA--ALNVQILLKMHRFDLAEKELKKMQQ---ID-  167 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHH--HHHHHHHHHHHHHHHHHHHHHHHHc---cc-
Confidence            34444544444444333333334577889999998877764433333  3334446688899999999999965   22 


Q ss_pred             chHHHHHH----HHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265          100 TLEHFLGI----VDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       100 ~~~~~~~l----i~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +-.|.+.|    |....-.+.+.+|.-+|++|.  ..|...+-|-+..++-..|+++.|+.+.
T Consensus       168 ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL  230 (299)
T KOG3081|consen  168 EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLL  230 (299)
T ss_pred             hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHH
Confidence            33455544    444455667899999999996  5788888888888888999999988766

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=94.23  E-value=1.2  Score=41.75  Aligned_cols=125  Identities=6%  Similarity=-0.025  Sum_probs=97.4

Q ss_pred             CCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc-HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcch-HHH
Q 043265           29 GIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN-WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTL-EHF  104 (245)
Q Consensus        29 g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~  104 (245)
                      ....++..+-.|-..-.+.|..+++....+.  .+.|| ......+...+.+.+.+++|....++...   ..|+. ..+
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~  157 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREI  157 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHH
Confidence            3444567777777777788999999887554  56675 66778889999999999999999998854   45654 556


Q ss_pred             HHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCccccccc
Q 043265          105 LGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       105 ~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ..+-.++.+.|+.++|..+|++.- ..|| ...|.+.=.++...|+.+.|...+
T Consensus       158 ~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~  211 (694)
T PRK15179        158 LLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVL  211 (694)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            788889999999999999999885 3444 567777777788888888877666

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

Probab=94.22  E-value=0.72  Score=40.30  Aligned_cols=142  Identities=10%  Similarity=0.084  Sum_probs=81.0

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CCcHhhH-HHHHHHhcc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIG-IFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RPNWSTF-VGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p~~~t~-~~ll~~~~~   77 (245)
                      |...|++-.+..-++.|..+|-+..+.| +.+++..++++|.-++. |+...|-.+.+.|.  .||...| .--+.-+.+
T Consensus       400 ~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~  478 (660)
T COG5107         400 FCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLKFPDSTLYKEKYLLFLIR  478 (660)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhCCCchHHHHHHHHHHHH
Confidence            4455666666666777777777777777 45777777777776655 34444444444443  3555444 334455556


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCcc--hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhC
Q 043265           78 FGAVDEGFQHFESVTRDYDINPT--LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTE  146 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~  146 (245)
                      .++=+.|..+|+.-.++  ++-+  ...|-.||+-=++-|++..+..+=+.|. .-|-..+-..+.+-|...
T Consensus       479 inde~naraLFetsv~r--~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry~ik  548 (660)
T COG5107         479 INDEENARALFETSVER--LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRYAIK  548 (660)
T ss_pred             hCcHHHHHHHHHHhHHH--HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHHhhh
Confidence            67777777777643321  2223  4557777777777777776666555554 223333334444444443

>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=94.17  E-value=0.18  Score=32.48  Aligned_cols=63  Identities=17%  Similarity=0.249  Sum_probs=48.1

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhh---cCC-Ccc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRD---YDI-NPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~-~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+|+.+-..|...|++++|...|++...-   .|- .|+ ..++..|-.+|.+.|+.++|.+.+++.
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            456888888999999999999999877531   221 233 677888999999999999999988753

...

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

Probab=94.01  E-value=0.72  Score=39.47  Aligned_cols=86  Identities=10%  Similarity=0.084  Sum_probs=61.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ..+...|++++|+++|.+..+.+- -+...|..+-.+|.+.|.++.|.......  +.| +...|..+-.+|...|++++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~e   88 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQT   88 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHH
Confidence            456678899999999999887542 24566777777777777777776653332  333 45667777778888888888


Q ss_pred             HHHHHHHhhh
Q 043265           84 GFQHFESVTR   93 (245)
Q Consensus        84 a~~~~~~m~~   93 (245)
                      |...|+...+
T Consensus        89 A~~~~~~al~   98 (356)
T PLN03088         89 AKAALEKGAS   98 (356)
T ss_pred             HHHHHHHHHH
Confidence            8888877654

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=93.96  E-value=1.2  Score=33.51  Aligned_cols=107  Identities=4%  Similarity=-0.073  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHH-hcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCc----HhhHHHHHHHhcccCcHHHHHHHH
Q 043265           16 KAALEVMDKLK-NIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPN----WSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus        16 ~~A~~lf~~m~-~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~----~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      ..+...+..+. ..+..--...|..+...+...|.++.|.......  +.|+    ..++..+-..+.+.|+.++|.+.+
T Consensus        16 ~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~   95 (168)
T CHL00033         16 TIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYY   95 (168)
T ss_pred             ccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            33444444442 2222222455566666666667777765543322  2222    346777878888889999999988


Q ss_pred             HHhhhhcCCCcc-hHHHHHHHHHHh-------ccCCHHHHHHHHH
Q 043265           89 ESVTRDYDINPT-LEHFLGIVDLYG-------RLQKIAEAREFIR  125 (245)
Q Consensus        89 ~~m~~~~~~~p~-~~~~~~li~~y~-------~~g~~~~a~~~~~  125 (245)
                      +....   +.|+ ..++..+...|.       +.|++++|...++
T Consensus        96 ~~Al~---~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033         96 FQALE---RNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHH---hCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHH
Confidence            87754   2332 455666666676       7788775555443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.85  E-value=1.1  Score=37.08  Aligned_cols=143  Identities=10%  Similarity=-0.000  Sum_probs=90.1

Q ss_pred             HHcCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHhhhh---hhHHHHHHHHhcCCC-------------CcH-------
Q 043265           10 CREREVKAALEVMDKLKN-IGIFLDSPDIIELLNVCMDL---KLLEAGKRFENDGVR-------------PNW-------   65 (245)
Q Consensus        10 ~~~g~~~~A~~lf~~m~~-~g~~p~~~t~~~ll~~~~~~---~~~~~~~~~~~~~~~-------------p~~-------   65 (245)
                      -|.|.++.|.+-|+...+ .|..| ...||.-+..|.+.   .+++...++.++|++             ||.       
T Consensus       155 ykegqyEaAvqkFqaAlqvsGyqp-llAYniALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~  233 (459)
T KOG4340|consen  155 YKEGQYEAAVQKFQAALQVSGYQP-LLAYNLALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTL  233 (459)
T ss_pred             eccccHHHHHHHHHHHHhhcCCCc-hhHHHHHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchH
Confidence            477999999999999875 45554 46899999888664   244444445444443             221       


Q ss_pred             -hhHHHHHHH-------hcccCcHHHHHHHHHHhhhhcCCCcchHHHHHH--HHHHhccCCHHHHHHHHHhcCCCCcHHH
Q 043265           66 -STFVGVITA-------CGCFGAVDEGFQHFESVTRDYDINPTLEHFLGI--VDLYGRLQKIAEAREFIRNMQIDASSVV  135 (245)
Q Consensus        66 -~t~~~ll~~-------~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l--i~~y~~~g~~~~a~~~~~~m~~~~~~~~  135 (245)
                       ..-++++.+       +-+.|+.+.|.+-+-.|+.+..-..|.+|...+  .++=++-+.--.-+.++-... +--..|
T Consensus       234 ~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~~~p~~g~~KLqFLL~~n-PfP~ET  312 (459)
T KOG4340|consen  234 VLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMDARPTEGFEKLQFLLQQN-PFPPET  312 (459)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcccCCccccHHHHHHHHhcC-CCChHH
Confidence             122444444       467899999999999998766667788876644  444443333333333333432 223468


Q ss_pred             HHHHHHHHHhCCCCccccc
Q 043265          136 WETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus       136 ~~~li~~~~~~g~~~~~~~  154 (245)
                      |..++-.||++...+.|..
T Consensus       313 FANlLllyCKNeyf~lAAD  331 (459)
T KOG4340|consen  313 FANLLLLYCKNEYFDLAAD  331 (459)
T ss_pred             HHHHHHHHhhhHHHhHHHH
Confidence            8888888888776666544

>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=93.79  E-value=0.37  Score=35.29  Aligned_cols=58  Identities=14%  Similarity=0.147  Sum_probs=43.0

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ....++..+...|+.+.|.++......   +.| |...|-.+|.+|.+.|+..+|.++|+.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~---~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALA---LDPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH---HSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            445566677788899999998888765   334 5678888999999999999998888765

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

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

Probab=93.72  E-value=1.1  Score=37.54  Aligned_cols=142  Identities=13%  Similarity=0.098  Sum_probs=77.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHH----HHHHhcCCCCcH----hhHHHHHHHhccc
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAG----KRFENDGVRPNW----STFVGVITACGCF   78 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~----~~~~~~~~~p~~----~t~~~ll~~~~~~   78 (245)
                      .-|...|-++.|+.+|..+.+.|.. -.....-|+.-|-+...|+.|    +++.+.+-++..    +.|.=+-..+...
T Consensus       115 ~Dym~aGl~DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~  193 (389)
T COG2956         115 RDYMAAGLLDRAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALAS  193 (389)
T ss_pred             HHHHHhhhhhHHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhh
Confidence            4577788888888888888775542 234566777777766555444    334333322221    2233444444445


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcch-HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc--HHHHHHHHHHHHhCCCCccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTL-EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS--SVVWETLEKYAQTEPGLLLG  152 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~--~~~~~~li~~~~~~g~~~~~  152 (245)
                      .+++.|..++....+   ..|+. ..-..+=+.+...|+.+.|.+.++... -.|+  ..+-..|..+|...|+.+.+
T Consensus       194 ~~~d~A~~~l~kAlq---a~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~  268 (389)
T COG2956         194 SDVDRARELLKKALQ---ADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEG  268 (389)
T ss_pred             hhHHHHHHHHHHHHh---hCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHH
Confidence            566666666665433   22322 222234456666666666666666664 1233  23445555666666665543

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

Probab=93.69  E-value=1.6  Score=38.93  Aligned_cols=138  Identities=18%  Similarity=0.229  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHHhc-CCCCCHHHHHHHHHHhhhhhhHHHHHHH----HhcCCCC-cHhhHHHHHHHhcccCcHHHHHHHH
Q 043265           15 VKAALEVMDKLKNI-GIFLDSPDIIELLNVCMDLKLLEAGKRF----ENDGVRP-NWSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus        15 ~~~A~~lf~~m~~~-g~~p~~~t~~~ll~~~~~~~~~~~~~~~----~~~~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      .+...+.+++++.. .+.|+ .+|..+|+.--+...++.|+.+    .+.+..+ ++..++++|.-||. ++-+-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHH
Confidence            44555556665533 33344 3567777777666666665543    4445555 67777777777664 4555677777


Q ss_pred             HHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCc--HHHHHHHHHHHHhCCCCccccccc
Q 043265           89 ESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDAS--SVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        89 ~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~--~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +.=.+.+|-.|  .--...++-+...++-..++.+|++..   +.||  ..+|..||..=...|++..+..+.
T Consensus       425 eLGLkkf~d~p--~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~le  495 (656)
T KOG1914|consen  425 ELGLKKFGDSP--EYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLE  495 (656)
T ss_pred             HHHHHhcCCCh--HHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHH
Confidence            64333233222  223466777777777777777777663   1222  467888887777777777665555

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=93.65  E-value=1.8  Score=30.79  Aligned_cols=52  Identities=10%  Similarity=0.065  Sum_probs=32.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHhhhhhhHHHHHHHHhc
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLD--SPDIIELLNVCMDLKLLEAGKRFEND   59 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~--~~t~~~ll~~~~~~~~~~~~~~~~~~   59 (245)
                      ++-..|+.++|+.+|.+....|...+  ...+-.+-.++...|.++++..+.+.
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~   63 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEE   63 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45567888888888888888877543  22333444445555666666555433

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

Probab=93.62  E-value=1.3  Score=38.75  Aligned_cols=152  Identities=11%  Similarity=0.068  Sum_probs=111.9

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGC   77 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~   77 (245)
                      |+..+=+.|.-.+.-++|...|++..+-+-. ....|+.+=.-|....+...|.+--+.-   .+.|-..|=.|=.+|.-
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~DyRAWYGLGQaYei  410 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPRDYRAWYGLGQAYEI  410 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCchhHHHHhhhhHHHHH
Confidence            3445556778888999999999998875532 3455666655566665555544433332   34466777778888999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcCC--CCcHHHHHHHHHHHHhCCCCccccc
Q 043265           78 FGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQI--DASSVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~~--~~~~~~~~~li~~~~~~g~~~~~~~  154 (245)
                      .+...-|+-.|++..   .+.| |...|.+|=++|.+.+++++|.+.|.+--.  +.+...+..|-.+|.+-++.+.|..
T Consensus       411 m~Mh~YaLyYfqkA~---~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~  487 (559)
T KOG1155|consen  411 MKMHFYALYYFQKAL---ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQ  487 (559)
T ss_pred             hcchHHHHHHHHHHH---hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHH
Confidence            999999999998764   4666 789999999999999999999999987742  3444778888888888888777665


Q ss_pred             cc
Q 043265          155 SS  156 (245)
Q Consensus       155 ~~  156 (245)
                      ..
T Consensus       488 ~y  489 (559)
T KOG1155|consen  488 YY  489 (559)
T ss_pred             HH
Confidence            44

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

Probab=93.56  E-value=0.22  Score=30.80  Aligned_cols=58  Identities=19%  Similarity=0.241  Sum_probs=45.2

Q ss_pred             HHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc
Q 043265           72 ITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS  132 (245)
Q Consensus        72 l~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~  132 (245)
                      -..+.+.|++++|.+.|++..+.   .| +...+..+-.++.+.|++++|...|+... ..|+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQ---DPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCC---STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            34577889999999999999763   25 56778888999999999999999998773 3444

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

Probab=93.51  E-value=0.67  Score=42.59  Aligned_cols=53  Identities=15%  Similarity=-0.063  Sum_probs=40.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      |.-.|.+|+..|.-++|..+..+..+  -.||+..|..+-+..-....++.+.++
T Consensus       427 w~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawEl  479 (777)
T KOG1128|consen  427 WDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWEL  479 (777)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHH
Confidence            45678899999999999888887766  468888999888877666555555443

>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=93.36  E-value=0.53  Score=34.43  Aligned_cols=70  Identities=14%  Similarity=0.182  Sum_probs=44.4

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcCC---CCcHhhHHHHHHHhcccCcHHHHHHHHHHhh----hhcCCCcchHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDGV---RPNWSTFVGVITACGCFGAVDEGFQHFESVT----RDYDINPTLEHF  104 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~~---~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~----~~~~~~p~~~~~  104 (245)
                      .....++..+...|.++.+.+.....+   +.|...|-.+|.+|...|+...|.++|+.+.    ++.|+.|+..+-
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            355666666677787887776644432   3367788888889999998888888887663    347888887654

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=93.15  E-value=2.9  Score=31.54  Aligned_cols=83  Identities=8%  Similarity=0.097  Sum_probs=50.2

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-c-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHH
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-T-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLE  140 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li  140 (245)
                      ...|..+-..+...|++++|...|++.... .-.+ + ...+..+-.+|.+.|+.++|...+.+.- ..|+ ...+..+-
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKL-EEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence            344666666677778888888888776541 2111 1 3466777778888888888888776553 3443 33343333


Q ss_pred             HHHHhCCC
Q 043265          141 KYAQTEPG  148 (245)
Q Consensus       141 ~~~~~~g~  148 (245)
                      ..+...|+
T Consensus       114 ~~~~~~g~  121 (172)
T PRK02603        114 VIYHKRGE  121 (172)
T ss_pred             HHHHHcCC
Confidence            45555444

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

Probab=93.04  E-value=3.2  Score=37.98  Aligned_cols=44  Identities=11%  Similarity=0.115  Sum_probs=36.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL   47 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~   47 (245)
                      |++|-+.|.+.|.+++|..+|.+-...-  ..+--|+.+.++|++-
T Consensus       251 w~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~F  294 (835)
T KOG2047|consen  251 WCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQF  294 (835)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHH
Confidence            7899999999999999999999976652  3556678888888764

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

Probab=92.95  E-value=1.8  Score=39.01  Aligned_cols=115  Identities=15%  Similarity=0.134  Sum_probs=83.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHH--HHHHhc--ccCc
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVG--VITACG--CFGA   80 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~--ll~~~~--~~g~   80 (245)
                      =|+-+.+.|++++|.+.-.++...+ +-|...+-+=+-+..+.+.+++|..+.+..-.  ..+++.  +=.+||  +.+.
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHHHccc
Confidence            3567788899999999999998876 44566777777788888999999877554322  122222  356665  4778


Q ss_pred             HHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           81 VDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .|+|...++.....     |..+...=-..+-+.|++++|.++++.+
T Consensus        95 ~Dealk~~~~~~~~-----~~~ll~L~AQvlYrl~~ydealdiY~~L  136 (652)
T KOG2376|consen   95 LDEALKTLKGLDRL-----DDKLLELRAQVLYRLERYDEALDIYQHL  136 (652)
T ss_pred             HHHHHHHHhccccc-----chHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999888744332     3445566667788899999999999877

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

Probab=92.93  E-value=2.7  Score=37.01  Aligned_cols=106  Identities=9%  Similarity=-0.024  Sum_probs=63.1

Q ss_pred             hhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHH
Q 043265           46 DLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAR  121 (245)
Q Consensus        46 ~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~  121 (245)
                      ..|.++.++.....  .-.| |..-.......+.+.++..+|.+.++.+..   ..|+ ....-.+-.+|.+.|+..+|.
T Consensus       318 ~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             HhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcCChHHHH
Confidence            44555555443221  2233 344445555666777777777777776643   3455 344455667777777777777


Q ss_pred             HHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccc
Q 043265          122 EFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus       122 ~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~  154 (245)
                      +++++-.  .+-|+..|..|-.+|...|+...+..
T Consensus       395 ~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~  429 (484)
T COG4783         395 RILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALL  429 (484)
T ss_pred             HHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHH
Confidence            7776654  24456777777777777777665443

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

Probab=92.89  E-value=3.2  Score=37.28  Aligned_cols=133  Identities=14%  Similarity=0.056  Sum_probs=90.0

Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHh-------c-C--CCCcHhhHHHHHHHhcc
Q 043265            9 LCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRFEN-------D-G--VRPNWSTFVGVITACGC   77 (245)
Q Consensus         9 ~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~-------~-~--~~p~~~t~~~ll~~~~~   77 (245)
                      |.+-++++-|.+.|.+...  +-| |+...+-+=-.....+.+..|....+       . +  ...=..+++.|=.+|.+
T Consensus       390 y~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rk  467 (611)
T KOG1173|consen  390 YMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRK  467 (611)
T ss_pred             HHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHH
Confidence            5566788888888877654  444 45555544444444454554433211       1 1  11234567888888999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHh
Q 043265           78 FGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQT  145 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~  145 (245)
                      .+..++|...|+....  -..-|..+|+++--.|...|+++.|.+.|.+-- +.||..+-+.|++-+..
T Consensus       468 l~~~~eAI~~~q~aL~--l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  468 LNKYEEAIDYYQKALL--LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HhhHHHHHHHHHHHHH--cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            9999999999987754  123377888999999999999999999987664 78988888888865543

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

Probab=92.78  E-value=1.1  Score=41.36  Aligned_cols=203  Identities=13%  Similarity=0.058  Sum_probs=112.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCcHhhHHHHHHHhcccCcHH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPNWSTFVGVITACGCFGAVD   82 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~~~t~~~ll~~~~~~g~~~   82 (245)
                      +-..+...|....|..+|+++         ..|..+|..|...|.-..|..+..+.  -+||..-|.++-+.....--++
T Consensus       404 laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yE  474 (777)
T KOG1128|consen  404 LAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYE  474 (777)
T ss_pred             HHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHH
Confidence            345678889999999999987         56888999999999777777764443  4688899999988888888888


Q ss_pred             HHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc-CCCC-cHHHHHHHHHHHHhCCCCccccccc--cc
Q 043265           83 EGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM-QIDA-SSVVWETLEKYAQTEPGLLLGEPSS--SL  158 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m-~~~~-~~~~~~~li~~~~~~g~~~~~~~~~--~~  158 (245)
                      +|.++++..-.+        ..-.+-...-++++++++.+-|+.- .+.| -..+|=..=.+.-+.+++..+...+  ..
T Consensus       475 kawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcv  546 (777)
T KOG1128|consen  475 KAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCV  546 (777)
T ss_pred             HHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHh
Confidence            999888866432        0011111111256677777666532 2222 1233333323333334444433333  22


Q ss_pred             ccccccccCCcccccccccccCchhhhhcccccch-HHHHHHHHhhcCCCCCeEEeecccc----ccCchhhHHHHhhhh
Q 043265          159 RLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRS-ERLAVAYGLISTPPGRTLRIKKNLR----ICGECHNFIKKLSSI  233 (245)
Q Consensus       159 ~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~-~~l~~a~~l~~~~~~~~~~l~~~~~----~~g~~~~a~~~~~~~  233 (245)
                      .         ..|+...-...+..........-++ ..+.+|  +...  .....+|.||.    +.|..++|++..+++
T Consensus       547 t---------L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EA--lKcn--~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  547 T---------LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEA--LKCN--YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             h---------cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHH--hhcC--CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            2         2233333333333222211111111 111222  1111  22234666665    558888888888877


Q ss_pred             cCce
Q 043265          234 ENRE  237 (245)
Q Consensus       234 ~~~~  237 (245)
                      ..-.
T Consensus       614 l~~~  617 (777)
T KOG1128|consen  614 LDLR  617 (777)
T ss_pred             HHhh
Confidence            6533

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.66  E-value=4.8  Score=32.90  Aligned_cols=133  Identities=12%  Similarity=0.029  Sum_probs=73.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHH----HHhcCCCCcHhhHHHHH-----HH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKR----FENDGVRPNWSTFVGVI-----TA   74 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~----~~~~~~~p~~~t~~~ll-----~~   74 (245)
                      +++..+.-.|.+.-....+.+..+++-+-+++....|.+.-.+.|+.+.++.    +.+..-+.|..+++.++     ..
T Consensus       182 ~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i  261 (366)
T KOG2796|consen  182 SMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFL  261 (366)
T ss_pred             HHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhh
Confidence            4445555556666666667776666555566666666666666676666543    23343444444444433     23


Q ss_pred             hcccCcHHHHHHHHHHhhhhcCCCcchHHHH--HHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHH
Q 043265           75 CGCFGAVDEGFQHFESVTRDYDINPTLEHFL--GIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLE  140 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~--~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li  140 (245)
                      |....++..|...|.++...-.  .|+..-|  +|+.+|.  |+..+|.+..+.|. .-|...+-++++
T Consensus       262 ~lg~nn~a~a~r~~~~i~~~D~--~~~~a~NnKALcllYl--g~l~DAiK~~e~~~~~~P~~~l~es~~  326 (366)
T KOG2796|consen  262 HLGQNNFAEAHRFFTEILRMDP--RNAVANNNKALCLLYL--GKLKDALKQLEAMVQQDPRHYLHESVL  326 (366)
T ss_pred             eecccchHHHHHHHhhccccCC--CchhhhchHHHHHHHH--HHHHHHHHHHHHHhccCCccchhhhHH
Confidence            4445566666666666644211  1222222  4555554  67778888777775 345555555444

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

Probab=92.66  E-value=0.83  Score=28.42  Aligned_cols=61  Identities=20%  Similarity=0.190  Sum_probs=47.0

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccC-CHHHHHHHHHhc
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQ-KIAEAREFIRNM  127 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g-~~~~a~~~~~~m  127 (245)
                      +..+|..+=..+...|++++|...|.+..+-   .| +...|..+-.+|.+.| +.++|.+.|+..
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~---~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~a   64 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL---DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKA   64 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH---STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHH
Confidence            4566777778888899999999999887652   34 4567778888888888 688888887653

...

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

Probab=92.51  E-value=2.6  Score=35.54  Aligned_cols=81  Identities=9%  Similarity=0.066  Sum_probs=50.7

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYA  143 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~  143 (245)
                      ...+.+..|.-|...|+...|.++-.    ++++ ||-.-|-..|.+|++.|+|++-+++...   +..++-|-.++.+|
T Consensus       176 ~~~Sl~~Ti~~li~~~~~k~A~kl~k----~Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~  247 (319)
T PF04840_consen  176 VGLSLNDTIRKLIEMGQEKQAEKLKK----EFKV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEAC  247 (319)
T ss_pred             hcCCHHHHHHHHHHCCCHHHHHHHHH----HcCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHH
Confidence            34455556666666777666665543    3444 5666677777777777777777765543   22446677777777


Q ss_pred             HhCCCCccc
Q 043265          144 QTEPGLLLG  152 (245)
Q Consensus       144 ~~~g~~~~~  152 (245)
                      ...|+...|
T Consensus       248 ~~~~~~~eA  256 (319)
T PF04840_consen  248 LKYGNKKEA  256 (319)
T ss_pred             HHCCCHHHH
Confidence            777765553

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

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

Probab=92.48  E-value=1.5  Score=36.22  Aligned_cols=77  Identities=21%  Similarity=0.239  Sum_probs=46.6

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc-CCCCcHHHHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM-QIDASSVVWETLEK  141 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m-~~~~~~~~~~~li~  141 (245)
                      |.+-|..=-.+|++.|..+.|.+-.+.-.   .+-|. ..+|..|=.+|...|++++|.+.|++- .+.|+-.+|-+=|.
T Consensus       114 nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaLeldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  114 NAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKALELDPDNESYKSNLK  190 (304)
T ss_pred             cchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhccCCCcHHHHHHHH
Confidence            45556666666666666666665554332   23332 456667777777777777777776654 36666666666664


Q ss_pred             HH
Q 043265          142 YA  143 (245)
Q Consensus       142 ~~  143 (245)
                      ..
T Consensus       191 ~A  192 (304)
T KOG0553|consen  191 IA  192 (304)
T ss_pred             HH
Confidence            44

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=92.28  E-value=0.87  Score=41.89  Aligned_cols=180  Identities=10%  Similarity=0.044  Sum_probs=93.3

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC------------------CCCcHhhHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG------------------VRPNWSTFVGVIT   73 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~------------------~~p~~~t~~~ll~   73 (245)
                      -|.+++|+++|-+|-++++.         |..+-+.|++-...++.+.|                  ...+...|-...+
T Consensus       747 ~g~feeaek~yld~drrDLA---------ielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~  817 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDLA---------IELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAK  817 (1189)
T ss_pred             hcchhHhhhhhhccchhhhh---------HHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            37888999999888776542         22222233333333322221                  1123444555556


Q ss_pred             HhcccCcHHHHHHH------HHHhhhh-cCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC
Q 043265           74 ACGCFGAVDEGFQH------FESVTRD-YDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTE  146 (245)
Q Consensus        74 ~~~~~g~~~~a~~~------~~~m~~~-~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~  146 (245)
                      .|..+|+.+.-.+.      |++++.= ....-|......|-+++.+.|+.++|..-|-+.. .|..     -+..|...
T Consensus       818 yY~~~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s-~pka-----Av~tCv~L  891 (1189)
T KOG2041|consen  818 YYSYCGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRS-LPKA-----AVHTCVEL  891 (1189)
T ss_pred             HHHhccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhcc-CcHH-----HHHHHHHH
Confidence            66666655443222      2222110 0112255666788999999999999999888877 5543     23445444


Q ss_pred             CCCccccccc-ccccccccccCCcccccccccccCchhhhhcccccchHHHHHHHHhhcCCCCCeEEeeccccccCchhh
Q 043265          147 PGLLLGEPSS-SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGRTLRIKKNLRICGECHN  225 (245)
Q Consensus       147 g~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~~~~l~~~~~~~g~~~~  225 (245)
                      ..+..|..+. -+          -.|...+++.                  ..|..++.+-.  ..--+..++++|..-+
T Consensus       892 nQW~~avelaq~~----------~l~qv~tlia------------------k~aaqll~~~~--~~eaIe~~Rka~~~~d  941 (1189)
T KOG2041|consen  892 NQWGEAVELAQRF----------QLPQVQTLIA------------------KQAAQLLADAN--HMEAIEKDRKAGRHLD  941 (1189)
T ss_pred             HHHHHHHHHHHhc----------cchhHHHHHH------------------HHHHHHHhhcc--hHHHHHHhhhcccchh
Confidence            4444432221 11          1133332211                  11111221111  0113567888888888


Q ss_pred             HHHHhhhhcCc
Q 043265          226 FIKKLSSIENR  236 (245)
Q Consensus       226 a~~~~~~~~~~  236 (245)
                      |.+++++|.+|
T Consensus       942 aarll~qmae~  952 (1189)
T KOG2041|consen  942 AARLLSQMAER  952 (1189)
T ss_pred             HHHHHHHHhHH
Confidence            88888888775

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=92.22  E-value=2.2  Score=31.96  Aligned_cols=62  Identities=16%  Similarity=0.106  Sum_probs=35.3

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc--chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP--TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ...|..+...+...|++++|...|..... ..-.|  ...+|..+-.+|.+.|+.++|...++..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~-l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~A   98 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMR-LEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQA   98 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh-ccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34445555555566777777776665543 11111  1235666666667777777777766554

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

Probab=92.15  E-value=1.3  Score=37.86  Aligned_cols=95  Identities=12%  Similarity=0.114  Sum_probs=69.9

Q ss_pred             hhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHH
Q 043265           46 DLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAR  121 (245)
Q Consensus        46 ~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~  121 (245)
                      ..|.++.|.+.....  ..| +...|..+-.+|.+.|++++|...++....   +.| +...|..+-.+|...|++++|.
T Consensus        14 ~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~---l~P~~~~a~~~lg~~~~~lg~~~eA~   90 (356)
T PLN03088         14 VDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIE---LDPSLAKAYLRKGTACMKLEEYQTAK   90 (356)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHHhCCHHHHH
Confidence            445666665543332  233 567788888899999999999999998865   445 4567888889999999999999


Q ss_pred             HHHHhcC-CCCcHHHHHHHHHHH
Q 043265          122 EFIRNMQ-IDASSVVWETLEKYA  143 (245)
Q Consensus       122 ~~~~~m~-~~~~~~~~~~li~~~  143 (245)
                      ..|+... +.|+.......+..|
T Consensus        91 ~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         91 AALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHH
Confidence            9998764 567665555556554

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

Probab=92.09  E-value=6.6  Score=36.22  Aligned_cols=150  Identities=11%  Similarity=0.032  Sum_probs=61.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc---CCCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND---GVRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~---~~~p~~~t~~~ll~~~~~~   78 (245)
                      |+.--..|.+.+.++-|..+|....+- ..-+...|.-....=-.+|..+....+.+.   .++-...-|--..+-+-..
T Consensus       519 w~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w~a  597 (913)
T KOG0495|consen  519 WLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKWKA  597 (913)
T ss_pred             HhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHhc
Confidence            444445566666666666666655432 112233343333322222333322222111   1222223333333333344


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      |++..|..++.+.-+   ..| +...|-.-+..-+.+..++.|+++|.+-. ..|...+|.--+..-...++++.|.++
T Consensus       598 gdv~~ar~il~~af~---~~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  598 GDVPAARVILDQAFE---ANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             CCcHHHHHHHHHHHH---hCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            455455444444422   122 22344444444455555555555554443 233334443333333334444444433

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

Probab=91.62  E-value=0.95  Score=42.92  Aligned_cols=155  Identities=16%  Similarity=0.082  Sum_probs=99.0

Q ss_pred             HHHHcCCHHHHHHHHHHHHhc-CCCCCHHHHHHHHHHhhhh------------hhHHHHHHHHh---cCCCCcHhhHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNI-GIFLDSPDIIELLNVCMDL------------KLLEAGKRFEN---DGVRPNWSTFVGV   71 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~-g~~p~~~t~~~ll~~~~~~------------~~~~~~~~~~~---~~~~p~~~t~~~l   71 (245)
                      .+.+...+..|.+-|....+. ...+|..+.-+|=+.|.+.            +..+.|.++-.   ..-+-|...=|-+
T Consensus       573 ~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGI  652 (1018)
T KOG2002|consen  573 LHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGI  652 (1018)
T ss_pred             HHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccch
Confidence            444555555666655554332 2235555555554544332            23333444422   1223355555666


Q ss_pred             HHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC----CCCcHHHHHHHHHHHHhCC
Q 043265           72 ITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ----IDASSVVWETLEKYAQTEP  147 (245)
Q Consensus        72 l~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~----~~~~~~~~~~li~~~~~~g  147 (245)
                      =-.++..|++.+|..||.++++. .- -..-+|--+-.+|...|++..|.++|+..-    .+-++.+.+.|-.++-..|
T Consensus       653 giVLA~kg~~~~A~dIFsqVrEa-~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~  730 (1018)
T KOG2002|consen  653 GIVLAEKGRFSEARDIFSQVREA-TS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAG  730 (1018)
T ss_pred             hhhhhhccCchHHHHHHHHHHHH-Hh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhh
Confidence            66778899999999999999874 22 123467889999999999999999998662    2456777778888888888


Q ss_pred             CCccccccc--cccccccc
Q 043265          148 GLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       148 ~~~~~~~~~--~~~~~~~~  164 (245)
                      .+..++...  ++.+.|..
T Consensus       731 ~~~eak~~ll~a~~~~p~~  749 (1018)
T KOG2002|consen  731 KLQEAKEALLKARHLAPSN  749 (1018)
T ss_pred             hHHHHHHHHHHHHHhCCcc
Confidence            888777666  55555544

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=91.58  E-value=3.9  Score=36.88  Aligned_cols=152  Identities=10%  Similarity=0.013  Sum_probs=101.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----C----------CCCCHHHH--HHHHHHhhhhhhHHHHHHHHhcCC--CC
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----G----------IFLDSPDI--IELLNVCMDLKLLEAGKRFENDGV--RP   63 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g----------~~p~~~t~--~~ll~~~~~~~~~~~~~~~~~~~~--~p   63 (245)
                      |+.+-.-|......+-..+++......    |          -.|+...|  .-+-..|-+.|+.+.|.+....++  .|
T Consensus       146 F~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htP  225 (517)
T PF12569_consen  146 FSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTP  225 (517)
T ss_pred             HHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            444445555445555556666665322    1          12444445  444556778899999988877654  45


Q ss_pred             c-HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCc------H---
Q 043265           64 N-WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDAS------S---  133 (245)
Q Consensus        64 ~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~------~---  133 (245)
                      + +.-|..--..+.+.|++++|.+..+..+. .-. -|-+.=+-.+.-+.++|++++|.+++.... .++      .   
T Consensus       226 t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~-LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ft-r~~~~~~~~L~~m  302 (517)
T PF12569_consen  226 TLVELYMTKARILKHAGDLKEAAEAMDEARE-LDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFT-REDVDPLSNLNDM  302 (517)
T ss_pred             CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-CCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhc-CCCCCcccCHHHH
Confidence            4 56788888999999999999999987754 222 366777788999999999999999887775 222      1   


Q ss_pred             -HHHHHH--HHHHHhCCCCccccccc
Q 043265          134 -VVWETL--EKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       134 -~~~~~l--i~~~~~~g~~~~~~~~~  156 (245)
                       ..|=-+  =.+|.+.|+...|..-+
T Consensus       303 Qc~Wf~~e~a~a~~r~~~~~~ALk~~  328 (517)
T PF12569_consen  303 QCMWFETECAEAYLRQGDYGLALKRF  328 (517)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence             122111  26777888887776655

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 [], [].

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

Probab=91.43  E-value=3  Score=36.70  Aligned_cols=79  Identities=15%  Similarity=0.042  Sum_probs=49.4

Q ss_pred             hcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH-HHHHHHHHHHHhCCCCcc
Q 043265           75 CGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS-VVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~-~~~~~li~~~~~~g~~~~  151 (245)
                      +-..|+.++|+..+..+..+   .|| ..-+....+.+.+.++.++|.+.|+++. ..|+. ..+-.+=.++...|+..+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHH
Confidence            34567777777777776543   444 3444566777777777777777777764 45663 333333367777777666


Q ss_pred             ccccc
Q 043265          152 GEPSS  156 (245)
Q Consensus       152 ~~~~~  156 (245)
                      +....
T Consensus       393 ai~~L  397 (484)
T COG4783         393 AIRIL  397 (484)
T ss_pred             HHHHH
Confidence            55544

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

Probab=91.27  E-value=0.93  Score=42.99  Aligned_cols=128  Identities=12%  Similarity=0.076  Sum_probs=92.6

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc---CCCCcHhhHHHHHHHhcccCcHHHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND---GVRPNWSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~---~~~p~~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      .+..++|+++|.+..+..- -|...=|.+=-.++..|.+..|..+...   ...-+..+|..+-.+|...|++..|.++|
T Consensus       625 kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmY  703 (1018)
T KOG2002|consen  625 KKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHH
Confidence            3567899999998877642 2445556666666677767766554322   22345678889999999999999999999


Q ss_pred             HHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc-CCCCc--HHHHHHHH
Q 043265           89 ESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM-QIDAS--SVVWETLE  140 (245)
Q Consensus        89 ~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m-~~~~~--~~~~~~li  140 (245)
                      +...+++.-.-+..+.+.|-.++-++|.+.+|.+....- ...|.  .+.||..+
T Consensus       704 e~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  704 ENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            988776665667888899999999999999998866443 33333  45566555

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

Probab=91.00  E-value=6.6  Score=34.81  Aligned_cols=115  Identities=12%  Similarity=0.157  Sum_probs=73.8

Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcHhhHHHHHHHhcccCcHHHHHH
Q 043265            9 LCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPNWSTFVGVITACGCFGAVDEGFQ   86 (245)
Q Consensus         9 ~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~~t~~~ll~~~~~~g~~~~a~~   86 (245)
                      =.++..+..|..||+.....=-..|. .|--.+..=-..|++..++++...  .+.|+...|.+.|+-=.+...++.|..
T Consensus       117 Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~  195 (677)
T KOG1915|consen  117 EMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARS  195 (677)
T ss_pred             HHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHH
Confidence            34566677777777776543211122 222222222333667777776553  677888888888888888888888888


Q ss_pred             HHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           87 HFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        87 ~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      +++...-   +.|++.+|--...-=-++|.+..|..+|+.-
T Consensus       196 IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~VyerA  233 (677)
T KOG1915|consen  196 IYERFVL---VHPKVSNWIKYARFEEKHGNVALARSVYERA  233 (677)
T ss_pred             HHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            8876643   4577777777777777778777777777544

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

Probab=90.91  E-value=4.6  Score=39.10  Aligned_cols=76  Identities=20%  Similarity=0.067  Sum_probs=35.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHH---HHHhcCC-CCcHhhHHHHHHHhcc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGK---RFENDGV-RPNWSTFVGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~---~~~~~~~-~p~~~t~~~ll~~~~~   77 (245)
                      |..+-.|=.+.|.+.+|++-|-+.      -|+..|..+++.+.+.|.+++..   +|.+... .|..  =+.||-+|++
T Consensus      1107 WsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAk 1178 (1666)
T KOG0985|consen 1107 WSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAK 1178 (1666)
T ss_pred             HHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHH
Confidence            334444445555555555444332      23455666666666655555432   2322222 2222  2355555555


Q ss_pred             cCcHHHHH
Q 043265           78 FGAVDEGF   85 (245)
Q Consensus        78 ~g~~~~a~   85 (245)
                      .+++.+-+
T Consensus      1179 t~rl~elE 1186 (1666)
T KOG0985|consen 1179 TNRLTELE 1186 (1666)
T ss_pred             hchHHHHH
Confidence            55554433

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

Probab=90.74  E-value=2.7  Score=35.35  Aligned_cols=152  Identities=13%  Similarity=-0.009  Sum_probs=102.5

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHH-HHHHHHhhhhhhHHHHHHHHhc---CCCCcHhhHHHHHHHhc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDI-IELLNVCMDLKLLEAGKRFEND---GVRPNWSTFVGVITACG   76 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~-~~ll~~~~~~~~~~~~~~~~~~---~~~p~~~t~~~ll~~~~   76 (245)
                      ||-.|-+.|.+-.....|+.+|.+-.+.  .|-.+|| ..+.+.+-..+..+.+.++-+.   --+.|+.....+-..|.
T Consensus       258 TfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yf  335 (478)
T KOG1129|consen  258 TFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPINVEAIACIAVGYF  335 (478)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCccceeeeeeeeccc
Confidence            4556778999999999999999886653  4555554 4455566666777777665332   22335667777888888


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCcH--HHHHHHHHHHHhCCCCcc
Q 043265           77 CFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDASS--VVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~~--~~~~~li~~~~~~g~~~~  151 (245)
                      -.++.+-|++++..+.+ .|+. +...|+.+=-++.-.+++|.++--|++-.   -+|+.  -+|-.+=......||...
T Consensus       336 Y~~~PE~AlryYRRiLq-mG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nl  413 (478)
T KOG1129|consen  336 YDNNPEMALRYYRRILQ-MGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNL  413 (478)
T ss_pred             cCCChHHHHHHHHHHHH-hcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHH
Confidence            89999999999999987 7887 55566666666666788888888776543   13442  234333333334466666


Q ss_pred             ccccc
Q 043265          152 GEPSS  156 (245)
Q Consensus       152 ~~~~~  156 (245)
                      |++.+
T Consensus       414 A~rcf  418 (478)
T KOG1129|consen  414 AKRCF  418 (478)
T ss_pred             HHHHH
Confidence            65555

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

Probab=90.70  E-value=3.9  Score=38.62  Aligned_cols=119  Identities=14%  Similarity=0.162  Sum_probs=84.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCc-HhhHHHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPN-WSTFVGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~-~~t~~~ll~~~~~~g~   80 (245)
                      -+-.+|...|+++.|+.+|..+.+.-.--+.+.|--+-..|-..|..++|.+.-..-  ..|+ .-.-.+|-+-+-+.|+
T Consensus       419 d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~  498 (895)
T KOG2076|consen  419 DLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGN  498 (895)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCC
Confidence            356788889999999999999887655455678888888888888888887764432  3332 3333455566778899


Q ss_pred             HHHHHHHHHHhhh-------hcCCCcchHHHHHHHHHHhccCCHHHHHH
Q 043265           81 VDEGFQHFESVTR-------DYDINPTLEHFLGIVDLYGRLQKIAEARE  122 (245)
Q Consensus        81 ~~~a~~~~~~m~~-------~~~~~p~~~~~~~li~~y~~~g~~~~a~~  122 (245)
                      .|+|.+.++.|..       ..++.|+...---..+.|.+.|+.++=..
T Consensus       499 ~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~  547 (895)
T KOG2076|consen  499 HEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFIN  547 (895)
T ss_pred             HHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            9999998887422       13556666666667788888888777443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=90.44  E-value=6.3  Score=35.66  Aligned_cols=137  Identities=12%  Similarity=0.023  Sum_probs=88.2

Q ss_pred             cCCCCCHHHHHHHHHHhhhh-----hhHHHHHHHHhc--CCCCcH-hhHHHHHHHhccc--------CcHHHHHHHHHHh
Q 043265           28 IGIFLDSPDIIELLNVCMDL-----KLLEAGKRFEND--GVRPNW-STFVGVITACGCF--------GAVDEGFQHFESV   91 (245)
Q Consensus        28 ~g~~p~~~t~~~ll~~~~~~-----~~~~~~~~~~~~--~~~p~~-~t~~~ll~~~~~~--------g~~~~a~~~~~~m   91 (245)
                      .....|...|..++++....     +..+.+..+.++  ...||- ..|..+..++...        .++..+.+..+..
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            34557889999999997654     345566666444  345653 3344333333221        1233444444432


Q ss_pred             hhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265           92 TRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus        92 ~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ..-.....+...|.++--.....|++++|...+++.. ..|+...|..+-..+...|+.+.|....  ++++.|..
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~  486 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE  486 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence            2200122345677777666667899999999998875 6788888888889999999999887766  77777665

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

Probab=90.35  E-value=4.6  Score=36.21  Aligned_cols=145  Identities=10%  Similarity=0.023  Sum_probs=106.0

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhcCCC--CcHhhH-HHHHHHhcc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRFENDGVR--PNWSTF-VGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~--p~~~t~-~~ll~~~~~   77 (245)
                      |-..|+.--+..-+..|..+|.+..+.+..+ .++.++++|.-||. ++.+.|-++.+.|.+  +|...| ..-++-+.+
T Consensus       369 ~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~  447 (656)
T KOG1914|consen  369 YCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFGDSPEYVLKYLDFLSH  447 (656)
T ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            4556777777777999999999999988887 88999999998876 455566666566543  454444 566777778


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCcc--hHHHHHHHHHHhccCCHHHHHHHHHhcC--CC----CcHHHHHHHHHHHHhCCC
Q 043265           78 FGAVDEGFQHFESVTRDYDINPT--LEHFLGIVDLYGRLQKIAEAREFIRNMQ--ID----ASSVVWETLEKYAQTEPG  148 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~----~~~~~~~~li~~~~~~g~  148 (245)
                      .++=..+..+|+..... ++.||  ...|..+|+-=++-|++.-+.++-+++.  ++    +.-..-..+++-|...+.
T Consensus       448 lNdd~N~R~LFEr~l~s-~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~  525 (656)
T KOG1914|consen  448 LNDDNNARALFERVLTS-VLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDL  525 (656)
T ss_pred             hCcchhHHHHHHHHHhc-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccc
Confidence            88888889999999774 66665  4789999999999999999998887774  23    222333444466655544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.30  E-value=9.8  Score=32.54  Aligned_cols=83  Identities=11%  Similarity=-0.047  Sum_probs=50.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQ   86 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~   86 (245)
                      .++-+-|++++|..++..+.... .|+...+..|...+.-.|.+.+|+++.... +-++..-..|..---+.++-++-..
T Consensus        65 ~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka-~k~pL~~RLlfhlahklndEk~~~~  142 (557)
T KOG3785|consen   65 HCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKA-PKTPLCIRLLFHLAHKLNDEKRILT  142 (557)
T ss_pred             HHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCcHHHHHH
Confidence            45667899999999999987754 356667777777777789999888764331 1222222333333334444444444


Q ss_pred             HHHHh
Q 043265           87 HFESV   91 (245)
Q Consensus        87 ~~~~m   91 (245)
                      +++++
T Consensus       143 fh~~L  147 (557)
T KOG3785|consen  143 FHSSL  147 (557)
T ss_pred             HHHHH
Confidence            44433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=90.24  E-value=1.4  Score=27.75  Aligned_cols=59  Identities=15%  Similarity=0.131  Sum_probs=46.8

Q ss_pred             HHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHH
Q 043265           73 TACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSV  134 (245)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~  134 (245)
                      ..|.+.++++.|.++++.+..   +.| +...|...-.+|.+.|++++|...|+..- ..|+..
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~---~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~   63 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALE---LDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDP   63 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHH---hCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcH
Confidence            567889999999999998865   344 45667778899999999999999998774 455543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.75  E-value=13  Score=33.16  Aligned_cols=80  Identities=11%  Similarity=0.179  Sum_probs=59.3

Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCc--HHHHHHHHHHHH
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DAS--SVVWETLEKYAQ  144 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~--~~~~~~li~~~~  144 (245)
                      --+-.++-+.|..++|.+.|.+|.++....-.......||.++...+...++..++.+-. + -|.  ..+|++-+-..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            345555667899999999999997755433345677899999999999999999998875 1 244  467888775555


Q ss_pred             hCCC
Q 043265          145 TEPG  148 (245)
Q Consensus       145 ~~g~  148 (245)
                      ..++
T Consensus       343 av~d  346 (539)
T PF04184_consen  343 AVGD  346 (539)
T ss_pred             hhcc
Confidence            4444

The molecular function of this protein is uncertain.

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

Probab=89.38  E-value=9.3  Score=36.85  Aligned_cols=119  Identities=10%  Similarity=0.066  Sum_probs=80.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCC-cH--------------
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGI-FLDSPDIIELLNVCMDLKLLEAGKRFENDGVRP-NW--------------   65 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~-~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p-~~--------------   65 (245)
                      |-.|+..|-..+++++|.++.+.-.+..- .+...-|..+  .+.+.+....+..+.-.+..+ +.              
T Consensus        34 ~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~--l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~~i~~  111 (906)
T PRK14720         34 LDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGI--LSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICDKILL  111 (906)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHH--HHHhhcchhhhhhhhhhhhcccccchhHHHHHHHHHHh
Confidence            45688999999999999999997655432 2334444444  444555555544432112111 22              


Q ss_pred             -----hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           66 -----STFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        66 -----~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                           ..+-.+-.+|-+.|+.+++..+++++.+ .. .-|....|-+-..|+.. ++++|..++.
T Consensus       112 ~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~-~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~  173 (906)
T PRK14720        112 YGENKLALRTLAEAYAKLNENKKLKGVWERLVK-AD-RDNPEIVKKLATSYEEE-DKEKAITYLK  173 (906)
T ss_pred             hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHh-cC-cccHHHHHHHHHHHHHh-hHHHHHHHHH
Confidence                 4556677778888999999999999976 33 22577788888888888 8888887554

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

Probab=89.13  E-value=3.4  Score=36.27  Aligned_cols=127  Identities=14%  Similarity=0.163  Sum_probs=92.9

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHH----HhcC-CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHH-HHH
Q 043265           34 SPDIIELLNVCMDLKLLEAGKRF----ENDG-VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHF-LGI  107 (245)
Q Consensus        34 ~~t~~~ll~~~~~~~~~~~~~~~----~~~~-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~~l  107 (245)
                      .+.|.+.|++--+...++.|+.+    .+.| +.+++..++++|.-++. |+..-|.++|+.=...   -||.-.| +-.
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~---f~d~~~y~~ky  472 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK---FPDSTLYKEKY  472 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh---CCCchHHHHHH
Confidence            46788888888888878877664    4556 67899999999998875 5666888999743322   3454443 467


Q ss_pred             HHHHhccCCHHHHHHHHHhcC--CCCc--HHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          108 VDLYGRLQKIAEAREFIRNMQ--IDAS--SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       108 i~~y~~~g~~~~a~~~~~~m~--~~~~--~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ++-+.+-++-+.|+.+|+.-.  ++.+  ..+|..||..-...|++..+-.+.  ..++.|+.
T Consensus       473 l~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         473 LLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            778888899999999998442  3334  578999999999999997665554  55566554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=88.97  E-value=2.2  Score=37.37  Aligned_cols=60  Identities=15%  Similarity=0.162  Sum_probs=45.4

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcch----HHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTL----EHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      +...++.+-.+|.+.|++++|...|+...+   +.|+.    .+|..+-.+|.+.|+.++|...+++
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~Lrr  137 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRT  137 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            466788888888888888888888887643   45663    3477888888888888888776654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=88.92  E-value=7.7  Score=32.04  Aligned_cols=65  Identities=8%  Similarity=0.113  Sum_probs=33.1

Q ss_pred             HHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC----CCCcHHHHHHHHHHHHhCCCCcc
Q 043265           87 HFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ----IDASSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        87 ~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~----~~~~~~~~~~li~~~~~~g~~~~  151 (245)
                      +.+-+...+|-.++..+-.++|..+++.+++..-.++++...    ...|...|..+|......||...
T Consensus       188 vV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~  256 (292)
T PF13929_consen  188 VVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEV  256 (292)
T ss_pred             HHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHH
Confidence            333333334445555555555555555555555555554432    12345555555555555555444

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

Probab=88.78  E-value=9.9  Score=34.30  Aligned_cols=116  Identities=11%  Similarity=0.081  Sum_probs=75.7

Q ss_pred             hHHHHHHH--HhcCCCCc-HhhHHHHHHHhcccCcHHHHHHHHHHhhhhc----CCCc-chHHHHHHHHHHhccCCHHHH
Q 043265           49 LLEAGKRF--ENDGVRPN-WSTFVGVITACGCFGAVDEGFQHFESVTRDY----DINP-TLEHFLGIVDLYGRLQKIAEA  120 (245)
Q Consensus        49 ~~~~~~~~--~~~~~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~----~~~p-~~~~~~~li~~y~~~g~~~~a  120 (245)
                      +++.|+++  +..++.|+ +...+=+=-..-..+.+.+|..+|+......    .-.+ ...+++-|=.+|.+.+..++|
T Consensus       395 n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             cHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            44444443  44566664 4444444334455778888888887664210    0011 334567777889999999999


Q ss_pred             HHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          121 REFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       121 ~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ...|+.--  .+.|+.+++++=-.|...|+++.|...+  ++-+.|+.
T Consensus       475 I~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n  522 (611)
T KOG1173|consen  475 IDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDN  522 (611)
T ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCcc
Confidence            99998653  3567788888777888889999987766  55544443

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

Probab=88.47  E-value=1.7  Score=26.69  Aligned_cols=48  Identities=6%  Similarity=0.097  Sum_probs=29.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      ..+.+.|++++|.+.|+...+..  | +...+..+-.++.+.|.++++...
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~   53 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAY   53 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            45667777888888888777665  4 344555555555555655555443

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

Probab=88.05  E-value=8.3  Score=34.28  Aligned_cols=51  Identities=12%  Similarity=0.102  Sum_probs=32.3

Q ss_pred             hcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           75 CGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .-|.+.+++++..|++.+++  +......|+-.-..+...+++++|.+.|+..
T Consensus       438 ~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~a  488 (606)
T KOG0547|consen  438 LYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKA  488 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHH
Confidence            34556677777777766553  3334556666667777777777777776544

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

Probab=87.90  E-value=0.95  Score=24.41  Aligned_cols=26  Identities=15%  Similarity=0.162  Sum_probs=21.7

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHH
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLK   26 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~   26 (245)
                      +|+.|=..|.+.|++++|+++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46778899999999999999999854

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

Probab=87.36  E-value=23  Score=32.93  Aligned_cols=145  Identities=14%  Similarity=0.117  Sum_probs=105.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH--------HhcCCCCcHhhHHHHHHHhc
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF--------ENDGVRPNWSTFVGVITACG   76 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~--------~~~~~~p~~~t~~~ll~~~~   76 (245)
                      |.-||++-.-++.|.+++.+.++ .+.-+...|.+--..=-++|..+...++        +..|+..|..-|-.=..+|-
T Consensus       412 LwlAlarLetYenAkkvLNkaRe-~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e  490 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKARE-IIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACE  490 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh-hCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHh
Confidence            56788888899999999999865 4777888888877777777777766553        56678888888888888888


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCc--chHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCcc
Q 043265           77 CFGAVDEGFQHFESVTRDYDINP--TLEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~  151 (245)
                      +.|.+--+..+...... .|++-  --.||+.--+.+.+.+.++-|+.+|...-  +..+..+|.....+-..+|..+.
T Consensus       491 ~agsv~TcQAIi~avig-igvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Es  568 (913)
T KOG0495|consen  491 DAGSVITCQAIIRAVIG-IGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRES  568 (913)
T ss_pred             hcCChhhHHHHHHHHHh-hccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHH
Confidence            88888887777776655 55543  24577777788888888888888876553  34455666666666666665554

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

Probab=87.20  E-value=8.2  Score=37.53  Aligned_cols=105  Identities=17%  Similarity=0.281  Sum_probs=51.8

Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCC-------------------------
Q 043265            9 LCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRP-------------------------   63 (245)
Q Consensus         9 ~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p-------------------------   63 (245)
                      +..++.+++|..+|++..-     +....+.||..-   +.++.|.++....-.|                         
T Consensus      1058 ai~~~LyEEAF~ifkkf~~-----n~~A~~VLie~i---~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyik 1129 (1666)
T KOG0985|consen 1058 AIENQLYEEAFAIFKKFDM-----NVSAIQVLIENI---GSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIK 1129 (1666)
T ss_pred             HhhhhHHHHHHHHHHHhcc-----cHHHHHHHHHHh---hhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHh
Confidence            4456778888888887532     334555555433   3333333332222211                         


Q ss_pred             --cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHH
Q 043265           64 --NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFI  124 (245)
Q Consensus        64 --~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~  124 (245)
                        |+..|.-+|..+.+.|.+++-.+++. |.++..-+|.+.  +.||-+|++.+++.+-+++.
T Consensus      1130 adDps~y~eVi~~a~~~~~~edLv~yL~-MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1130 ADDPSNYLEVIDVASRTGKYEDLVKYLL-MARKKVREPYID--SELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             cCCcHHHHHHHHHHHhcCcHHHHHHHHH-HHHHhhcCccch--HHHHHHHHHhchHHHHHHHh
Confidence              34445555555555555555555553 222233444433  34555555555555544443

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

Probab=87.00  E-value=19  Score=34.90  Aligned_cols=139  Identities=12%  Similarity=0.069  Sum_probs=91.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCC--CcHhhHHHHHHHh-----c
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVR--PNWSTFVGVITAC-----G   76 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~--p~~~t~~~ll~~~-----~   76 (245)
                      ++-.+|-+.|+.++|..+|++..+.+ .-|+...|-+-..|+.. +++.|.+|...-+.  .|..-|+.+..-.     +
T Consensus       121 ~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        121 TLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHhc
Confidence            45567788899999999999999988 44788899999999988 99999888443221  1222233333211     1


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CC-CcHHHHHHHHHHHH
Q 043265           77 CFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-ID-ASSVVWETLEKYAQ  144 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~-~~~~~~~~li~~~~  144 (245)
                      ...+++.=.++.+.+....|+.--+.++-.+-..|-+..+++++..+++..- .+ .|.....-++..|+
T Consensus       199 ~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        199 NSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             CcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            1223444444444444434444455667777788999999999999998874 33 34455555665554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.80  E-value=8.2  Score=26.63  Aligned_cols=51  Identities=12%  Similarity=0.129  Sum_probs=34.5

Q ss_pred             HhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHH
Q 043265           57 ENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD  109 (245)
Q Consensus        57 ~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  109 (245)
                      ...-+.|++....+.|+||.|..++..|.++|+.++.+  +.+....|..+++
T Consensus        37 ~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K--~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   37 FGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK--CGNKKEIYPYILQ   87 (108)
T ss_dssp             TTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH--TTT-TTHHHHHHH
T ss_pred             hccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--ccChHHHHHHHHH
Confidence            45567888888899999999999999999999888654  4444446766654

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 ....

>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=86.80  E-value=0.6  Score=29.08  Aligned_cols=57  Identities=12%  Similarity=0.080  Sum_probs=42.6

Q ss_pred             chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCC-CCccccccc
Q 043265          100 TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEP-GLLLGEPSS  156 (245)
Q Consensus       100 ~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g-~~~~~~~~~  156 (245)
                      +..+|..+=..|.+.|++++|...|++.- ..| ++..|..+=.++...| +.+.|...+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~   61 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDF   61 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHH
Confidence            45678888899999999999999998764 445 4566666667777877 566655444

...

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

Probab=86.70  E-value=15  Score=29.46  Aligned_cols=158  Identities=13%  Similarity=-0.012  Sum_probs=108.0

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhhhHHHHHHHHhcC-CCC----cHhhHHHHHHHh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDLKLLEAGKRFENDG-VRP----NWSTFVGVITAC   75 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~-~~p----~~~t~~~ll~~~   75 (245)
                      |.++-..|-+.|..+.|.+-|....+..  |+ ....|..=.-+|..|.++++.+..+.- -.|    -..||..+--+-
T Consensus        72 ~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~--p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Ca  149 (250)
T COG3063          72 HLVRAHYYQKLGENDLADESYRKALSLA--PNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCA  149 (250)
T ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHhcC--CCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHH
Confidence            5667788999999999999999987643  32 222333333335556788876654332 222    245677777778


Q ss_pred             cccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccc
Q 043265           76 GCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLG  152 (245)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~  152 (245)
                      .+.|+++.|+..|..-.+   ..|+ ..+.-.|-+..-+.|+.-.|..+++...  ..+...+.--.|..-.+.|+.+.+
T Consensus       150 l~~gq~~~A~~~l~raL~---~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a  226 (250)
T COG3063         150 LKAGQFDQAEEYLKRALE---LDPQFPPALLELARLHYKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAA  226 (250)
T ss_pred             hhcCCchhHHHHHHHHHH---hCcCCChHHHHHHHHHHhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHH
Confidence            899999999999987754   2343 3456788899999999999999998875  345555555556777777877765


Q ss_pred             cccc--cccccccc
Q 043265          153 EPSS--SLRLSNKK  164 (245)
Q Consensus       153 ~~~~--~~~~~~~~  164 (245)
                      ..-.  +.+.+|..
T Consensus       227 ~~Y~~qL~r~fP~s  240 (250)
T COG3063         227 QRYQAQLQRLFPYS  240 (250)
T ss_pred             HHHHHHHHHhCCCc
Confidence            5444  55555544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=86.63  E-value=12  Score=30.69  Aligned_cols=59  Identities=15%  Similarity=0.153  Sum_probs=35.6

Q ss_pred             HHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           70 GVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        70 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      -+-..|...|+.++|...|+.+...+.-.|. ...+--+...|.+.|+.++|...|+...
T Consensus       185 ~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi  244 (263)
T PRK10803        185 WLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVI  244 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444566677777777777777654332221 1223334556667788888888877664

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

Probab=86.46  E-value=1.4  Score=23.73  Aligned_cols=24  Identities=13%  Similarity=0.229  Sum_probs=17.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHh
Q 043265          103 HFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus       103 ~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      +|+.|-+.|.+.|++++|..+|++
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            466777888888888888888876

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

Probab=85.79  E-value=12  Score=33.31  Aligned_cols=14  Identities=0%  Similarity=-0.315  Sum_probs=7.6

Q ss_pred             eeccccccCchhhH
Q 043265          213 IKKNLRICGECHNF  226 (245)
Q Consensus       213 l~~~~~~~g~~~~a  226 (245)
                      +|++|.+++.-+.-
T Consensus       421 ~WNg~~~~~~~~l~  434 (468)
T PF10300_consen  421 FWNGFPRMPKEELE  434 (468)
T ss_pred             HHhccccCChHHHH
Confidence            55566655554444

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.

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

Probab=85.60  E-value=25  Score=31.16  Aligned_cols=150  Identities=11%  Similarity=0.102  Sum_probs=103.5

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH--HhcCCCC-cHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF--ENDGVRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~--~~~~~~p-~~~t~~~ll~~~~~~   78 (245)
                      |+.|=+-|..-.+.+.|.+-+....+-+ +.|--.|=.|=.+|.-.+...-+.-.  +...++| |...|.+|=.+|.+.
T Consensus       367 WTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl  445 (559)
T KOG1155|consen  367 WTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKL  445 (559)
T ss_pred             HHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHh
Confidence            3444466777788888888888877654 24666777777777666544433322  3345666 689999999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC------CCCcHHHHHH--HH-HHHHhCCCC
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ------IDASSVVWET--LE-KYAQTEPGL  149 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~------~~~~~~~~~~--li-~~~~~~g~~  149 (245)
                      +++++|.+.|..... .|-. +...|..|-+.|-+-++..+|-..|++.-      -..+..|.-+  .+ ..+.+.++.
T Consensus       446 ~~~~eAiKCykrai~-~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~  523 (559)
T KOG1155|consen  446 NRLEEAIKCYKRAIL-LGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDF  523 (559)
T ss_pred             ccHHHHHHHHHHHHh-cccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcch
Confidence            999999999998765 3322 44778899999999999999998886552      1223322222  22 566677777


Q ss_pred             ccccc
Q 043265          150 LLGEP  154 (245)
Q Consensus       150 ~~~~~  154 (245)
                      ++|..
T Consensus       524 ~~As~  528 (559)
T KOG1155|consen  524 DEASY  528 (559)
T ss_pred             HHHHH
Confidence            76543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=85.57  E-value=6.1  Score=26.96  Aligned_cols=50  Identities=12%  Similarity=0.171  Sum_probs=28.4

Q ss_pred             hcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHH
Q 043265           58 NDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD  109 (245)
Q Consensus        58 ~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  109 (245)
                      .....|++....+.|+||.|.+++..|.++|+.++.+  +..+...|..+++
T Consensus        35 ~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K--~~~~~~~y~~~lq   84 (103)
T cd00923          35 GYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK--CGAHKEIYPYILQ   84 (103)
T ss_pred             ccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--ccCchhhHHHHHH
Confidence            3445566666666666666666666666666655432  2223334555544

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.

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

Probab=85.39  E-value=22  Score=32.92  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHh
Q 043265          102 EHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus       102 ~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      ..|++|.+-|.+.|.++.|.++|++
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyee  273 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEE  273 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            5577777777777777777777754

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

Probab=85.33  E-value=15  Score=34.92  Aligned_cols=121  Identities=15%  Similarity=0.183  Sum_probs=87.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHhhhhhhHHHHHHHHh----cCCCCcHhhHHHHHHHhcccCcH
Q 043265            8 HLCREREVKAALEVMDKLKNIGI--FLDSPDIIELLNVCMDLKLLEAGKRFEN----DGVRPNWSTFVGVITACGCFGAV   81 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~--~p~~~t~~~ll~~~~~~~~~~~~~~~~~----~~~~p~~~t~~~ll~~~~~~g~~   81 (245)
                      ++.+-...+...-+...+...++  .-++-.|.-+..+|...|.+.+|..+..    .-.--+...|--+-.+|-..|..
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            44444555556666666666664  4456788889999999998888877532    22223466888889999999999


Q ss_pred             HHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcCCCCc
Q 043265           82 DEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQIDAS  132 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~  132 (245)
                      +.|.+.++....   ..|+ .-.-..|-..|-+.|+.|+|.+.++.+- .||
T Consensus       466 e~A~e~y~kvl~---~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~-~~D  513 (895)
T KOG2076|consen  466 EEAIEFYEKVLI---LAPDNLDARITLASLYQQLGNHEKALETLEQII-NPD  513 (895)
T ss_pred             HHHHHHHHHHHh---cCCCchhhhhhHHHHHHhcCCHHHHHHHHhccc-CCC
Confidence            999999988765   3453 3344577788899999999999998875 444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=84.96  E-value=14  Score=27.64  Aligned_cols=54  Identities=9%  Similarity=0.100  Sum_probs=26.1

Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                      -.|=-+|-..|++++|...|.....   +.| |...+=-+=.+|.+.|+.+.|++-|+
T Consensus        73 ~gLG~~~Q~~g~~~~AI~aY~~A~~---L~~ddp~~~~~ag~c~L~lG~~~~A~~aF~  127 (157)
T PRK15363         73 FRLGECCQAQKHWGEAIYAYGRAAQ---IKIDAPQAPWAAAECYLACDNVCYAIKALK  127 (157)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHh---cCCCCchHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3333344445555555555554422   222 33444445555555555555555554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=84.90  E-value=23  Score=32.87  Aligned_cols=52  Identities=12%  Similarity=0.167  Sum_probs=32.9

Q ss_pred             hhHHHHHHHHcCCHH--HHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH
Q 043265            2 LNSELKHLCREREVK--AALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~--~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      |++.=+||.+-++..  +...-+++|+++|-.|+.....   ..|+..|.+.+|.++
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLlA---~~~Ay~gKF~EAAkl  654 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLLLA---DVFAYQGKFHEAAKL  654 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHHH---HHHHhhhhHHHHHHH
Confidence            455567888777644  5555577888999889876543   334555555555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=84.70  E-value=2.8  Score=23.64  Aligned_cols=25  Identities=28%  Similarity=0.503  Sum_probs=14.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHhc
Q 043265          103 HFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       103 ~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ++..+-..|.+.|+.++|.++|++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~   27 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRA   27 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3445556666666666666666555

>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=84.40  E-value=13  Score=28.31  Aligned_cols=49  Identities=10%  Similarity=0.182  Sum_probs=24.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHhhhhhhHHH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDS--PDIIELLNVCMDLKLLEA   52 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~   52 (245)
                      .+-..|++.|+.+.|.+.|.++.+....|..  ..+-.+|+.+...+++..
T Consensus        41 ~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~   91 (177)
T PF10602_consen   41 DLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSH   91 (177)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHH
Confidence            3445566666666666666666555443321  233344444444444333

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.

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

Probab=84.24  E-value=8.5  Score=31.75  Aligned_cols=73  Identities=18%  Similarity=0.286  Sum_probs=54.3

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC--------CCCcHHHHH
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ--------IDASSVVWE  137 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~--------~~~~~~~~~  137 (245)
                      ++..++..+...|+++.+.+.+++..+   ..| +...|..||.+|.+.|+...|.+.|+++.        ++|...++.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~---~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIE---LDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHh---cCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            455677778888888888888887755   233 66778888889999888888888887663        567777766


Q ss_pred             HHHHH
Q 043265          138 TLEKY  142 (245)
Q Consensus       138 ~li~~  142 (245)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            66655

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.19  E-value=8  Score=32.46  Aligned_cols=97  Identities=13%  Similarity=0.182  Sum_probs=63.8

Q ss_pred             cCCCCCHHHHHHHHHHhhhhhhHHHHHHH----Hh---cCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc
Q 043265           28 IGIFLDSPDIIELLNVCMDLKLLEAGKRF----EN---DGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT  100 (245)
Q Consensus        28 ~g~~p~~~t~~~ll~~~~~~~~~~~~~~~----~~---~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~  100 (245)
                      .|...+..+...++..-.....++.+...    ..   .-..|+...|.. +.-| -.=+.+++..++..=.+ +|+-||
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~-irll-lky~pq~~i~~l~npIq-YGiF~d  134 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTW-IRLL-LKYDPQKAIYTLVNPIQ-YGIFPD  134 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHH-HHHH-HccChHHHHHHHhCcch-hccccc
Confidence            45556667777777766655556655432    11   123344443322 2222 22356677777766556 899999


Q ss_pred             hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265          101 LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       101 ~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      -++++.+||.+.+.|++.+|..+...|
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHH
Confidence            999999999999999999988877655

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

Probab=84.19  E-value=28  Score=30.50  Aligned_cols=152  Identities=11%  Similarity=-0.019  Sum_probs=84.1

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHH-HHHhcc-cCcH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGV-ITACGC-FGAV   81 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~l-l~~~~~-~g~~   81 (245)
                      .+.+.++.++|.=-|.....  +.| +...|..|+..|-..|.+.+|.-+-+.-   ++.+..+.+.+ -..|.- ...-
T Consensus       343 lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~r  420 (564)
T KOG1174|consen  343 LLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMR  420 (564)
T ss_pred             HHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhH
Confidence            45566788888877877654  343 5688999999998888887776552221   12223332222 011111 2234


Q ss_pred             HHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCccccccc--c
Q 043265           82 DEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGEPSS--S  157 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~~~~--~  157 (245)
                      ++|..+++.-   ..+.|+ +...+.+...+...|..+++..++++-- ..||....+.|=...+.......+..-+  +
T Consensus       421 EKAKkf~ek~---L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~A  497 (564)
T KOG1174|consen  421 EKAKKFAEKS---LKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKA  497 (564)
T ss_pred             HHHHHHHHhh---hccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            5566666533   234554 2334555566666666666766665543 4566666665555555444444444444  5


Q ss_pred             ccccccc
Q 043265          158 LRLSNKK  164 (245)
Q Consensus       158 ~~~~~~~  164 (245)
                      +++.|+.
T Consensus       498 Lr~dP~~  504 (564)
T KOG1174|consen  498 LRQDPKS  504 (564)
T ss_pred             HhcCccc
Confidence            5555554

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.06  E-value=3.7  Score=27.97  Aligned_cols=41  Identities=12%  Similarity=0.121  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHH
Q 043265           16 KAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus        16 ~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      -++.+-++.+...++.|++....+-|+||-+.+++..|.++
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~   64 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRI   64 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHH
Confidence            34555555555556666666666666666666666665554

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.

>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=83.56  E-value=3.9  Score=26.04  Aligned_cols=27  Identities=11%  Similarity=0.169  Sum_probs=16.2

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHh
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESV   91 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m   91 (245)
                      ..+++.+-..|...|+.++|++.+++.
T Consensus        46 a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen   46 ANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445555666666666666666666543

...

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

Probab=83.45  E-value=2.4  Score=23.03  Aligned_cols=27  Identities=15%  Similarity=0.247  Sum_probs=21.2

Q ss_pred             hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265          101 LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       101 ~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+++.|-..|...|++++|..++++.
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHH
Confidence            357788888999999999999888765

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

Probab=83.27  E-value=6.1  Score=23.00  Aligned_cols=38  Identities=21%  Similarity=0.255  Sum_probs=32.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNV   43 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~   43 (245)
                      +....+.|...++..++++|.+.|+.-+...|..++..
T Consensus         9 L~~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~   46 (48)
T PF11848_consen    9 LLLAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR   46 (48)
T ss_pred             HHHHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence            44556788899999999999999999888888888764

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

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

Probab=83.18  E-value=16  Score=30.11  Aligned_cols=123  Identities=15%  Similarity=0.141  Sum_probs=70.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC---CC--HHHHHHHHHHhhhhhhHHHHHHH--------HhcCCCC-cHhhHHH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIF---LD--SPDIIELLNVCMDLKLLEAGKRF--------ENDGVRP-NWSTFVG   70 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~---p~--~~t~~~ll~~~~~~~~~~~~~~~--------~~~~~~p-~~~t~~~   70 (245)
                      .-..|-..|++++|.+.|.+.......   +.  ...|......|.+ .+++.+.+.        ...|-.. -...+.-
T Consensus        41 Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~  119 (282)
T PF14938_consen   41 AANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIEIYREAGRFSQAAKCLKE  119 (282)
T ss_dssp             HHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            345666778888888888776332111   11  2233333333333 244444332        2223222 2456777


Q ss_pred             HHHHhccc-CcHHHHHHHHHHhhhhcCC--Cc--chHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           71 VITACGCF-GAVDEGFQHFESVTRDYDI--NP--TLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        71 ll~~~~~~-g~~~~a~~~~~~m~~~~~~--~p--~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      +-..|-.. |+++.|.+.|++...-+.-  .+  -..++.-+...+.+.|++++|..+|++..
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~  182 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVA  182 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            88888888 8999999988876442111  12  13456778899999999999999998763

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=82.86  E-value=10  Score=33.44  Aligned_cols=56  Identities=9%  Similarity=-0.075  Sum_probs=40.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCH----HHHHHHHHHhhhhhhHHHHHHHHhc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDS----PDIIELLNVCMDLKLLEAGKRFEND   59 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~----~t~~~ll~~~~~~~~~~~~~~~~~~   59 (245)
                      |+.+=.+|.+.|++++|+..|++..+.+  |+.    .+|..+-.+|++.|..++|....+.
T Consensus        78 ~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~Lrr  137 (453)
T PLN03098         78 AVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRT  137 (453)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4556667888888888888888876643  553    4588888888888888877665433

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

Probab=82.81  E-value=7.9  Score=36.79  Aligned_cols=13  Identities=23%  Similarity=0.593  Sum_probs=6.9

Q ss_pred             cCcHHHHHHHHHH
Q 043265           78 FGAVDEGFQHFES   90 (245)
Q Consensus        78 ~g~~~~a~~~~~~   90 (245)
                      .|.+|.|+.++..
T Consensus       925 ~GemdaAl~~Y~~  937 (1416)
T KOG3617|consen  925 VGEMDAALSFYSS  937 (1416)
T ss_pred             ccchHHHHHHHHH
Confidence            4555555555543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=82.79  E-value=7.1  Score=31.93  Aligned_cols=97  Identities=9%  Similarity=0.052  Sum_probs=65.8

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcch----HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHH
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTL----EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWET  138 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~  138 (245)
                      ...|...+.-..+.|++++|...|+.....+   |+.    ..+--+-..|...|+.++|...|+.+- ..|+ .....+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y---P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA  219 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY---PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA  219 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC---cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH
Confidence            3456666666566799999999999987643   443    345567889999999999999998884 2233 223333


Q ss_pred             H---HHHHHhCCCCccccccc--cccccccc
Q 043265          139 L---EKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       139 l---i~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      +   ...+...|+.+.|....  +.+.+|+.
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            3   34555678888777665  55555543

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

Probab=81.99  E-value=18  Score=33.82  Aligned_cols=86  Identities=13%  Similarity=0.082  Sum_probs=39.1

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccC
Q 043265           36 DIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQ  115 (245)
Q Consensus        36 t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g  115 (245)
                      |.+--+.-+...|.-..|+++++.==-||..-|--=+.+++..+++++-+++-++++.       ..-|.-++.++.+.|
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskks-------PIGy~PFVe~c~~~~  758 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKKS-------PIGYLPFVEACLKQG  758 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccCC-------CCCchhHHHHHHhcc
Confidence            3333444444444445555544443344555555555555555555444433333221       222334444455555


Q ss_pred             CHHHHHHHHHhcC
Q 043265          116 KIAEAREFIRNMQ  128 (245)
Q Consensus       116 ~~~~a~~~~~~m~  128 (245)
                      +.++|.+.+.+..
T Consensus       759 n~~EA~KYiprv~  771 (829)
T KOG2280|consen  759 NKDEAKKYIPRVG  771 (829)
T ss_pred             cHHHHhhhhhccC
Confidence            5555555555443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=81.80  E-value=6.6  Score=27.06  Aligned_cols=59  Identities=10%  Similarity=0.071  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHH---hcCCCCcHhhHHHHHH
Q 043265           15 VKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFE---NDGVRPNWSTFVGVIT   73 (245)
Q Consensus        15 ~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~---~~~~~p~~~t~~~ll~   73 (245)
                      .-+..+-++.+...++.|++....+-|+||-+.+++..|.++.   +..+.+....|..+|.
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            3367777888888999999999999999999999999987763   2334444447777663

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 ....

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

Probab=81.73  E-value=2.5  Score=22.97  Aligned_cols=27  Identities=19%  Similarity=0.235  Sum_probs=21.9

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHh
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKN   27 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~   27 (245)
                      ++|.|-..|...|++++|+.++.+...
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            367788899999999999999998754

>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=81.15  E-value=17  Score=27.29  Aligned_cols=67  Identities=12%  Similarity=0.028  Sum_probs=36.2

Q ss_pred             cccCcHHHHHHHHHHhhhhcCCCcchHHH-HHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHh
Q 043265           76 GCFGAVDEGFQHFESVTRDYDINPTLEHF-LGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQT  145 (245)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~  145 (245)
                      .+.++.++++.+++.+.-   ..|..... ..-...+.+.|++.+|.++|+++. -.|....-.+|+..|-.
T Consensus        21 l~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~   89 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLY   89 (160)
T ss_pred             HccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHH
Confidence            345577777777776643   34432221 122344556677777777777765 23343444555555533

>PRK04841 transcriptional regulator MalT; Provisional

Probab=80.54  E-value=18  Score=34.90  Aligned_cols=123  Identities=11%  Similarity=0.080  Sum_probs=71.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC--C-CC--HHHHHHHHHHhhhhhhHHHHHHHHh--------cCCC--C-cHhhH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGI--F-LD--SPDIIELLNVCMDLKLLEAGKRFEN--------DGVR--P-NWSTF   68 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~--~-p~--~~t~~~ll~~~~~~~~~~~~~~~~~--------~~~~--p-~~~t~   68 (245)
                      +-..+...|++++|...+.+.....-  . +.  ..++..+-..+...|+++.+.....        .+..  | ....+
T Consensus       497 lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  576 (903)
T PRK04841        497 LGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLL  576 (903)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHH
Confidence            34456678999999888888753211  1 11  2333444455566677777755421        2211  1 22334


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhc-CCCc--chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDY-DINP--TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~-~~~p--~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+-..+...|++++|...+++...-. ...+  ....+..+-..+...|+.++|.+.+...
T Consensus       577 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a  638 (903)
T PRK04841        577 RIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRL  638 (903)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444555666799999988887663310 1112  2334455666788889999998877655

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=80.45  E-value=37  Score=29.59  Aligned_cols=86  Identities=14%  Similarity=0.096  Sum_probs=57.3

Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHh----hhhhhHHHHHHHH--hcCCCCc-HhhHHHHHHHhcccCcHHH
Q 043265           11 REREVKAALEVMDKLKNIGIFLDSPDIIELLNVC----MDLKLLEAGKRFE--NDGVRPN-WSTFVGVITACGCFGAVDE   83 (245)
Q Consensus        11 ~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~----~~~~~~~~~~~~~--~~~~~p~-~~t~~~ll~~~~~~g~~~~   83 (245)
                      -.|+++.|.+=|+-|..     |+.|--.=|+++    -+.|+.+.+.+--  ..+..|. .-.+.+.|...|..|+++.
T Consensus       132 ~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~  206 (531)
T COG3898         132 LEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDG  206 (531)
T ss_pred             hcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHH
Confidence            45888889888888865     233333323332    3446666666542  2344454 4567889999999999999


Q ss_pred             HHHHHHHhhhhcCCCcch
Q 043265           84 GFQHFESVTRDYDINPTL  101 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p~~  101 (245)
                      |+++.+.-+...-+++++
T Consensus       207 AlkLvd~~~~~~vie~~~  224 (531)
T COG3898         207 ALKLVDAQRAAKVIEKDV  224 (531)
T ss_pred             HHHHHHHHHHHHhhchhh
Confidence            999999877655555654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=80.18  E-value=19  Score=25.63  Aligned_cols=94  Identities=11%  Similarity=0.113  Sum_probs=51.5

Q ss_pred             HHHHHHHHhcCCCCc--HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           50 LEAGKRFENDGVRPN--WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        50 ~~~~~~~~~~~~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      +..+++-...|....  ...+-.+-+.+...|+.++|..+|++...+..-.+ +......+-.++...|+.++|...+-.
T Consensus        21 i~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   21 IPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLGRPKEALEWLLE  100 (120)
T ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            333344455565544  34555666777778888888888877755321100 111222234466677888887776644


Q ss_pred             cCCCCcHHHHHHHHHHHH
Q 043265          127 MQIDASSVVWETLEKYAQ  144 (245)
Q Consensus       127 m~~~~~~~~~~~li~~~~  144 (245)
                      .- -++...|.-=|..|.
T Consensus       101 ~l-a~~~~~y~ra~~~ya  117 (120)
T PF12688_consen  101 AL-AETLPRYRRAIRFYA  117 (120)
T ss_pred             HH-HHHHHHHHHHHHHHH
Confidence            32 334445555555543

---

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	245
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

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

 Score = 41.4 bits (96), Expect = 2e-04
 Identities = 31/249 (12%), Positives = 71/249 (28%), Gaps = 73/249 (29%)

Query: 1   DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNV-C--------------- 44
            + +EL+ L + +  +  L V+  ++N              N+ C               
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLNVQN-------AKAWNAFNLSCKILLTTRFKQVTDFL 281

Query: 45  -----MDLKLLEAGKRFENDGVRPNWSTFVGVIT------ACGC-------FGA-VDEG- 84
                  + L         D V+     ++                         + +G 
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL 341

Query: 85  --FQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEARE-------FIRNMQIDAS--S 133
             + +++ V  D  +   +E  L        + + AE R+       F  +  I     S
Sbjct: 342 ATWDNWKHVNCD-KLTTIIESSL-------NVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393

Query: 134 VVWETLEKYAQTEPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRS 193
           ++W  + K    +  +++ +      L  K+        T   +  +  E K K +   +
Sbjct: 394 LIWFDVIKS---DVMVVVNK-LHKYSLVEKQPK----EST-ISIPSIYLELKVKLENEYA 444

Query: 194 --ERLAVAY 200
               +   Y
Sbjct: 445 LHRSIVDHY 453

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	245
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	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.59
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.56
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.12
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.08
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.85
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.83
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.83
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.8
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.8
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.75
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.74
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.73
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.73
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.7
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.69
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.68
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.66
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.66
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.59
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.57
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.57
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.55
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.55
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.54
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.54
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.53
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.48
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.47
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.46
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.46
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.43
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.4
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.38
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.38
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.36
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.34
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.34
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.32
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.3
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.29
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.27
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.27
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.26
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.26
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.24
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.2
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.17
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.11
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.09
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.0
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	97.99
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.97
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	97.96
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	97.92
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	97.84
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.83
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.8
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	97.79
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.78
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.77
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.76
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.75
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	97.75
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	97.71
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.7
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.69
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.65
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.63
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.61
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.61
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.58
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.58
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.58
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.51
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.51
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.4
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.38
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.38
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.37
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.37
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.34
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.33
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	97.32
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.31
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.31
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.3
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.28
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	97.27
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.27
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.27
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.25
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.22
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.22
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.22
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.21
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.19
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	97.18
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.17
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.17
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.12
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.11
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.11
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.08
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.06
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.05
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.04
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.04
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.04
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	96.95
4g1t_A	472	Interferon-induced protein with tetratricopeptide	96.93
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	96.92
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	96.92
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	96.92
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	96.91
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.88
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	96.84
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.84
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	96.83
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	96.83
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	96.82
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	96.82
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	96.8
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	96.79
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	96.78
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.75
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	96.74
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	96.74
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	96.71
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	96.69
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	96.66
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	96.64
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.61
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	96.6
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	96.59
3k9i_A	117	BH0479 protein; putative protein binding protein,	96.58
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	96.55
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	96.55
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	96.55
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	96.48
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.45
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	96.43
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.43
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	96.43
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	96.4
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.28
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	96.27
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	96.23
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.22
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	96.18
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	96.13
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	96.09
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	96.08
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.06
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	95.97
4g1t_A	472	Interferon-induced protein with tetratricopeptide	95.94
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	95.87
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	95.76
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.72
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	95.62
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	95.48
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	95.48
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	95.35
3k9i_A	117	BH0479 protein; putative protein binding protein,	95.33
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	95.3
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	95.27
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	95.27
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	95.25
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.25
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	95.19
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	95.18
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	94.65
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	94.59
2kat_A	115	Uncharacterized protein; NESG, structure, structur	94.49
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	94.23
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	94.15
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	94.09
2l6j_A	111	TPR repeat-containing protein associated with HSP;	94.05
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	94.04
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	93.96
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	93.82
1klx_A	138	Cysteine rich protein B; structural genomics, heli	93.8
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	93.5
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	93.03
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	92.73
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	92.67
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	92.61
2kat_A	115	Uncharacterized protein; NESG, structure, structur	92.57
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	91.7
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	91.48
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	91.37
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	91.13
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	90.97
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	89.45
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	89.4
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	89.38
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	88.75
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	88.62
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	88.58
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	88.19
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.11
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	87.95
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.12
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	87.07
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	86.99
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	84.67
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.82
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	82.36
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	82.14
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	81.71
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	80.06

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

Probab=100.00  E-value=6.2e-34  Score=250.67  Aligned_cols=173  Identities=17%  Similarity=0.120  Sum_probs=159.9

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh-------------hHHHHHHHHhcCCCCcHhhH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLK-------------LLEAGKRFENDGVRPNWSTF   68 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~-------------~~~~~~~~~~~~~~p~~~t~   68 (245)
                      ++.+|++|+|.|++++|+++|++|++.|++||.+|||+||.+|++.+             +.+.+.+|...|+.||..||
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            67899999999999999999999999999999999999999998753             34566788999999999999


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCcHHHHHHHHHHHHh
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDASSVVWETLEKYAQT  145 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~~~~~~~li~~~~~  145 (245)
                      |+||.+|++.|++++|.++|++|.+ .|+.||..|||+||.+|++.|++++|.++|++|.   +.||..||++||.+|++
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~-~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKA-FGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH-TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            9999999999999999999999988 7999999999999999999999999999999995   79999999999999999


Q ss_pred             CCCCcccccccccccccccccCCcccccccccccC
Q 043265          146 EPGLLLGEPSSSLRLSNKKKDAGYMPYTEYVLRDL  180 (245)
Q Consensus       146 ~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~l  180 (245)
                      .|+++.     +.++..+|+..|..|+..|+...+
T Consensus       188 ~g~~d~-----A~~ll~~Mr~~g~~ps~~T~~~l~  217 (501)
T 4g26_A          188 TKNADK-----VYKTLQRLRDLVRQVSKSTFDMIE  217 (501)
T ss_dssp             TTCHHH-----HHHHHHHHHHHTSSBCHHHHHHHH
T ss_pred             CCCHHH-----HHHHHHHHHHhCCCcCHHHHHHHH
Confidence            999988     667777788899999998875443

>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=4.2e-29  Score=219.93  Aligned_cols=148  Identities=7%  Similarity=0.141  Sum_probs=137.8

Q ss_pred             ChhHHHHHHHHcCC---------HHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHH----HHHhcCCCCcHhh
Q 043265            1 DLNSELKHLCRERE---------VKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGK----RFENDGVRPNWST   67 (245)
Q Consensus         1 t~n~ll~~~~~~g~---------~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~----~~~~~~~~p~~~t   67 (245)
                      |||+||.+|++.+.         +++|.++|++|.+.|+.||.+|||+||.+|++.|.++.|.    +|.+.|+.||..|
T Consensus        63 tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~t  142 (501)
T 4g26_A           63 HYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRS  142 (501)
T ss_dssp             HHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccce
Confidence            69999999998765         7899999999999999999999999999999999888775    5688899999999


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC---CCCcHHHHHHHHHHHH
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ---IDASSVVWETLEKYAQ  144 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~---~~~~~~~~~~li~~~~  144 (245)
                      ||+||.+|++.|++++|.++|++|.+ .|+.||..||++||++|++.|++++|.++|++|+   .+|+..||++++..++
T Consensus       143 yn~lI~~~~~~g~~~~A~~l~~~M~~-~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~  221 (501)
T 4g26_A          143 YGPALFGFCRKGDADKAYEVDAHMVE-SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFK  221 (501)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH-TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHH
T ss_pred             ehHHHHHHHHCCCHHHHHHHHHHHHh-cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHh
Confidence            99999999999999999999999988 7999999999999999999999999999999996   7899999999998887


Q ss_pred             hCCCC
Q 043265          145 TEPGL  149 (245)
Q Consensus       145 ~~g~~  149 (245)
                      ..+..
T Consensus       222 s~~a~  226 (501)
T 4g26_A          222 SEVAT  226 (501)
T ss_dssp             SHHHH
T ss_pred             cCcch
Confidence            65433

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

Probab=99.88  E-value=2.1e-23  Score=191.38  Aligned_cols=152  Identities=7%  Similarity=-0.001  Sum_probs=126.7

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHH---hcCCCCCHHHHHHHHHHhhhhhhHHHH----HHHHhcCCCCcHhhHHHHHH
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLK---NIGIFLDSPDIIELLNVCMDLKLLEAG----KRFENDGVRPNWSTFVGVIT   73 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~---~~g~~p~~~t~~~ll~~~~~~~~~~~~----~~~~~~~~~p~~~t~~~ll~   73 (245)
                      |||+||++||++|++++|.++|.+|.   +.|+.||.+|||+||++||+.|.+++|    .+|.+.|+.||.+|||+||.
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~  208 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ  208 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            69999999999999999999998876   468999999999999999999977776    55788999999999999999


Q ss_pred             HhcccCc-HHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCC----CcHHHHHHHHHHHHhCCC
Q 043265           74 ACGCFGA-VDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQID----ASSVVWETLEKYAQTEPG  148 (245)
Q Consensus        74 ~~~~~g~-~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~----~~~~~~~~li~~~~~~g~  148 (245)
                      ++|+.|+ .++|.++|++|.. .|+.||.++|+++++.+.+.+-++...+++.++.-+    |.+.+.+-|...|.+.+.
T Consensus       209 glcK~G~~~e~A~~Ll~EM~~-kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~~  287 (1134)
T 3spa_A          209 CMGRQDQDAGTIERCLEQMSQ-EGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR  287 (1134)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHH-HTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCSC
T ss_pred             HHHhCCCcHHHHHHHHHHHHH-cCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCCC
Confidence            9999998 5789999999988 699999999999999999887777777776665421    123444445577777665


Q ss_pred             Ccccc
Q 043265          149 LLLGE  153 (245)
Q Consensus       149 ~~~~~  153 (245)
                      +...+
T Consensus       288 ~s~pk  292 (1134)
T 3spa_A          288 VSYPK  292 (1134)
T ss_dssp             CCCCC
T ss_pred             CcCcc
Confidence            44443

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

Probab=99.83  E-value=3.7e-21  Score=176.60  Aligned_cols=126  Identities=11%  Similarity=0.137  Sum_probs=109.6

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHH-------hcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHH
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFE-------NDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFL  105 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~-------~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~  105 (245)
                      -..|||+||++||+.|.++.|.++.       ..|+.||.+|||+||.+||+.|++++|.++|++|.+ .|+.||++|||
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~-~G~~PDvvTYn  204 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD-AGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TTCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCcHHHHH
Confidence            3579999999999999999987653       458999999999999999999999999999999988 79999999999


Q ss_pred             HHHHHHhccCCH-HHHHHHHHhcC---CCCcHHHHHHHHHHHHhCCCCccccccccccccccc
Q 043265          106 GIVDLYGRLQKI-AEAREFIRNMQ---IDASSVVWETLEKYAQTEPGLLLGEPSSSLRLSNKK  164 (245)
Q Consensus       106 ~li~~y~~~g~~-~~a~~~~~~m~---~~~~~~~~~~li~~~~~~g~~~~~~~~~~~~~~~~~  164 (245)
                      +||++||+.|+. ++|.++|++|.   +.||.++||+++.++.+.+-++.     +.++.|+.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~-----Vrkv~P~f  262 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA-----VHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHH-----HGGGCCCC
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHH-----HHHhCccc
Confidence            999999999985 78999999995   89999999999988877543333     44444444

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

Probab=99.59  E-value=2.7e-15  Score=133.57  Aligned_cols=124  Identities=12%  Similarity=-0.038  Sum_probs=89.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCcHhhHHHHHHHhcccC
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPNWSTFVGVITACGCFG   79 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~~~t~~~ll~~~~~~g   79 (245)
                      |+.++.+|.+.|++++|.++|++|..  ..|+..++..+..+|.+.|.++.|.+.....  .++|..+++.++.+|.+.|
T Consensus        87 ~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g  164 (597)
T 2xpi_A           87 LRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLY  164 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHHHHHh
Confidence            67788888888888888888888874  4567777888888888888777777665443  5667777777777777777


Q ss_pred             cHHHHHHHHHHhhhhc--------------CCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           80 AVDEGFQHFESVTRDY--------------DINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~--------------~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ++++|.++|+++..+.              +..++..+|+.++.+|.+.|++++|.++|++|
T Consensus       165 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  226 (597)
T 2xpi_A          165 DWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEA  226 (597)
T ss_dssp             CHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7777777777433222              23445677777777777777777777777655

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

Probab=99.56  E-value=7.3e-15  Score=130.72  Aligned_cols=223  Identities=12%  Similarity=0.034  Sum_probs=122.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCC---------------------------------CCCHHHHHHHHHHhhhhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGI---------------------------------FLDSPDIIELLNVCMDLK   48 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~---------------------------------~p~~~t~~~ll~~~~~~~   48 (245)
                      |+.+..+|.+.|++++|.++|+++.+.+.                                 ..+..+|+.+...|.+.|
T Consensus       308 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  387 (597)
T 2xpi_A          308 LLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVN  387 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhc
Confidence            45555666666666666666666554331                                 234556666666666666


Q ss_pred             hHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           49 LLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        49 ~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                      .+++|.+..+..  ..| +..+|+.++.+|.+.|++++|.++|+++.+.  ...+..+|+.+..+|.+.|++++|.++|+
T Consensus       388 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  465 (597)
T 2xpi_A          388 KISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPYLFLGMQHMQLGNILLANEYLQ  465 (597)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            666555443221  122 4556666666666666666666666666441  12255666666666666666666666666


Q ss_pred             hcC--CCCcHHHHHHHHHHHHhCCCCccccccc--ccccccccccCCccccc--ccccccCchhhhhcccccchHHHHHH
Q 043265          126 NMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKKKDAGYMPYT--EYVLRDLDQEAKEKPQTYRSERLAVA  199 (245)
Q Consensus       126 ~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~~~~g~~~~~--~~~~~~l~~~~~~~~~~~~~~~l~~a  199 (245)
                      ++.  .+.+..+|+.+...|.+.|+++.|...+  +++..|+.   |..|+.  ..+.....       .+...++...|
T Consensus       466 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~p~~~~~~~~~l~~-------~~~~~g~~~~A  535 (597)
T 2xpi_A          466 SSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKT---QSNEKPWAATWANLGH-------AYRKLKMYDAA  535 (597)
T ss_dssp             HHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS---CCCSGGGHHHHHHHHH-------HHHHTTCHHHH
T ss_pred             HHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhcc---ccchhhHHHHHHHHHH-------HHHHhcCHHHH
Confidence            653  2335666666666666666666655554  33333221   334442  12211111       11223333344


Q ss_pred             HHhhcCC----CCCe---EEeeccccccCchhhHHHHhhhhcCc
Q 043265          200 YGLISTP----PGRT---LRIKKNLRICGECHNFIKKLSSIENR  236 (245)
Q Consensus       200 ~~l~~~~----~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~  236 (245)
                      ...++.+    |...   ..+...|.+.|+.++|.+.|+++.+.
T Consensus       536 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          536 IDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            3333222    3222   23667788889999999999887653

>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=99.12  E-value=4e-11  Score=102.63  Aligned_cols=138  Identities=14%  Similarity=0.081  Sum_probs=67.8

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCc
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~   80 (245)
                      +|..++.++.+.|++++|++.+...++.  .|++.+.+.++.+|++.|+++++.++.+.   |+..+|..+-..|...|.
T Consensus        63 ~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~  137 (449)
T 1b89_A           63 SYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKM  137 (449)
T ss_dssp             ------------------------------------------------CHHHHTTTTTC---C----------------C
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCC
Confidence            3566777888888899998866655553  45678899999999999999998888764   788899999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           81 VDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +++|..+|..+          ..|..|.+++.+.|++++|.+.+.+..   ++.+|..++.+|...|+++.|....
T Consensus       138 yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~yq~AVea~~KA~---~~~~Wk~v~~aCv~~~ef~lA~~~~  200 (449)
T 1b89_A          138 YDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVDGARKAN---STRTWKEVCFACVDGKEFRLAQMCG  200 (449)
T ss_dssp             TTTHHHHHHHT----------TCHHHHHHHHHTTTCHHHHHHHHHHHT---CHHHHHHHHHHHHHTTCHHHHHHTT
T ss_pred             HHHHHHHHHHh----------hhHHHHHHHHHHhccHHHHHHHHHHcC---CchhHHHHHHHHHHcCcHHHHHHHH
Confidence            99999999866          378999999999999999999999995   8899999999999999999986554

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

Probab=99.08  E-value=2.1e-09  Score=87.90  Aligned_cols=158  Identities=8%  Similarity=0.022  Sum_probs=128.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~   80 (245)
                      +..+...+.+.|+.++|++.|+++...+..|+ ...+..+-..+.+.|.+++|.+....  +.+...+..+...+.+.|+
T Consensus        68 ~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~  145 (291)
T 3mkr_A           68 VRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDR  145 (291)
T ss_dssp             HHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCC
Confidence            45667788899999999999999998887675 44555555788899999999988776  5788899999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCcchHH---HHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCcccccc
Q 043265           81 VDEGFQHFESVTRDYDINPTLEH---FLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~~~~---~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      +++|.+.|+.+.+.   .|+...   ...++..+...|++++|..+|+++.  .+.+...|+.+-.++...|+++.|...
T Consensus       146 ~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~  222 (291)
T 3mkr_A          146 LDLARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGV  222 (291)
T ss_dssp             HHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999763   365432   2334566667799999999999884  356788899999999999999999888


Q ss_pred             c--cccccccc
Q 043265          156 S--SLRLSNKK  164 (245)
Q Consensus       156 ~--~~~~~~~~  164 (245)
                      +  ++++.|+.
T Consensus       223 l~~al~~~p~~  233 (291)
T 3mkr_A          223 LQEALDKDSGH  233 (291)
T ss_dssp             HHHHHHHCTTC
T ss_pred             HHHHHHhCCCC
Confidence            7  77766654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=98.85  E-value=1.2e-07  Score=79.66  Aligned_cols=151  Identities=10%  Similarity=0.063  Sum_probs=75.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~   78 (245)
                      |+.+-..|.+.|++++|.+.|+++.+.+- -+...|..+-..+...|.++.+......  ...| +..++..+...|.+.
T Consensus       172 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  250 (388)
T 1w3b_A          172 WSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQ  250 (388)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHc
Confidence            45566677777778888777777765431 1244455555555555554444332111  1222 244455555555555


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      |++++|.+.|+.+.+   ..| +..+|..+..+|.+.|++++|...|+++.  .+.+..+|+.+...+...|+.+.|...
T Consensus       251 g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  327 (388)
T 1w3b_A          251 GLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRL  327 (388)
T ss_dssp             TCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            555555555554433   122 23344555555555555555555554442  123344455555555555555544444


Q ss_pred             c
Q 043265          156 S  156 (245)
Q Consensus       156 ~  156 (245)
                      +
T Consensus       328 ~  328 (388)
T 1w3b_A          328 Y  328 (388)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=98.83  E-value=6.5e-08  Score=81.30  Aligned_cols=158  Identities=11%  Similarity=-0.016  Sum_probs=127.0

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g   79 (245)
                      +.+-..|.+.|++++|.++|.++.+.. +-+..+|..+...|.+.|.++.+....+.-  ..| +...|..+-..+...|
T Consensus       139 ~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~  217 (388)
T 1w3b_A          139 SDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEAR  217 (388)
T ss_dssp             HHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcC
Confidence            445567888899999999999998753 235788999999999999888876653321  234 4678888999999999


Q ss_pred             cHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc
Q 043265           80 AVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++++|...|++...   +.| +..++..+..+|.+.|++++|...|+++. ..| +..+|..+...+...|+.+.|...+
T Consensus       218 ~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  294 (388)
T 1w3b_A          218 IFDRAVAAYLRALS---LSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCY  294 (388)
T ss_dssp             CTTHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHh---hCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999988755   345 46788999999999999999999998874 445 4678999999999999999988777


Q ss_pred             --cccccccc
Q 043265          157 --SLRLSNKK  164 (245)
Q Consensus       157 --~~~~~~~~  164 (245)
                        ++++.|..
T Consensus       295 ~~al~~~p~~  304 (388)
T 1w3b_A          295 NTALRLCPTH  304 (388)
T ss_dssp             HHHHHHCTTC
T ss_pred             HHHHhhCccc
Confidence              77766654

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=98.83  E-value=4.7e-08  Score=83.54  Aligned_cols=159  Identities=10%  Similarity=0.054  Sum_probs=120.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc-HhhHHHH-------
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN-WSTFVGV-------   71 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~-~~t~~~l-------   71 (245)
                      ++.+...|.+.|++++|.++|.++.+.+ ..+..+|..+...|...|.++.|....+.  ...|+ ...+..+       
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~  258 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLN  258 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHH
Confidence            4566778888888888888888887653 23578888888888888888877665332  23444 3344444       


Q ss_pred             -----HHHhcccCcHHHHHHHHHHhhhhcCCCcc-----hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHH
Q 043265           72 -----ITACGCFGAVDEGFQHFESVTRDYDINPT-----LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETL  139 (245)
Q Consensus        72 -----l~~~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~l  139 (245)
                           ...|.+.|++++|.++|+++.+.   .|+     ..+|..+..+|.+.|++++|...++++. ..| +...|..+
T Consensus       259 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l  335 (450)
T 2y4t_A          259 KLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDR  335 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHH
Confidence                 78888999999999999988653   344     4578889999999999999999998863 334 67889999


Q ss_pred             HHHHHhCCCCccccccc--cccccccc
Q 043265          140 EKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       140 i~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ..+|...|+++.|...+  ++++.|+.
T Consensus       336 ~~~~~~~~~~~~A~~~~~~al~~~p~~  362 (450)
T 2y4t_A          336 AEAYLIEEMYDEAIQDYETAQEHNEND  362 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTSSSC
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhCcch
Confidence            99999999999988777  77766654

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=98.80  E-value=1.8e-07  Score=73.56  Aligned_cols=151  Identities=11%  Similarity=-0.030  Sum_probs=83.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~   80 (245)
                      .+-..|...|++++|.++|.++.+.. ..+...|..+...|...|.++.|.+..+..   .+.+...+..+...|...|+
T Consensus        42 ~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~  120 (252)
T 2ho1_A           42 QLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKR  120 (252)
T ss_dssp             HHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhH
Confidence            34455666666666666666665542 224555666666666666666555432221   12245556666666666666


Q ss_pred             HHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           81 VDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +++|.++|+.... .+..| +...+..+..+|.+.|++++|...|++.. . +.+...|..+...+...|+.+.|...+
T Consensus       121 ~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  198 (252)
T 2ho1_A          121 YEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPARQYY  198 (252)
T ss_dssp             HHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            6666666666544 22333 34455566666666666666666665542 1 223455555556666666666555544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=98.80  E-value=4.4e-08  Score=83.69  Aligned_cols=151  Identities=12%  Similarity=-0.072  Sum_probs=86.9

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~   78 (245)
                      |..+...|.+.|++++|.++|+++.+.. +.+..+|..+..+|.+.|.++.|......-  . +.+...+..+..+|.+.
T Consensus        29 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  107 (450)
T 2y4t_A           29 HLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQ  107 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHc
Confidence            4556667777777777777777776542 235667777777777777666665542221  1 22355666666667777


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcch----HHHHHHHH------------HHhccCCHHHHHHHHHhcC--CCCcHHHHHHHH
Q 043265           79 GAVDEGFQHFESVTRDYDINPTL----EHFLGIVD------------LYGRLQKIAEAREFIRNMQ--IDASSVVWETLE  140 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~------------~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li  140 (245)
                      |++++|.++|+.+.+   ..|+.    ..+..+..            .|.+.|++++|...|+.+.  .+.+..+|..+.
T Consensus       108 g~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  184 (450)
T 2y4t_A          108 GKLDEAEDDFKKVLK---SNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRA  184 (450)
T ss_dssp             TCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHH
Confidence            777777777766643   23332    33333322            2566666666666665542  123445555555


Q ss_pred             HHHHhCCCCccccccc
Q 043265          141 KYAQTEPGLLLGEPSS  156 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~  156 (245)
                      ..|...|+.+.|...+
T Consensus       185 ~~~~~~g~~~~A~~~~  200 (450)
T 2y4t_A          185 ECFIKEGEPRKAISDL  200 (450)
T ss_dssp             HHHHHTTCGGGGHHHH
T ss_pred             HHHHHCCCHHHHHHHH
Confidence            5555556655555444

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

Probab=98.75  E-value=3e-07  Score=70.52  Aligned_cols=157  Identities=8%  Similarity=-0.080  Sum_probs=125.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+...|.+.|++++|.+.|.+..+.. ..+...|..+...|...|.++.+.+.....   .+.+..++..+...+...
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~   89 (225)
T 2vq2_A           11 KTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGR   89 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHh
Confidence            4566778999999999999999988754 235788999999999999888887654332   234678899999999999


Q ss_pred             -CcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccc
Q 043265           79 -GAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        79 -g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~  154 (245)
                       |++++|.+.++.+.+ .+..|+ ...+..+..+|.+.|++++|...|++.. . +.+...|..+...+...|+.+.|..
T Consensus        90 ~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  168 (225)
T 2vq2_A           90 LNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDADY  168 (225)
T ss_dssp             TCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             cCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHH
Confidence             999999999999876 344443 6778899999999999999999998774 2 3357788888889999999888776


Q ss_pred             cc--cccc
Q 043265          155 SS--SLRL  160 (245)
Q Consensus       155 ~~--~~~~  160 (245)
                      ..  +++.
T Consensus       169 ~~~~~~~~  176 (225)
T 2vq2_A          169 YFKKYQSR  176 (225)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            65  4443

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

Probab=98.75  E-value=5.2e-08  Score=81.14  Aligned_cols=92  Identities=7%  Similarity=-0.030  Sum_probs=56.1

Q ss_pred             HHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCC
Q 043265           72 ITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGL  149 (245)
Q Consensus        72 l~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~  149 (245)
                      ...+.+.|++++|.++|+++.+...-.++..+|..+...|.+.|++++|...|++.. . +.+..+|+.+-..|...|+.
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            344444455555555555444321111246677888888888888888888887763 2 34567788888888888888


Q ss_pred             ccccccc--ccccccc
Q 043265          150 LLGEPSS--SLRLSNK  163 (245)
Q Consensus       150 ~~~~~~~--~~~~~~~  163 (245)
                      +.|...+  ++++.|+
T Consensus       264 ~~A~~~~~~al~~~p~  279 (365)
T 4eqf_A          264 EEAVEAYTRALEIQPG  279 (365)
T ss_dssp             HHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhcCCC
Confidence            8777666  5555443

>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=98.74  E-value=1.5e-07  Score=76.53  Aligned_cols=223  Identities=12%  Similarity=0.038  Sum_probs=129.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh-hHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccC
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLK-LLEAGKRFEND--GVRP-NWSTFVGVITACGCFG   79 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~-~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g   79 (245)
                      .+...+.+.|++++|..+|.++.+..- .+...|..+-..|...| .++.|.+....  ...| +...|..+...+...|
T Consensus        61 ~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~  139 (330)
T 3hym_B           61 VHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVES  139 (330)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcc
Confidence            345566667777777777777665431 23456666666666666 66666554332  2223 4566777778888888


Q ss_pred             cHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           80 AVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++++|.+.|+...+.   .| +...+..+...|.+.|++++|...|++.. . +.+...|..+...+...|+.+.|...+
T Consensus       140 ~~~~A~~~~~~a~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  216 (330)
T 3hym_B          140 EHDQAMAAYFTAAQL---MKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWF  216 (330)
T ss_dssp             CHHHHHHHHHHHHHH---TTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh---ccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHH
Confidence            888888888777552   22 34556667788888888888888887663 2 334667777778888888888777666


Q ss_pred             --ccccccccccCCcccccccccccCchhhhhcccccchHHHHHHHHhhc----CCCCCe---EEeeccccccCchhhHH
Q 043265          157 --SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLIS----TPPGRT---LRIKKNLRICGECHNFI  227 (245)
Q Consensus       157 --~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~----~~~~~~---~~l~~~~~~~g~~~~a~  227 (245)
                        +++..+........|+.......+-..      ....++...|...+.    .-|...   ..+-..|.+.|+.+.|.
T Consensus       217 ~~a~~~~~~~~~~~~~~~~~~~~~~la~~------~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~  290 (330)
T 3hym_B          217 LDALEKIKAIGNEVTVDKWEPLLNNLGHV------CRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAV  290 (330)
T ss_dssp             HHHHHHHTTTSCSCTTTTCCHHHHHHHHH------HHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhhhccccccccHHHHHHHHHHHH------HHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHH
Confidence              555444332221112211111111111      111122222222111    122222   22455567789999999


Q ss_pred             HHhhhhcCc
Q 043265          228 KKLSSIENR  236 (245)
Q Consensus       228 ~~~~~~~~~  236 (245)
                      +.|++..+.
T Consensus       291 ~~~~~al~~  299 (330)
T 3hym_B          291 DYFHTALGL  299 (330)
T ss_dssp             HHHHTTTTT
T ss_pred             HHHHHHHcc
Confidence            999987654

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

Probab=98.73  E-value=5.2e-07  Score=70.22  Aligned_cols=158  Identities=9%  Similarity=-0.057  Sum_probs=98.2

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g   79 (245)
                      ..+-..|.+.|++++|.+.|.+..+.. ..+...+..+...|...|.++.|.+..+..   .+.+...+..+...+.+.|
T Consensus        61 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  139 (243)
T 2q7f_A           61 INFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLE  139 (243)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhc
Confidence            344556667777777777777766543 224566666667777777666665543221   2235566677777777777


Q ss_pred             cHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc-
Q 043265           80 AVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS-  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~-  156 (245)
                      ++++|.+.+++..+.  ...+...+..+...|.+.|++++|...|++.. . +.+..+|..+...+...|+.+.|.... 
T Consensus       140 ~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  217 (243)
T 2q7f_A          140 QPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLD  217 (243)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            777777777766542  11245566677777777777777777776653 1 334566666667777777777766555 


Q ss_pred             -ccccccc
Q 043265          157 -SLRLSNK  163 (245)
Q Consensus       157 -~~~~~~~  163 (245)
                       ++++.|+
T Consensus       218 ~~~~~~p~  225 (243)
T 2q7f_A          218 KAIDIQPD  225 (243)
T ss_dssp             HHHHHCTT
T ss_pred             HHHccCcc
Confidence             4444443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=98.73  E-value=2.9e-07  Score=72.37  Aligned_cols=159  Identities=13%  Similarity=-0.029  Sum_probs=121.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC----CCC-cHhhHHHHHHHhc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG----VRP-NWSTFVGVITACG   76 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~----~~p-~~~t~~~ll~~~~   76 (245)
                      |..+-..|.+.|++++|.+.|.++.+.+- .+...|..+...|...|.++.|.+.....    ..| +...+..+...+.
T Consensus        74 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~  152 (252)
T 2ho1_A           74 HAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSL  152 (252)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHH
Confidence            44566788899999999999999877642 36778888888898888888887654332    334 5677888888999


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccc
Q 043265           77 CFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~  154 (245)
                      ..|++++|.+.|++..+. . ..+...+..+...|.+.|+.++|...|+... . +.+...|..+...+...|+.+.|..
T Consensus       153 ~~g~~~~A~~~~~~~~~~-~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  230 (252)
T 2ho1_A          153 QMKKPAQAKEYFEKSLRL-N-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAAS  230 (252)
T ss_dssp             HTTCHHHHHHHHHHHHHH-C-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhc-C-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHH
Confidence            999999999999988663 1 2246778889999999999999999998763 2 3456677777788888888888776


Q ss_pred             cc--ccccccc
Q 043265          155 SS--SLRLSNK  163 (245)
Q Consensus       155 ~~--~~~~~~~  163 (245)
                      ..  +.++.|+
T Consensus       231 ~~~~~~~~~p~  241 (252)
T 2ho1_A          231 YGLQLKRLYPG  241 (252)
T ss_dssp             HHHHHHHHCTT
T ss_pred             HHHHHHHHCCC
Confidence            55  5554443

>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=98.70  E-value=2.2e-07  Score=68.93  Aligned_cols=159  Identities=8%  Similarity=-0.023  Sum_probs=125.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+-..+.+.|++++|.+.|+++.+.. ..+...+..+...+...|.++.+....+..   .+.+...+..+...+...
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPDNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHh
Confidence            3455677889999999999999987643 246788889999999999888887654332   234678889999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      |++++|.+.++.....  ...+...+..+..+|.+.|++++|...|++..  .+.+...|..+...+...|+.+.|....
T Consensus        90 ~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999988763  22356788899999999999999999998764  2445778888889999999998887766


Q ss_pred             --ccccccc
Q 043265          157 --SLRLSNK  163 (245)
Q Consensus       157 --~~~~~~~  163 (245)
                        ++++.|+
T Consensus       168 ~~~~~~~~~  176 (186)
T 3as5_A          168 KKANELDEG  176 (186)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHcCCC
Confidence              5555443

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

Probab=98.69  E-value=4.6e-07  Score=69.47  Aligned_cols=158  Identities=7%  Similarity=-0.131  Sum_probs=123.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh-hhHHHHHHHHhcC----CCC-cHhhHHHHHHHh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL-KLLEAGKRFENDG----VRP-NWSTFVGVITAC   75 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~-~~~~~~~~~~~~~----~~p-~~~t~~~ll~~~   75 (245)
                      |..+...|...|++++|.+.|.+..+.. ..+..++..+...|... |.++.+....+..    ..| +...+..+..++
T Consensus        45 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  123 (225)
T 2vq2_A           45 WLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICS  123 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHH
Confidence            4556778899999999999999998754 23678899999999999 9888887654332    223 367889999999


Q ss_pred             cccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-C-CcHHHHHHHHHHHHhCCCCcc
Q 043265           76 GCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-D-ASSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~-~~~~~~~~li~~~~~~g~~~~  151 (245)
                      ...|++++|...|++..+.   .| +...+..+..+|.+.|+.++|...|+... . + .+...|..+...+...|+.+.
T Consensus       124 ~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  200 (225)
T 2vq2_A          124 AKQGQFGLAEAYLKRSLAA---QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQA  200 (225)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHH
Confidence            9999999999999988663   33 47788899999999999999999998774 2 3 466777777788888888887


Q ss_pred             ccccc--ccccccc
Q 043265          152 GEPSS--SLRLSNK  163 (245)
Q Consensus       152 ~~~~~--~~~~~~~  163 (245)
                      +....  +.+..|+
T Consensus       201 a~~~~~~~~~~~p~  214 (225)
T 2vq2_A          201 AYEYEAQLQANFPY  214 (225)
T ss_dssp             HHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhCCC
Confidence            76555  3344443

>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=98.68  E-value=1.2e-06  Score=61.04  Aligned_cols=124  Identities=11%  Similarity=0.071  Sum_probs=99.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |+.+...|.+.|++++|.++|.++.+.+. .+...|..+...+...|.++.+....+..   .+.+...+..+...+...
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHh
Confidence            56778889999999999999999987642 36778888888888888888876653322   234577888899999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      |++++|.++++++...  ...+...+..+...|.+.|+.++|...|+++.
T Consensus        83 ~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           83 GDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            9999999999988663  12356778889999999999999999998763

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

Probab=98.66  E-value=2.1e-07  Score=72.93  Aligned_cols=158  Identities=12%  Similarity=0.057  Sum_probs=123.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CC----c----HhhHHHH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RP----N----WSTFVGV   71 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p----~----~~t~~~l   71 (245)
                      |..+-..+.+.|++++|.+.|.+..+..  ++...|..+-..|...|.++.|.......+  .|    +    ..+|..+
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l   85 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARI   85 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHH
Confidence            4556678889999999999999998887  788899999999999998888876533321  12    2    5788999


Q ss_pred             HHHhcccCcHHHHHHHHHHhhhhcC-----------------------CCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           72 ITACGCFGAVDEGFQHFESVTRDYD-----------------------INP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        72 l~~~~~~g~~~~a~~~~~~m~~~~~-----------------------~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      -..+...|++++|.+.|+.......                       ..| +...|..+...|.+.|++++|...|++.
T Consensus        86 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  165 (258)
T 3uq3_A           86 GNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEM  165 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999999999999998865211                       333 3566788889999999999999999877


Q ss_pred             C--CCCcHHHHHHHHHHHHhCCCCccccccc--ccccc
Q 043265          128 Q--IDASSVVWETLEKYAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       128 ~--~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      .  .+.+..+|..+-..+...|+.+.|...+  +++..
T Consensus       166 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          166 IKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            4  2445778888888888999988877666  54443

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

Probab=98.66  E-value=2.3e-08  Score=85.67  Aligned_cols=139  Identities=14%  Similarity=0.096  Sum_probs=89.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAV   81 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~   81 (245)
                      .+.++.+|++.|++++++++|+       .|+..+|+.+-..|...|.++.|...-...     ..|..+..++.+.|++
T Consensus        97 ~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~LA~~L~~Lg~y  164 (449)
T 1b89_A           97 ETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEY  164 (449)
T ss_dssp             ------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----TCHHHHHHHHHTTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHHHHHHHHhccH
Confidence            4567889999999999998885       378889999999999999999998876643     5899999999999999


Q ss_pred             HHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCccccccc--ccc
Q 043265           82 DEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSS--SLR  159 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~  159 (245)
                      ++|.+.+..+       .++.+|..++.+|...|+++.|......+...|+..  ..++..|.+.|.++.+....  +++
T Consensus       165 q~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad~l--~~lv~~Yek~G~~eEai~lLe~aL~  235 (449)
T 1b89_A          165 QAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADEL--EELINYYQDRGYFEELITMLEAALG  235 (449)
T ss_dssp             HHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHH--HHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHhhH--HHHHHHHHHCCCHHHHHHHHHHHhC
Confidence            9999999866       167899999999999999999987777666566653  36888999999888875444  555


Q ss_pred             cc
Q 043265          160 LS  161 (245)
Q Consensus       160 ~~  161 (245)
                      +.
T Consensus       236 le  237 (449)
T 1b89_A          236 LE  237 (449)
T ss_dssp             ST
T ss_pred             Cc
Confidence            54

>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=98.59  E-value=2.4e-07  Score=76.79  Aligned_cols=159  Identities=9%  Similarity=-0.006  Sum_probs=102.1

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g   79 (245)
                      ..+-..|.+.|++++|...|.++.+.. +.+..+|..+...|.+.|.++.|....+..   -+.+..++..+...|...|
T Consensus        68 ~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g  146 (368)
T 1fch_A           68 FEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNES  146 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcC
Confidence            344566677777777777777776653 235566677777777777666665542221   1235566666666666666


Q ss_pred             cHHHHHHHHHHhhhhcC----------------------------------------------CCc---chHHHHHHHHH
Q 043265           80 AVDEGFQHFESVTRDYD----------------------------------------------INP---TLEHFLGIVDL  110 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~----------------------------------------------~~p---~~~~~~~li~~  110 (245)
                      ++++|.+.|+.+.....                                              ..|   +..++..+..+
T Consensus       147 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~  226 (368)
T 1fch_A          147 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  226 (368)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHH
Confidence            66666666665533110                                              122   36677788888


Q ss_pred             HhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc--cccccc
Q 043265          111 YGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSN  162 (245)
Q Consensus       111 y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~  162 (245)
                      |.+.|++++|...|++.. . +.+..+|..+...+...|+.+.|...+  ++++.|
T Consensus       227 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  282 (368)
T 1fch_A          227 FNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP  282 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            888888888888887763 2 335677888888888888888877666  555443

>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=98.57  E-value=2e-06  Score=69.82  Aligned_cols=158  Identities=7%  Similarity=-0.126  Sum_probs=91.4

Q ss_pred             hHHHHHHHHcC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhccc
Q 043265            3 NSELKHLCRER-EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         3 n~ll~~~~~~g-~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~   78 (245)
                      ..+-..|...| ++++|.+.|.+.....- .+...|..+...+...|.++.|.+.....  ..| +...+..+...|...
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHHTTCT-TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            34455666667 77777777777665431 23456666777777777666665543221  112 344555566666667


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C----------CCcHHHHHHHHHHHHhCC
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I----------DASSVVWETLEKYAQTEP  147 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~----------~~~~~~~~~li~~~~~~g  147 (245)
                      |++++|.+.+++..+.  ...+...+..+...|.+.|++++|...|++.. .          ..+..+|..+-..+...|
T Consensus       173 ~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  250 (330)
T 3hym_B          173 NNSKLAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLK  250 (330)
T ss_dssp             TCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhc
Confidence            7777777777666431  11234566666667777777777766665442 0          222456666666666666


Q ss_pred             CCccccccc--ccccccc
Q 043265          148 GLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       148 ~~~~~~~~~--~~~~~~~  163 (245)
                      +.+.|...+  ++++.|+
T Consensus       251 ~~~~A~~~~~~a~~~~~~  268 (330)
T 3hym_B          251 KYAEALDYHRQALVLIPQ  268 (330)
T ss_dssp             CHHHHHHHHHHHHHHSTT
T ss_pred             CHHHHHHHHHHHHhhCcc
Confidence            666666555  4444444

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.57  E-value=2.5e-06  Score=63.79  Aligned_cols=159  Identities=9%  Similarity=0.012  Sum_probs=125.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CC-CCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GV-RPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~-~p~~~t~~~ll~~~~~~   78 (245)
                      |..+=..|.+.|++++|++.|++..+.+- -+...|..+-..|.+.|.++.+......  .. +-+...+..+-..+...
T Consensus         8 y~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (184)
T 3vtx_A            8 YMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTSAEAYYILGSANFMI   86 (184)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHc
Confidence            44555778899999999999999887642 2578889999999999988888765332  22 33566777777888999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      ++++.|.+.+......   .| +...+..+-.+|.+.|++++|...|++.. ..| +...|..+-..+...|+.+.|...
T Consensus        87 ~~~~~a~~~~~~a~~~---~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~~~  163 (184)
T 3vtx_A           87 DEKQAAIDALQRAIAL---NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAVKY  163 (184)
T ss_dssp             TCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999987652   33 46778899999999999999999998774 344 567788888999999999998877


Q ss_pred             c--cccccccc
Q 043265          156 S--SLRLSNKK  164 (245)
Q Consensus       156 ~--~~~~~~~~  164 (245)
                      +  ++++.|+.
T Consensus       164 ~~~al~~~p~~  174 (184)
T 3vtx_A          164 FKKALEKEEKK  174 (184)
T ss_dssp             HHHHHHTTHHH
T ss_pred             HHHHHhCCccC
Confidence            7  77766643

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

Probab=98.55  E-value=3e-07  Score=76.47  Aligned_cols=161  Identities=11%  Similarity=-0.030  Sum_probs=118.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCC---------CCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC---cHhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIF---------LDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP---NWST   67 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~---------p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p---~~~t   67 (245)
                      |+.+...|.+.|++++|.+.|.++.+.+-.         .....+..+...|.+.|.++.|.+..+..  ..|   +..+
T Consensus       136 ~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  215 (365)
T 4eqf_A          136 LMALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDL  215 (365)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHH
T ss_pred             HHHHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHH
Confidence            566778899999999999999998764310         01233344567788888888887653331  223   6889


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHh
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQT  145 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~  145 (245)
                      +..+...|.+.|++++|.+.|++..+.  ...+..+|..+..+|.+.|++++|...|++.. ..| +..+|..+-..|..
T Consensus       216 ~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  293 (365)
T 4eqf_A          216 QTGLGVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCIN  293 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHH
Confidence            999999999999999999999998663  12357789999999999999999999998774 344 47888888899999


Q ss_pred             CCCCccccccc--cccccccc
Q 043265          146 EPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       146 ~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .|+.+.|...+  ++++.|+.
T Consensus       294 ~g~~~~A~~~~~~al~~~~~~  314 (365)
T 4eqf_A          294 LGAYREAVSNFLTALSLQRKS  314 (365)
T ss_dssp             HTCCHHHHHHHHHHHHHHHCC
T ss_pred             CCCHHHHHHHHHHHHHhCccc
Confidence            99999988777  77766654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.55  E-value=2e-07  Score=80.72  Aligned_cols=222  Identities=10%  Similarity=-0.000  Sum_probs=153.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--C-CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--G-VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~-~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+-..|.+.|++++|.+.|.++.+.+  |+...|..+...|...|.++.+......  . .+.+...+..+...|...
T Consensus       240 ~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  317 (514)
T 2gw1_A          240 LEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFIL  317 (514)
T ss_dssp             HHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHh
Confidence            3456678899999999999999998765  4488888999999998887777665333  2 233677899999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      |++++|...|+...+.  ...+...+..+...|.+.|++++|...|+... . +.+..+|..+-..+...|+.+.|....
T Consensus       318 ~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  395 (514)
T 2gw1_A          318 QNYDQAGKDFDKAKEL--DPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQY  395 (514)
T ss_dssp             TCTTHHHHHHHHHHHT--CSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--ChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999988652  12256788999999999999999999998774 2 345678888889999999999887766


Q ss_pred             --ccccccccccCCcccccccccccCchhhhhcccccc---hHHHHHHHHhhcC----CCCCe---EEeeccccccCchh
Q 043265          157 --SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYR---SERLAVAYGLIST----PPGRT---LRIKKNLRICGECH  224 (245)
Q Consensus       157 --~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~---~~~l~~a~~l~~~----~~~~~---~~l~~~~~~~g~~~  224 (245)
                        +++..|+..........  +..       .......   .+....|...+..    .|...   ..+-..|.+.|+.+
T Consensus       396 ~~a~~~~~~~~~~~~~~~~--~~~-------l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~  466 (514)
T 2gw1_A          396 DLAIELENKLDGIYVGIAP--LVG-------KATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDID  466 (514)
T ss_dssp             HHHHHHHHTSSSCSSCSHH--HHH-------HHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhccchHHHHHHH--HHH-------HHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHH
Confidence              55555444111100001  000       0001112   2333333332221    22222   23556677889999


Q ss_pred             hHHHHhhhhcCc
Q 043265          225 NFIKKLSSIENR  236 (245)
Q Consensus       225 ~a~~~~~~~~~~  236 (245)
                      .|...|++..+.
T Consensus       467 ~A~~~~~~a~~~  478 (514)
T 2gw1_A          467 EAITLFEESADL  478 (514)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999876553

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.54  E-value=1.4e-08  Score=82.07  Aligned_cols=161  Identities=12%  Similarity=0.028  Sum_probs=121.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc-------CCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc----------C-CCC
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI-------GIFLDSPDIIELLNVCMDLKLLEAGKRFEND----------G-VRP   63 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~-------g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~----------~-~~p   63 (245)
                      |..+-..|...|++++|..+|.++.+.       ........+..+-..|...|.++.|......          + .+.
T Consensus        30 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  109 (311)
T 3nf1_A           30 LHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPA  109 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChH
Confidence            556778899999999999999998763       2223456788888888888888887664222          2 223


Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhc-----CCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-------
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDY-----DINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-------  129 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-------  129 (245)
                      ...++..+...|...|++++|.+.|++..+..     +-.| ....+..+-..|.+.|++++|...|++.. .       
T Consensus       110 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  189 (311)
T 3nf1_A          110 VAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGP  189 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCT
T ss_pred             HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCC
Confidence            46788999999999999999999999886521     2223 45678889999999999999999987663 1       


Q ss_pred             -CCc-HHHHHHHHHHHHhCCCCccccccc--cccccc
Q 043265          130 -DAS-SVVWETLEKYAQTEPGLLLGEPSS--SLRLSN  162 (245)
Q Consensus       130 -~~~-~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~  162 (245)
                       .|+ ..+|..+-..+...|+.+.|...+  ++++.+
T Consensus       190 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  226 (311)
T 3nf1_A          190 DDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAH  226 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence             232 456777778999999999987776  555433

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

Probab=98.54  E-value=7.2e-07  Score=72.68  Aligned_cols=150  Identities=9%  Similarity=-0.041  Sum_probs=107.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDS--PDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~   83 (245)
                      |+..-..|++++|+..+++....  .|+.  .....+.++|...|.++.+..-.+..-+|+..++..+...+...|+.++
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHH
Confidence            44556678888888887765432  3433  3445667788888888887755444566778888888888888888888


Q ss_pred             HHHHHHHhhhhcCCCcch-HHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCccccccc--cccc
Q 043265           84 GFQHFESVTRDYDINPTL-EHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSS--SLRL  160 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p~~-~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~  160 (245)
                      |.+.++++.. .+..|+. ..+..+-.+|.+.|++++|.+.+++   ..+...+..+...+...|+.+.|...+  +++.
T Consensus        84 A~~~l~~ll~-~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~---~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A           84 IVAELDREMS-RSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ---GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHHHHH-SCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT---CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh-cccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            8888888765 3555643 4455556888888888888888887   446667777778888888888877665  4444


Q ss_pred             c
Q 043265          161 S  161 (245)
Q Consensus       161 ~  161 (245)
                      .
T Consensus       160 ~  160 (291)
T 3mkr_A          160 D  160 (291)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=98.53  E-value=5.6e-07  Score=70.02  Aligned_cols=152  Identities=13%  Similarity=0.035  Sum_probs=109.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+-..+.+.|++++|..+|++..+.. ..+...+..+...|...|.++.+....+..   .+.+...+..+...+...
T Consensus        26 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~  104 (243)
T 2q7f_A           26 GGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVK  104 (243)
T ss_dssp             ----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHh
Confidence            4455567888999999999999998743 236788888999999999888887654332   233678889999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      |++++|.+++++..+.  ...+...+..+...|.+.|++++|...+++.. . +.+...|..+...+...|+.+.|...+
T Consensus       105 ~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  182 (243)
T 2q7f_A          105 EMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEALSQF  182 (243)
T ss_dssp             TCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999988763  22356788899999999999999999998774 2 446778888888999999998877665

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

Probab=98.48  E-value=1.3e-06  Score=68.36  Aligned_cols=158  Identities=9%  Similarity=-0.001  Sum_probs=121.3

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCC----HHHHHHHHHHhhhhhhHHHHHHHHhcC---------------
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIG--IFLD----SPDIIELLNVCMDLKLLEAGKRFENDG---------------   60 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g--~~p~----~~t~~~ll~~~~~~~~~~~~~~~~~~~---------------   60 (245)
                      |..+-..|.+.|++++|.+.|.+..+..  ..|+    ..+|..+-..|...|.++.|.......               
T Consensus        41 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  120 (258)
T 3uq3_A           41 LNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRTADILTKLRN  120 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCchhHHHHHHhH
Confidence            4556678889999999999999987542  1223    578888888888888888776542221               


Q ss_pred             -------------CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           61 -------------VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        61 -------------~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                                   ..| +...+..+...+...|++++|.+.|+.....  ...+...|..+..+|.+.|++++|...|+.
T Consensus       121 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          121 AEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence                         223 4567888889999999999999999998763  123567899999999999999999999987


Q ss_pred             cC-C-CCcHHHHHHHHHHHHhCCCCccccccc--ccccc
Q 043265          127 MQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       127 m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      .. . +.+...|..+-..+...|+.+.|....  ++++.
T Consensus       199 al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          199 AIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            74 2 345778888889999999998887666  55554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.47  E-value=1e-05  Score=62.65  Aligned_cols=156  Identities=14%  Similarity=0.126  Sum_probs=83.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhccc---
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCF---   78 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~---   78 (245)
                      +-..+.+.|++++|...|++..+.. +.+...|..+-..+.+.|.++.|....+..  ..| +...+..+-..+...   
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            3345556666666666666655432 123555555556666666665555443321  223 344555555555555   


Q ss_pred             --------CcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCC
Q 043265           79 --------GAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPG  148 (245)
Q Consensus        79 --------g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~  148 (245)
                              |++++|...|+...+   +.|+ ...|..+-.+|...|++++|...|++.- ...+...|..+-..+...|+
T Consensus        90 ~~~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la~~~~~~g~  166 (217)
T 2pl2_A           90 AEDRERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAELYLSMGR  166 (217)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTC
T ss_pred             hhhhcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHHHHHHHcCC
Confidence                    666666666665543   2332 3455555566666666666666665442 11445555555555666666


Q ss_pred             Cccccccc--cccccccc
Q 043265          149 LLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       149 ~~~~~~~~--~~~~~~~~  164 (245)
                      .+.|...+  ++++.|+.
T Consensus       167 ~~~A~~~~~~al~~~P~~  184 (217)
T 2pl2_A          167 LDEALAQYAKALEQAPKD  184 (217)
T ss_dssp             HHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHHHhCCCC
Confidence            66555544  55554443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.46  E-value=1.9e-06  Score=70.48  Aligned_cols=159  Identities=11%  Similarity=0.111  Sum_probs=120.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC-HH-HHHHHHHHhhhhhhHHHHHHHHhcCCC--C-cHhhHHHHHHHh-
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLD-SP-DIIELLNVCMDLKLLEAGKRFENDGVR--P-NWSTFVGVITAC-   75 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~-~~-t~~~ll~~~~~~~~~~~~~~~~~~~~~--p-~~~t~~~ll~~~-   75 (245)
                      |..+...+.+.|++++|.++|++..+.  .|+ .. .|..+...+.+.|.++.|.......+.  | +...|....... 
T Consensus       102 ~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~  179 (308)
T 2ond_A          102 YFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEY  179 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            556777888999999999999999874  454 33 799999999999999998876554332  3 344444333332 


Q ss_pred             cccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC----CCC--cHHHHHHHHHHHHhCCCC
Q 043265           76 GCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ----IDA--SSVVWETLEKYAQTEPGL  149 (245)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~----~~~--~~~~~~~li~~~~~~g~~  149 (245)
                      ...|+.++|.++|+...+..+  -+...|..+++.+.+.|+.++|..+|++.-    +.|  ....|..++......|+.
T Consensus       180 ~~~~~~~~A~~~~~~al~~~p--~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~  257 (308)
T 2ond_A          180 YCSKDKSVAFKIFELGLKKYG--DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  257 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHT--TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC--CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            236999999999998865322  256788999999999999999999998774    244  367899999999999999


Q ss_pred             ccccccc--cccccccc
Q 043265          150 LLGEPSS--SLRLSNKK  164 (245)
Q Consensus       150 ~~~~~~~--~~~~~~~~  164 (245)
                      +.+..+.  +++..|+.
T Consensus       258 ~~a~~~~~~a~~~~p~~  274 (308)
T 2ond_A          258 ASILKVEKRRFTAFREE  274 (308)
T ss_dssp             HHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHcccc
Confidence            8887776  77777754

>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=98.46  E-value=1.1e-06  Score=72.89  Aligned_cols=159  Identities=10%  Similarity=0.009  Sum_probs=117.3

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc----------------------
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND----------------------   59 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~----------------------   59 (245)
                      |..+-..|.+.|++++|.+.|.++.+.+ +.+..++..+...|...|.++.|......                      
T Consensus       101 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (368)
T 1fch_A          101 WQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGA  179 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhh
Confidence            3455566777777777777777776653 23566677777777666665555433110                      


Q ss_pred             -----------------------------CCCC---cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHH
Q 043265           60 -----------------------------GVRP---NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLG  106 (245)
Q Consensus        60 -----------------------------~~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~  106 (245)
                                                   ...|   +..++..+...|.+.|++++|...|++....   .| +...|..
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~  256 (368)
T 1fch_A          180 GLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNK  256 (368)
T ss_dssp             ------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             cccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHH
Confidence                                         1123   4788999999999999999999999988652   34 4678999


Q ss_pred             HHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          107 IVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       107 li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      +...|.+.|++++|...|++.. . +.+...|..+-..|...|+.+.|...+  ++++.|+.
T Consensus       257 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  318 (368)
T 1fch_A          257 LGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKS  318 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999998874 3 345778888889999999999988776  66655544

>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=98.43  E-value=8.6e-06  Score=65.95  Aligned_cols=64  Identities=11%  Similarity=0.103  Sum_probs=34.9

Q ss_pred             chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc--ccccccc
Q 043265          100 TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       100 ~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      +...+..+...|.+.|++++|...|++.. . +.+..+|..+...+...|+.+.|...+  +++..|+
T Consensus       171 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  238 (327)
T 3cv0_A          171 DAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPG  238 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence            34555666666666666666666665542 1 223455555556666666666555544  4444443

>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=98.40  E-value=1.7e-06  Score=75.33  Aligned_cols=219  Identities=11%  Similarity=0.027  Sum_probs=153.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~   80 (245)
                      .+-..+...|++++|.+.|.+..+.  .|+...|..+-..|...|.++.+.......   .+.+..+|..+...+...|+
T Consensus       248 ~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  325 (537)
T 3fp2_A          248 YTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQD  325 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCC
Confidence            3446778889999999999999876  466888999999999999888887654332   23357889999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCccccccc-
Q 043265           81 VDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPSS-  156 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~~-  156 (245)
                      +++|.+.|+...+.   .| +...|..+..+|.+.|++++|...|++.. . +.+...|..+-..+...|+.+.|...+ 
T Consensus       326 ~~~A~~~~~~a~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  402 (537)
T 3fp2_A          326 YKNAKEDFQKAQSL---NPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYD  402 (537)
T ss_dssp             HHHHHHHHHHHHHH---CTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            99999999988763   23 45788999999999999999999998774 2 345678888889999999999988776 


Q ss_pred             -ccccccccccCCcccccccccccCchhhhhcccccch----------HHHHHHHHhhcC----CCCCe---EEeecccc
Q 043265          157 -SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRS----------ERLAVAYGLIST----PPGRT---LRIKKNLR  218 (245)
Q Consensus       157 -~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~----------~~l~~a~~l~~~----~~~~~---~~l~~~~~  218 (245)
                       ++++.|+...      .   ...+.............          ++...|...+..    -|...   ..+-..|.
T Consensus       403 ~a~~~~~~~~~------~---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~  473 (537)
T 3fp2_A          403 IAKRLEEVQEK------I---HVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKL  473 (537)
T ss_dssp             HHHHHHHHCSS------C---SSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCcchh------h---HHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence             6655544311      1   11110000000001111          444444443332    23222   23556677


Q ss_pred             ccCchhhHHHHhhhhcCc
Q 043265          219 ICGECHNFIKKLSSIENR  236 (245)
Q Consensus       219 ~~g~~~~a~~~~~~~~~~  236 (245)
                      +.|+.+.|.+.|++..+.
T Consensus       474 ~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          474 QMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh
Confidence            889999999999886553

>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=98.38  E-value=4.8e-07  Score=71.72  Aligned_cols=225  Identities=11%  Similarity=-0.022  Sum_probs=132.4

Q ss_pred             HcCCHHHHHHHHHHHHh-------cCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc----------CC-CCcHhhHHHHH
Q 043265           11 REREVKAALEVMDKLKN-------IGIFLDSPDIIELLNVCMDLKLLEAGKRFEND----------GV-RPNWSTFVGVI   72 (245)
Q Consensus        11 ~~g~~~~A~~lf~~m~~-------~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~----------~~-~p~~~t~~~ll   72 (245)
                      ..|++++|+++|++..+       .+-.....++..+-..|...|.++.|......          +- +....++..+-
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            34666666666666543       22223466788888888888888887664222          22 23467889999


Q ss_pred             HHhcccCcHHHHHHHHHHhhhhc-----CCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C--------CCc-HHHH
Q 043265           73 TACGCFGAVDEGFQHFESVTRDY-----DINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I--------DAS-SVVW  136 (245)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~--------~~~-~~~~  136 (245)
                      ..|...|++++|.+.|.+.....     .-.| ....|..+-..|...|++++|...|++.. .        .|+ ..+|
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            99999999999999999876521     1123 46778899999999999999999887663 1        232 4567


Q ss_pred             HHHHHHHHhCCCCccccccc--ccccccccccCCcccccccccccCchhhhhcccccchHHHHHHHHhhcCCCCC-e---
Q 043265          137 ETLEKYAQTEPGLLLGEPSS--SLRLSNKKKDAGYMPYTEYVLRDLDQEAKEKPQTYRSERLAVAYGLISTPPGR-T---  210 (245)
Q Consensus       137 ~~li~~~~~~g~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~a~~l~~~~~~~-~---  210 (245)
                      ..+-..+...|+.+.|....  ++++.++.......+....+...+..................+.......... +   
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVN  252 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHH
Confidence            77778899999999887776  55554433111122222222111111111111111111111121222111111 0   


Q ss_pred             ---EEeeccccccCchhhHHHHhhhhcC
Q 043265          211 ---LRIKKNLRICGECHNFIKKLSSIEN  235 (245)
Q Consensus       211 ---~~l~~~~~~~g~~~~a~~~~~~~~~  235 (245)
                         ..+-..|...|+.+.|.++|++..+
T Consensus       253 ~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          253 TTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               1245567788999999999987643

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.38  E-value=6.2e-06  Score=67.54  Aligned_cols=86  Identities=10%  Similarity=-0.001  Sum_probs=43.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCcHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGAVD   82 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~~~   82 (245)
                      -..+...|++++|.++|+++.+.. +.+...+..+...|...|.++.|.......   .+.+..++..+...+...|+++
T Consensus       127 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  205 (359)
T 3ieg_A          127 ALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHE  205 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            344555566666666666555432 123455555555555555555554432221   1224455555555555555555


Q ss_pred             HHHHHHHHhh
Q 043265           83 EGFQHFESVT   92 (245)
Q Consensus        83 ~a~~~~~~m~   92 (245)
                      +|.+.|+...
T Consensus       206 ~A~~~~~~a~  215 (359)
T 3ieg_A          206 LSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.36  E-value=3.7e-06  Score=72.63  Aligned_cols=152  Identities=9%  Similarity=0.003  Sum_probs=69.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~   80 (245)
                      .+...|.+.|++++|.+.|.+..+.+- .+...+..+...|.+.|.++.+.......   .+.+..++..+...+.+.|+
T Consensus       309 ~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  387 (514)
T 2gw1_A          309 HRGQMNFILQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKND  387 (514)
T ss_dssp             HHHHHHHHTTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCC
Confidence            344445555555555555555544321 13344555555555555555444332211   11234445555555555555


Q ss_pred             HHHHHHHHHHhhhhcCCCcc----hHHHHHHHHHHhc---cCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCcc
Q 043265           81 VDEGFQHFESVTRDYDINPT----LEHFLGIVDLYGR---LQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~y~~---~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~  151 (245)
                      +++|...++.+.....-.|+    ...|..+..+|.+   .|++++|...|+... . +.+..+|..+-..+...|+.+.
T Consensus       388 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~  467 (514)
T 2gw1_A          388 FDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDE  467 (514)
T ss_dssp             HHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHH
Confidence            55555555544331111111    2245555555555   555555555555442 1 2234444444455555555555


Q ss_pred             ccccc
Q 043265          152 GEPSS  156 (245)
Q Consensus       152 ~~~~~  156 (245)
                      |...+
T Consensus       468 A~~~~  472 (514)
T 2gw1_A          468 AITLF  472 (514)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.34  E-value=1.6e-05  Score=64.99  Aligned_cols=154  Identities=8%  Similarity=-0.042  Sum_probs=76.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC----cHhhHHHH---------
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP----NWSTFVGV---------   71 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p----~~~t~~~l---------   71 (245)
                      ..|.+.|++++|.+.|.+..+.. +-+...|..+-..|...|.++.|....+.  ...|    +...+..+         
T Consensus        45 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  123 (359)
T 3ieg_A           45 TVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRL  123 (359)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHH
Confidence            34444555555555555544332 11334445555555555555554443222  2223    22222222         


Q ss_pred             ---HHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhC
Q 043265           72 ---ITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTE  146 (245)
Q Consensus        72 ---l~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~  146 (245)
                         ...+...|++++|.++++...+.  ...+...+..+...|.+.|++++|...|++.. . +.+..+|..+-..+...
T Consensus       124 ~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~  201 (359)
T 3ieg_A          124 RSQALDAFDGADYTAAITFLDKILEV--CVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQL  201 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence               34555566666666666655432  11234555666666666666666666666552 2 23455555555666666


Q ss_pred             CCCccccccc--ccccccc
Q 043265          147 PGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       147 g~~~~~~~~~--~~~~~~~  163 (245)
                      |+.+.|...+  +++..|+
T Consensus       202 ~~~~~A~~~~~~a~~~~~~  220 (359)
T 3ieg_A          202 GDHELSLSEVRECLKLDQD  220 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTT
T ss_pred             CCHHHHHHHHHHHHhhCcc
Confidence            6666655544  4444333

>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=98.34  E-value=1.9e-06  Score=69.88  Aligned_cols=145  Identities=6%  Similarity=-0.015  Sum_probs=117.6

Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCcHHHHH
Q 043265            9 LCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGAVDEGF   85 (245)
Q Consensus         9 ~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~~~~a~   85 (245)
                      +...|++++|.+.|.++.+..- .+...+..+...|.+.|.++.|.+..+..   .+.+..++..+...+...|++++|.
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMNP-NDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            6677889999999999987642 36788999999999999999887754432   2335788999999999999999999


Q ss_pred             HHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-------------cHHHHHHHHHHHHhCCCCcc
Q 043265           86 QHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-------------SSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        86 ~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-------------~~~~~~~li~~~~~~g~~~~  151 (245)
                      +.|++..+.  ...+...|..+..+|.+.|++++|...|++.. ..|             +..+|..+..++...|+.+.
T Consensus       227 ~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  304 (327)
T 3cv0_A          227 DAYNRALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDL  304 (327)
T ss_dssp             HHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHH
Confidence            999988652  12256788999999999999999999998763 223             46788888899999999988


Q ss_pred             ccccc
Q 043265          152 GEPSS  156 (245)
Q Consensus       152 ~~~~~  156 (245)
                      |....
T Consensus       305 A~~~~  309 (327)
T 3cv0_A          305 VELTY  309 (327)
T ss_dssp             HHHHT
T ss_pred             HHHHH
Confidence            77655

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.32  E-value=1.7e-05  Score=61.37  Aligned_cols=149  Identities=13%  Similarity=0.002  Sum_probs=113.9

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh-----------hhHHHHHHHHhcC--CCC-cHhhH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL-----------KLLEAGKRFENDG--VRP-NWSTF   68 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~-----------~~~~~~~~~~~~~--~~p-~~~t~   68 (245)
                      ..+-..+.+.|++++|+..|++..+.. +-+...|..+-..+.+.           |.++.|....+..  ..| +...+
T Consensus        43 ~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~  121 (217)
T 2pl2_A           43 YWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLH  121 (217)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHH
Confidence            445567889999999999999998764 23567888888999999           9999987764443  345 46788


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhC
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTE  146 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~  146 (245)
                      ..+-..+...|++++|...|++..+ ..  .+...+..+-.+|...|++++|...|++.- ..| +...+..+-..+...
T Consensus       122 ~~lg~~~~~~g~~~~A~~~~~~al~-~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~  198 (217)
T 2pl2_A          122 LQRGLVYALLGERDKAEASLKQALA-LE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLK  198 (217)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH-HC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHh-cc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc
Confidence            8888999999999999999999877 45  678889999999999999999999998874 344 567788888888898


Q ss_pred             CCCcccccc
Q 043265          147 PGLLLGEPS  155 (245)
Q Consensus       147 g~~~~~~~~  155 (245)
                      |+.+.|...
T Consensus       199 g~~~~A~~~  207 (217)
T 2pl2_A          199 GKAEEAARA  207 (217)
T ss_dssp             ---------
T ss_pred             cCHHHHHHH
Confidence            988886543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.30  E-value=9.8e-06  Score=64.06  Aligned_cols=120  Identities=10%  Similarity=-0.151  Sum_probs=76.3

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CC-cHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RP-NWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p-~~~t~~~ll~~~~~~   78 (245)
                      |..+-..|...|++++|.+.|.+..+.+- .+..+|..+-..|...|.++.|....+..+  .| +...+..+...|.+.
T Consensus        46 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~  124 (275)
T 1xnf_A           46 LYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYG  124 (275)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHh
Confidence            34555667777888888888887766532 256777777777777777777766533321  23 466777777777778


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                      |++++|.+.|+.+.+   ..|+.......+..+.+.|+.++|...|.
T Consensus       125 g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A          125 GRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             TCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            888888877777754   23444444444444455566666666663

>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=98.29  E-value=4.3e-05  Score=56.18  Aligned_cols=124  Identities=10%  Similarity=-0.015  Sum_probs=101.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+...|.+.|++++|.+.|++..+.. ..+...|..+...+...|.++.+.+..+..   .+.+...+..+...+...
T Consensus        45 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~  123 (186)
T 3as5_A           45 ALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNL  123 (186)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHc
Confidence            4556778899999999999999998763 346788888999999999988887654332   345678889999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      |++++|.+.+++..+.  ...+...+..+...|.+.|+.++|...|+...
T Consensus       124 ~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  171 (186)
T 3as5_A          124 GRFDEAIDSFKIALGL--RPNEGKVHRAIAFSYEQMGRHEEALPHFKKAN  171 (186)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999999998763  12356788999999999999999999998763

>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=98.27  E-value=7.6e-06  Score=56.88  Aligned_cols=119  Identities=13%  Similarity=0.065  Sum_probs=93.7

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHh
Q 043265           36 DIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYG  112 (245)
Q Consensus        36 t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~  112 (245)
                      .|..+...+...|.++.+....+..   .+.+...+..+...+...|++++|..+|+++... . ..+...+..+...|.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH-C-CCchHHHHHHHHHHH
Confidence            5677778888888888887653332   2346778888999999999999999999998763 2 235677889999999


Q ss_pred             ccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265          113 RLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       113 ~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +.|++++|...|+.+.  .+.+..+|..+...+...|+.+.|...+
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  126 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYY  126 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHH
Confidence            9999999999998774  2345778888889999999988876655

>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=98.27  E-value=2.3e-05  Score=60.57  Aligned_cols=141  Identities=11%  Similarity=0.033  Sum_probs=108.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAV   81 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~   81 (245)
                      .=..+.+.|++++|.+.|.+..+..-.++...+..+-.++.+.|.++.|.+....  ...| +...|..+-..|...|++
T Consensus        13 ~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~   92 (228)
T 4i17_A           13 EGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYRDMKNN   92 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHcccH
Confidence            3456788999999999999998876546777777788888888999888775433  2344 567888999999999999


Q ss_pred             HHHHHHHHHhhhhcCCCcc-h-------HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc---HHHHHHHHHHHHhCCC
Q 043265           82 DEGFQHFESVTRDYDINPT-L-------EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS---SVVWETLEKYAQTEPG  148 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~-~-------~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~---~~~~~~li~~~~~~g~  148 (245)
                      ++|.+.|++..+.   .|+ .       ..|..+=..+.+.|++++|...|++.- ..|+   ...|..+-..+...|.
T Consensus        93 ~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~  168 (228)
T 4i17_A           93 QEYIATLTEGIKA---VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFYNNGA  168 (228)
T ss_dssp             HHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHH
Confidence            9999999988663   343 3       457778888999999999999998875 5666   3555555566655443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.26  E-value=2e-06  Score=69.18  Aligned_cols=126  Identities=12%  Similarity=0.084  Sum_probs=95.9

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc------CCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc----------CCCC-
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI------GIFL-DSPDIIELLNVCMDLKLLEAGKRFEND----------GVRP-   63 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~------g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~----------~~~p-   63 (245)
                      ++.+-..|...|++++|.+.|.+....      +-.| ...++..+-..|...|.++.|......          +-.| 
T Consensus        72 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  151 (311)
T 3nf1_A           72 LNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPD  151 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChH
Confidence            456677889999999999999998754      2222 356788888888888888887664222          2223 


Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhc-----CCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDY-----DINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ....+..+-..+...|++++|.++|+......     +-.| ...++..+..+|.+.|++++|...|++.
T Consensus       152 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  221 (311)
T 3nf1_A          152 VAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEI  221 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45678889999999999999999999886520     2233 3467889999999999999999988755

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.26  E-value=1.7e-05  Score=62.64  Aligned_cols=156  Identities=12%  Similarity=0.033  Sum_probs=115.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCcH----hhHHHHHHHhccc
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPNW----STFVGVITACGCF   78 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~~----~t~~~ll~~~~~~   78 (245)
                      .-..+.+.|++++|++.|.+..+..- .+...|..+...|.+.|.++.|.......  ..++.    .+|..+-..+...
T Consensus         9 ~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~   87 (272)
T 3u4t_A            9 YADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKK   87 (272)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHc
Confidence            34677889999999999999987642 23447888888999999888886653322  12333    3488999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      |++++|.+.|+...+.   .| +...|..+-..|.+.|++++|...|++.- ..| +...|..+-..+...++.+.|...
T Consensus        88 ~~~~~A~~~~~~a~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  164 (272)
T 3u4t_A           88 GQDSLAIQQYQAAVDR---DTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSS  164 (272)
T ss_dssp             TCHHHHHHHHHHHHHH---STTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhc---CcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999988663   23 45789999999999999999999998875 344 455566555244455677777766


Q ss_pred             c--cccccccc
Q 043265          156 S--SLRLSNKK  164 (245)
Q Consensus       156 ~--~~~~~~~~  164 (245)
                      +  ++++.|+.
T Consensus       165 ~~~a~~~~p~~  175 (272)
T 3u4t_A          165 FVKVLELKPNI  175 (272)
T ss_dssp             HHHHHHHSTTC
T ss_pred             HHHHHHhCccc
Confidence            6  66655543

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.24  E-value=2e-05  Score=72.18  Aligned_cols=158  Identities=12%  Similarity=0.092  Sum_probs=129.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc-HhhHHHHHHHhcc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN-WSTFVGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~-~~t~~~ll~~~~~   77 (245)
                      |+.|=..|.+.|++++|++.|++..+..  | +...|..+-.+|.+.|.+++|.+..+.  .+.|+ ...|..+-.+|..
T Consensus        12 l~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg~~l~~   89 (723)
T 4gyw_A           12 LNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKE   89 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            5566678999999999999999988753  4 478899999999999999998776443  34554 7889999999999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCccccc
Q 043265           78 FGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~~~~  154 (245)
                      .|++++|.+.|++..+   +.|+ ...|+.+-.+|.+.|++++|...|++.- +.|+ ...|..+...+...|+++.|..
T Consensus        90 ~g~~~~A~~~~~kAl~---l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~~  166 (723)
T 4gyw_A           90 MQDVQGALQCYTRAIQ---INPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYDE  166 (723)
T ss_dssp             TTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHHH
T ss_pred             cCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHHH
Confidence            9999999999998765   3454 6789999999999999999999998763 4554 6788888899999999999877


Q ss_pred             cc--cccccccc
Q 043265          155 SS--SLRLSNKK  164 (245)
Q Consensus       155 ~~--~~~~~~~~  164 (245)
                      ..  ++++.++.
T Consensus       167 ~~~kal~l~~~~  178 (723)
T 4gyw_A          167 RMKKLVSIVADQ  178 (723)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHhChhH
Confidence            66  66665554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.20  E-value=5.7e-06  Score=65.43  Aligned_cols=143  Identities=11%  Similarity=-0.054  Sum_probs=111.1

Q ss_pred             HcCCHHHHHHHHHHHHhcCCC--C-CHHHHHHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhcccCcHHHH
Q 043265           11 REREVKAALEVMDKLKNIGIF--L-DSPDIIELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus        11 ~~g~~~~A~~lf~~m~~~g~~--p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      ..|++++|++.|+++.+....  | +..+|..+-..|...|.++.|....+..  . +.+..+|..+...|...|++++|
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            457899999999999876431  1 4677888888899999998887764432  2 33588999999999999999999


Q ss_pred             HHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           85 FQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        85 ~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      .+.|+...+.   .| +...|..+..+|.+.|++++|...|++.. ..|+...+...+..+...|+.+.|....
T Consensus        97 ~~~~~~al~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  167 (275)
T 1xnf_A           97 YEAFDSVLEL---DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVL  167 (275)
T ss_dssp             HHHHHHHHHH---CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHhc---CccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999988762   33 56789999999999999999999998874 4566555555555556667777766555

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.17  E-value=1.5e-05  Score=69.32  Aligned_cols=156  Identities=9%  Similarity=-0.048  Sum_probs=116.6

Q ss_pred             HHHHHHHcCCH-HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcHhhHHHHHHHhccc---
Q 043265            5 ELKHLCREREV-KAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPNWSTFVGVITACGCF---   78 (245)
Q Consensus         5 ll~~~~~~g~~-~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~~t~~~ll~~~~~~---   78 (245)
                      +=..|...|++ ++|++.|.+..+..- -+...|..+-..|.+.|.++.|.+..+.  ...|+...+..+-..|...   
T Consensus       108 lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~~~~~~  186 (474)
T 4abn_A          108 KGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLRQLQTD  186 (474)
T ss_dssp             HHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCCS
T ss_pred             HHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhccC
Confidence            33556677888 889998888876531 2467888888888888888888765332  4567778888888888888   


Q ss_pred             ------CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhcc--------CCHHHHHHHHHhcC-CCC----cHHHHHH
Q 043265           79 ------GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRL--------QKIAEAREFIRNMQ-IDA----SSVVWET  138 (245)
Q Consensus        79 ------g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~--------g~~~~a~~~~~~m~-~~~----~~~~~~~  138 (245)
                            |++++|.+.|++..+   +.| +...|..+-.+|.+.        |++++|...|++.. ..|    +...|..
T Consensus       187 ~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~  263 (474)
T 4abn_A          187 SGDEHSRHVMDSVRQAKLAVQ---MDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLN  263 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHH
T ss_pred             ChhhhhhhHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHH
Confidence                  888889888888765   234 466778888888887        88888888887764 345    5677777


Q ss_pred             HHHHHHhCCCCccccccc--cccccccc
Q 043265          139 LEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       139 li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      +-.+|...|+.+.|...+  ++++.|+.
T Consensus       264 lg~~~~~~g~~~~A~~~~~~al~l~p~~  291 (474)
T 4abn_A          264 RATLHKYEESYGEALEGFSQAAALDPAW  291 (474)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            778888888888887776  66666554

>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=98.11  E-value=1.2e-05  Score=63.56  Aligned_cols=126  Identities=11%  Similarity=0.062  Sum_probs=96.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc------CCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhcC-----------CCC
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI------GIFL-DSPDIIELLNVCMDLKLLEAGKRFENDG-----------VRP   63 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~------g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~-----------~~p   63 (245)
                      |+.+-..|...|++++|++.|.+..+.      +-.| ...+|..+-..|...|.++.|.......           .+.
T Consensus        46 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  125 (283)
T 3edt_B           46 LNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPD  125 (283)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            456678889999999999999998754      2223 3567888888899999888886652221           123


Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhc-----CCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDY-----DINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ...++..+-..|...|++++|.++|++.....     +-.| ...++..+-.+|.+.|++++|...|++.
T Consensus       126 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  195 (283)
T 3edt_B          126 VAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI  195 (283)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            46788999999999999999999999886520     1133 3567889999999999999999988654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.09  E-value=2.9e-05  Score=68.14  Aligned_cols=158  Identities=10%  Similarity=0.086  Sum_probs=119.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC-H-HHHHHHHHHhhhhhhHHHHHHHHhcCC--CCc-HhhHHHHHH-Hh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLD-S-PDIIELLNVCMDLKLLEAGKRFENDGV--RPN-WSTFVGVIT-AC   75 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~-~-~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p~-~~t~~~ll~-~~   75 (245)
                      |..+...+.+.|++++|.++|++..+.  .|+ . ..|..+...+.+.|.++.|.++....+  .|+ ...|..... .+
T Consensus       324 ~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~  401 (530)
T 2ooe_A          324 YFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEY  401 (530)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            456677888999999999999999884  454 2 589999998889999999988755433  332 222322221 23


Q ss_pred             cccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC----CCCc--HHHHHHHHHHHHhCCC
Q 043265           76 GCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ----IDAS--SVVWETLEKYAQTEPG  148 (245)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~----~~~~--~~~~~~li~~~~~~g~  148 (245)
                      ...|+.++|..+|+...+.   .| +...|..+++.+.+.|+.++|..+|++.-    ..|+  ...|...+.....+|+
T Consensus       402 ~~~~~~~~A~~~~e~al~~---~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~  478 (530)
T 2ooe_A          402 YCSKDKSVAFKIFELGLKK---YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  478 (530)
T ss_dssp             HHTCCHHHHHHHHHHHHHH---HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSC
T ss_pred             HHcCChhHHHHHHHHHHHH---CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCC
Confidence            3589999999999987653   24 46789999999999999999999998763    2232  4589999999999999


Q ss_pred             Cccccccc--cccccccc
Q 043265          149 LLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       149 ~~~~~~~~--~~~~~~~~  164 (245)
                      .+.+..+.  +++..|+.
T Consensus       479 ~~~~~~~~~r~~~~~p~~  496 (530)
T 2ooe_A          479 LASILKVEKRRFTAFREE  496 (530)
T ss_dssp             HHHHHHHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHHHHHCchh
Confidence            99888777  66776643

>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=98.00  E-value=0.00017  Score=54.83  Aligned_cols=124  Identities=10%  Similarity=0.041  Sum_probs=96.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC---CCcHhhHHHHHHHhcccCcH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV---RPNWSTFVGVITACGCFGAV   81 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~---~p~~~t~~~ll~~~~~~g~~   81 (245)
                      +-..+.+.|++++|.+.|.+.    +.|+...|..+-..|.+.|.++.|.......+   +.+...|..+-.+|...|++
T Consensus        12 ~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A           12 EGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcccH
Confidence            345677889999999999877    46788899999999999998888876543322   34577888899999999999


Q ss_pred             HHHHHHHHHhhhhcC-------------CCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc
Q 043265           82 DEGFQHFESVTRDYD-------------INP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS  132 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~-------------~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~  132 (245)
                      ++|.+.|+...+...             ..| ....+..+-.+|.+.|++++|...|+... ..|+
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            999999998865211             112 22677888999999999999999998763 4554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=97.99  E-value=6.7e-05  Score=65.19  Aligned_cols=146  Identities=10%  Similarity=0.022  Sum_probs=115.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh---------hhHHHHHHHHhcC--CCC-cHhhHH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL---------KLLEAGKRFENDG--VRP-NWSTFV   69 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~---------~~~~~~~~~~~~~--~~p-~~~t~~   69 (245)
                      |+.+-..|.+.|++++|.+.|++..+..  |+...+..+-..|...         |.+++|.+..+..  ..| +...|.
T Consensus       140 ~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  217 (474)
T 4abn_A          140 WNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWY  217 (474)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHH
Confidence            4566778999999999999999998764  7788899999999998         9998887764432  234 578889


Q ss_pred             HHHHHhccc--------CcHHHHHHHHHHhhhhcCCCc----chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHH
Q 043265           70 GVITACGCF--------GAVDEGFQHFESVTRDYDINP----TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVV  135 (245)
Q Consensus        70 ~ll~~~~~~--------g~~~~a~~~~~~m~~~~~~~p----~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~  135 (245)
                      .+-.+|...        |++++|.+.|+...+   +.|    +...|..+-.+|.+.|++++|...|++.. ..|+ ...
T Consensus       218 ~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a  294 (474)
T 4abn_A          218 ILGNAYLSLYFNTGQNPKISQQALSAYAQAEK---VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEP  294 (474)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH---HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHH
Confidence            999999888        999999999998866   245    67889999999999999999999998763 3444 555


Q ss_pred             HHHHHHHHHhCCCCccc
Q 043265          136 WETLEKYAQTEPGLLLG  152 (245)
Q Consensus       136 ~~~li~~~~~~g~~~~~  152 (245)
                      |..+-..+...|+.+.+
T Consensus       295 ~~~l~~~~~~lg~~~eA  311 (474)
T 4abn_A          295 QQREQQLLEFLSRLTSL  311 (474)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66666666665555443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.97  E-value=3.1e-05  Score=62.73  Aligned_cols=163  Identities=7%  Similarity=-0.077  Sum_probs=112.0

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CCCCC-HHHHHHHHHHhhhhhhHHHHHHHHhcCC--------CC-cHhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GIFLD-SPDIIELLNVCMDLKLLEAGKRFENDGV--------RP-NWST   67 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~--------~p-~~~t   67 (245)
                      |+-....|...|++++|.+.|.+....    |-.++ ..+|+.+-.+|.+.|.++.|.......+        .+ -..+
T Consensus        40 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  119 (292)
T 1qqe_A           40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (292)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            344556788899999999999987543    32222 4688888899988888888766432211        11 1457


Q ss_pred             HHHHHHHhccc-CcHHHHHHHHHHhhhhc---CCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH--------
Q 043265           68 FVGVITACGCF-GAVDEGFQHFESVTRDY---DINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS--------  133 (245)
Q Consensus        68 ~~~ll~~~~~~-g~~~~a~~~~~~m~~~~---~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~--------  133 (245)
                      ++.+-..|... |++++|...|++..+-.   +-.+. ..+|..+-..|.+.|++++|...|++.. ..|+.        
T Consensus       120 ~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  199 (292)
T 1qqe_A          120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (292)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHH
Confidence            88888899996 99999999998775411   10011 3568889999999999999999998763 23321        


Q ss_pred             HHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          134 VVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       134 ~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ..|..+-..+...|+.+.|...+  ++++.|..
T Consensus       200 ~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~  232 (292)
T 1qqe_A          200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNF  232 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC----
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            14566666777889988887766  66655543

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=97.96  E-value=9.1e-05  Score=64.36  Aligned_cols=116  Identities=10%  Similarity=0.035  Sum_probs=46.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ..|.+.|++++|.+.|.+..+..- .+..+|..+-..|...|.++.|....+..  ..| +...|..+...+...|++++
T Consensus       284 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~  362 (537)
T 3fp2_A          284 LTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTE  362 (537)
T ss_dssp             HHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            334444444444444444443321 12344444444444444444443322111  111 23344444444444444444


Q ss_pred             HHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHH
Q 043265           84 GFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIR  125 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~  125 (245)
                      |.++|++..+.  ...+...+..+...|.+.|++++|...|+
T Consensus       363 A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  402 (537)
T 3fp2_A          363 SEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYD  402 (537)
T ss_dssp             HHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            44444444331  01122334444444444444444444443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=97.92  E-value=0.00025  Score=57.70  Aligned_cols=143  Identities=6%  Similarity=-0.069  Sum_probs=108.4

Q ss_pred             HcCCH-------HHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcH-h-hHHHHHHHhccc
Q 043265           11 REREV-------KAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRFEND--GVRPNW-S-TFVGVITACGCF   78 (245)
Q Consensus        11 ~~g~~-------~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~-~-t~~~ll~~~~~~   78 (245)
                      +.|++       ++|..+|++..+. +.| +...|..+...+.+.|.++.|....+.  .+.|+. . .|..+...+.+.
T Consensus        69 ~~g~~~~~~~~~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~  147 (308)
T 2ond_A           69 EKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRA  147 (308)
T ss_dssp             HTSCCHHHHHHHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHH
T ss_pred             hccchhhcccchHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHh
Confidence            45876       8999999998873 234 466899999999999999988876444  355653 3 799999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHH-hccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLY-GRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y-~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      |++++|..+|+...+..  .++...|....... ...|+.++|..+|++.- . +.+...|..++..+...|+.+.|..+
T Consensus       148 ~~~~~A~~~~~~a~~~~--p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~  225 (308)
T 2ond_A          148 EGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVL  225 (308)
T ss_dssp             HCHHHHHHHHHHHHTST--TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999886521  12344454443332 23699999999998773 2 33678899999999999999988776


Q ss_pred             c
Q 043265          156 S  156 (245)
Q Consensus       156 ~  156 (245)
                      +
T Consensus       226 ~  226 (308)
T 2ond_A          226 F  226 (308)
T ss_dssp             H
T ss_pred             H
Confidence            6

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=97.84  E-value=0.00063  Score=50.39  Aligned_cols=129  Identities=12%  Similarity=0.066  Sum_probs=99.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CC-CCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GV-RPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~-~p~~~t~~~ll~~~~~~   78 (245)
                      |..+-..|.+.|++++|.+.+........ -+...+..+-..+...+.++.+......  .. +-+...+..+-..+.+.
T Consensus        42 ~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~  120 (184)
T 3vtx_A           42 LLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSM  120 (184)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHh
Confidence            44566788999999999999999877643 2456666676777777777777665332  22 33577888899999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHH
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSV  134 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~  134 (245)
                      |++++|.+.|++..+.   .| +...|..+-.+|.+.|+.++|...|++.- ..|+..
T Consensus       121 g~~~~A~~~~~~~l~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          121 GEHDKAIEAYEKTISI---KPGFIRAYQSIGLAYEGKGLRDEAVKYFKKALEKEEKKA  175 (184)
T ss_dssp             TCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTHHHH
T ss_pred             CCchhHHHHHHHHHHh---cchhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhCCccCH
Confidence            9999999999988662   34 46788999999999999999999998763 456543

>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=97.83  E-value=0.00047  Score=49.79  Aligned_cols=125  Identities=5%  Similarity=-0.017  Sum_probs=86.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+-..+.+.|++++|...|.+..+.. ..+...|..+-..+...|.++.+.......   .+.+...|..+-.++.+.
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~   94 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   94 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHh
Confidence            3445567788899999999999987653 235677888888888888888776653332   233567788888888889


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      |++++|...|++..+...-.+....+-.+...+.+.|++++|...+...
T Consensus        95 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           95 GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            9999999998887653222222222234445577788888888877654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.80  E-value=0.00038  Score=56.95  Aligned_cols=73  Identities=12%  Similarity=0.032  Sum_probs=32.2

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCC-----cHhhHHHHHHHhcccCcHHHHHHHHHHh
Q 043265           18 ALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRP-----NWSTFVGVITACGCFGAVDEGFQHFESV   91 (245)
Q Consensus        18 A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p-----~~~t~~~ll~~~~~~g~~~~a~~~~~~m   91 (245)
                      |+..|++....+ .++..++..+-.++...|.+++|.+....++.+     +...+..++..+.+.|+.+.|.+.++.|
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            344444444333 233333344444444445555554443333222     2333444444555555555555555544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=97.79  E-value=0.00028  Score=61.83  Aligned_cols=146  Identities=8%  Similarity=-0.082  Sum_probs=108.0

Q ss_pred             cCCHH-------HHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc-H-hhHHHHHHHhcccCc
Q 043265           12 EREVK-------AALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN-W-STFVGVITACGCFGA   80 (245)
Q Consensus        12 ~g~~~-------~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~-~-~t~~~ll~~~~~~g~   80 (245)
                      .|+++       +|..+|++..+.-.+-+...|..+...+.+.|.++.+..+.+.  .+.|+ . ..|......+.+.|+
T Consensus       292 ~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~  371 (530)
T 2ooe_A          292 KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEG  371 (530)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcC
Confidence            68877       8999999987632223588899999999999999988776443  34564 2 479999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCcc-hHHHHHHHH-HHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc
Q 043265           81 VDEGFQHFESVTRDYDINPT-LEHFLGIVD-LYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~-~~~~~~li~-~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +++|.++|+...+.   .|+ ...|-.... .|...|+.++|..+|+..- ..| +...|..++......|+.+.|..++
T Consensus       372 ~~~A~~~~~~Al~~---~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~  448 (530)
T 2ooe_A          372 IKSGRMIFKKARED---ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLF  448 (530)
T ss_dssp             HHHHHHHHHHHHTC---TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc---cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHH
Confidence            99999999988663   232 222222222 2346899999999998653 234 5789999999999999999888776


Q ss_pred             --cccc
Q 043265          157 --SLRL  160 (245)
Q Consensus       157 --~~~~  160 (245)
                        ++..
T Consensus       449 ~~al~~  454 (530)
T 2ooe_A          449 ERVLTS  454 (530)
T ss_dssp             HHHHHS
T ss_pred             HHHHhc
Confidence              4443

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.78  E-value=0.00056  Score=54.18  Aligned_cols=145  Identities=10%  Similarity=0.022  Sum_probs=95.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh----hhhHHHHHHHHhcCCC-CcHhhHHHHHHHhcc--
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMD----LKLLEAGKRFENDGVR-PNWSTFVGVITACGC--   77 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~~~~~~~~~~~-p~~~t~~~ll~~~~~--   77 (245)
                      +=..|.+.|++++|.+.|.+..+.+   +...+..+-..|..    .++++.|....+..+. -+...+..+-..|..  
T Consensus        12 lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~   88 (273)
T 1ouv_A           12 LGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQ   88 (273)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCC
Confidence            3456677788888888888887743   44566667777777    6666666554222111 156677777777777  


Q ss_pred             --cCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhc----cCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----CC
Q 043265           78 --FGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGR----LQKIAEAREFIRNMQIDASSVVWETLEKYAQT----EP  147 (245)
Q Consensus        78 --~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~----~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~----~g  147 (245)
                        .+++++|.+.|+...+ .+   +...+..+-..|.+    .|+.++|...|++.-...+...+..+-..+..    .+
T Consensus        89 ~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~  164 (273)
T 1ouv_A           89 GVSQNTNKALQYYSKACD-LK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLNDGDGCTILGSLYDAGRGTPK  164 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCC
T ss_pred             CcccCHHHHHHHHHHHHH-cC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCCCCCC
Confidence              8888888888887765 33   56677777788887    88888888888765312244555555555655    56


Q ss_pred             CCccccccc
Q 043265          148 GLLLGEPSS  156 (245)
Q Consensus       148 ~~~~~~~~~  156 (245)
                      +.+.|...+
T Consensus       165 ~~~~A~~~~  173 (273)
T 1ouv_A          165 DLKKALASY  173 (273)
T ss_dssp             CHHHHHHHH
T ss_pred             CHHHHHHHH
Confidence            666655444

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=97.77  E-value=0.0004  Score=52.68  Aligned_cols=126  Identities=10%  Similarity=-0.028  Sum_probs=100.5

Q ss_pred             HHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCC
Q 043265           37 IIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQK  116 (245)
Q Consensus        37 ~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~  116 (245)
                      +..+-..+...|.++.|.......+.|+...|..+-..|.+.|++++|.+.|+...+. . ..+...|..+-.+|.+.|+
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~-~~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR-D-KHLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-C-ccchHHHHHHHHHHHHccc
Confidence            4445556677899999998888888999999999999999999999999999988652 1 2356788899999999999


Q ss_pred             HHHHHHHHHhcC-CCCc-----------------HHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          117 IAEAREFIRNMQ-IDAS-----------------SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       117 ~~~a~~~~~~m~-~~~~-----------------~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      +++|...|++.. ..|+                 ...|..+-.++...|+.+.|...+  ++++.|+.
T Consensus        87 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           87 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            999999998763 2221                 266777778889999999888777  66666544

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

Probab=97.76  E-value=0.001  Score=45.15  Aligned_cols=91  Identities=13%  Similarity=0.088  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLY  111 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y  111 (245)
                      ..|..+...+...|.++.+.+.....   .+.+..++..+...+.+.|++++|..+|+.+...  ...+..++..+...|
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHH
Confidence            34444444444444444443332111   1224556666777777778888888887777552  122456677777888


Q ss_pred             hccCCHHHHHHHHHhc
Q 043265          112 GRLQKIAEAREFIRNM  127 (245)
Q Consensus       112 ~~~g~~~~a~~~~~~m  127 (245)
                      .+.|++++|...|++.
T Consensus        88 ~~~~~~~~A~~~~~~~  103 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKA  103 (125)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHH
Confidence            8888888888887765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.75  E-value=0.0017  Score=50.88  Aligned_cols=143  Identities=8%  Similarity=-0.040  Sum_probs=105.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC--HHHHHHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLD--SPDIIELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACG   76 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~--~~t~~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~   76 (245)
                      |..+-..|.+.|++++|++.|.+..+.+-.|+  ...|..+-..|...|.++.|.......  . +.+...+..+-..|.
T Consensus        40 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~  119 (272)
T 3u4t_A           40 YNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFY  119 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHH
Confidence            45667789999999999999999988442222  345888888899999998887754332  2 235678999999999


Q ss_pred             ccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHH-HHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCC
Q 043265           77 CFGAVDEGFQHFESVTRDYDINP-TLEHFLGIV-DLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPG  148 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li-~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~  148 (245)
                      ..|++++|.+.|++..+   ..| +...|..+- ..|.+ +++++|...|++.. ..|+ ...|..+-..+...|+
T Consensus       120 ~~~~~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~  191 (272)
T 3u4t_A          120 NKGNFPLAIQYMEKQIR---PTTTDPKVFYELGQAYYYN-KEYVKADSSFVKVLELKPNIYIGYLWRARANAAQDP  191 (272)
T ss_dssp             HTTCHHHHHHHHGGGCC---SSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHST
T ss_pred             HccCHHHHHHHHHHHhh---cCCCcHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCc
Confidence            99999999999998855   345 455666666 55554 59999999998774 3444 5556666666666565

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.75  E-value=0.00082  Score=53.19  Aligned_cols=146  Identities=8%  Similarity=-0.066  Sum_probs=96.3

Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh----hhhHHHHHHHHhcCCC-CcHhhHHHHHHH
Q 043265            4 SELKHLCR----EREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMD----LKLLEAGKRFENDGVR-PNWSTFVGVITA   74 (245)
Q Consensus         4 ~ll~~~~~----~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~~~~~~~~~~~-p~~~t~~~ll~~   74 (245)
                      .+-..|.+    .+++++|.+.|.+..+.+   +...+..+-..|..    .++++.+.+..+..+. -+...+..+-..
T Consensus        43 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~  119 (273)
T 1ouv_A           43 NLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGI  119 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHH
Confidence            34456667    888888888888887776   56677777777777    6666666554322211 156667777777


Q ss_pred             hcc----cCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhc----cCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHh-
Q 043265           75 CGC----FGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGR----LQKIAEAREFIRNMQIDASSVVWETLEKYAQT-  145 (245)
Q Consensus        75 ~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~----~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~-  145 (245)
                      |..    .+++++|...|+...+ .+   +...+..+-..|.+    .++.++|...|++..-..+...+..+-..|.. 
T Consensus       120 ~~~~~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g  195 (273)
T 1ouv_A          120 YHDGKVVTRDFKKAVEYFTKACD-LN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHG  195 (273)
T ss_dssp             HHHCSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHcCCCcccCHHHHHHHHHHHHh-cC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC
Confidence            777    7888888888887765 33   45566667777776    78888888888765312344555555566666 


Q ss_pred             ---CCCCccccccc
Q 043265          146 ---EPGLLLGEPSS  156 (245)
Q Consensus       146 ---~g~~~~~~~~~  156 (245)
                         .++.+.|...+
T Consensus       196 ~~~~~~~~~A~~~~  209 (273)
T 1ouv_A          196 EGATKNFKEALARY  209 (273)
T ss_dssp             CSSCCCHHHHHHHH
T ss_pred             CCCCccHHHHHHHH
Confidence               66766665544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=97.71  E-value=0.00018  Score=58.92  Aligned_cols=96  Identities=16%  Similarity=0.102  Sum_probs=69.1

Q ss_pred             hhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCC-CcchHHHHHHHHHHhccCCHHHHHHH
Q 043265           45 MDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDI-NPTLEHFLGIVDLYGRLQKIAEAREF  123 (245)
Q Consensus        45 ~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~y~~~g~~~~a~~~  123 (245)
                      ...++...++++...+ +++..++..+-.++...|++++|++++.+... .+- .-+...+..++..|.+.|+.+.|.+.
T Consensus        81 ~~~~a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~-~~~~~~~lea~~l~vqi~L~~~r~d~A~k~  158 (310)
T 3mv2_B           81 LDTKNIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGID-NDEAEGTTELLLLAIEVALLNNNVSTASTI  158 (310)
T ss_dssp             HTTTCCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT-SSCSTTHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcccHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhc-cCCCcCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3455677777766555 56666667888889999999999999987633 121 12567788899999999999999999


Q ss_pred             HHhcC-CCC-----cHHHHHHHHHH
Q 043265          124 IRNMQ-IDA-----SSVVWETLEKY  142 (245)
Q Consensus       124 ~~~m~-~~~-----~~~~~~~li~~  142 (245)
                      +++|. ..|     +..+..-|..+
T Consensus       159 l~~~~~~~~d~~~~~d~~l~~Laea  183 (310)
T 3mv2_B          159 FDNYTNAIEDTVSGDNEMILNLAES  183 (310)
T ss_dssp             HHHHHHHSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCccccccchHHHHHHHHH
Confidence            99886 456     24555555544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.70  E-value=0.0003  Score=56.83  Aligned_cols=142  Identities=11%  Similarity=0.005  Sum_probs=97.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhh-hhHHHHHHHHhcCCC--C------c-Hh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDL-KLLEAGKRFENDGVR--P------N-WS   66 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~-~~~~~~~~~~~~~~~--p------~-~~   66 (245)
                      |+.+-..|.+.|++++|+..|++..+.    |-.+ -..+|+.+-..|... |.++.|....+..+.  |      . ..
T Consensus        80 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~  159 (292)
T 1qqe_A           80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHH
Confidence            455667888999999999999987543    2111 135788888888885 888887665332211  1      1 35


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhhcCCC-cch-----HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHH-----
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRDYDIN-PTL-----EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSV-----  134 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~-p~~-----~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~-----  134 (245)
                      +++.+-..+.+.|++++|...|++..+. ... +..     ..|..+..+|...|+.++|...|++.. +.|+..     
T Consensus       160 ~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~  238 (292)
T 1qqe_A          160 CFIKCADLKALDGQYIEASDIYSKLIKS-SMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRES  238 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT-TSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------H
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH-HhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHH
Confidence            6888999999999999999999988662 222 221     156778889999999999999998874 445422     


Q ss_pred             -HHHHHHHHHH
Q 043265          135 -VWETLEKYAQ  144 (245)
Q Consensus       135 -~~~~li~~~~  144 (245)
                       .+..++.++.
T Consensus       239 ~~l~~l~~~~~  249 (292)
T 1qqe_A          239 NFLKSLIDAVN  249 (292)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence             2344555554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.69  E-value=0.00041  Score=55.97  Aligned_cols=133  Identities=9%  Similarity=-0.059  Sum_probs=98.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCC-Cc----HhhHHHHHHHhcccC
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVR-PN----WSTFVGVITACGCFG   79 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~-p~----~~t~~~ll~~~~~~g   79 (245)
                      ....+...|++++|.++|..+...+  |+....-.+-..+.+.+.++++....+.... |+    ...+..+=.++.+.|
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG  185 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLA  185 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCC
Confidence            3467888999999999999987754  6544444444567788999999887654433 32    235667777899999


Q ss_pred             cHHHHHHHHHHhhhhcCCCcc--hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHH
Q 043265           80 AVDEGFQHFESVTRDYDINPT--LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLE  140 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li  140 (245)
                      ++++|++.|++... ....|.  .......-.++.+.|+.++|..+|+++. ..|+...+.+|.
T Consensus       186 ~~~eAl~~l~~a~~-g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~~~~~~aL~  248 (282)
T 4f3v_A          186 LFTEAERRLTEAND-SPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPEPKVAAALK  248 (282)
T ss_dssp             CHHHHHHHHHHHHT-STTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHhc-CCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHh
Confidence            99999999998864 344354  3355677888999999999999999985 467755555553

>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=97.65  E-value=0.00051  Score=60.73  Aligned_cols=141  Identities=9%  Similarity=-0.043  Sum_probs=75.4

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      .|++++|++.|++..+.. .-+...|..+-..|.+.|.+++|.+..+.  ...| +...+..+-..|...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            356677777777765432 12356666677777777777776655333  2233 3566667777777777777777777


Q ss_pred             HHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhC---CCCccccccc
Q 043265           89 ESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTE---PGLLLGEPSS  156 (245)
Q Consensus        89 ~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~---g~~~~~~~~~  156 (245)
                      ++..+.   .| +...|..+-.+|.+.|+.++|.+.|++.- ..| +...|..+...+...   |+.+.|....
T Consensus        81 ~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~  151 (568)
T 2vsy_A           81 QQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQV  151 (568)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             HHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            766542   23 34566677777777777777777776653 223 455566666666666   5555554444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.63  E-value=0.0029  Score=43.12  Aligned_cols=110  Identities=16%  Similarity=0.096  Sum_probs=64.3

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHH
Q 043265           36 DIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLY  111 (245)
Q Consensus        36 t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y  111 (245)
                      .+..+-..+...|.++.|.......   .+.+...+..+...+...|++++|.+.++...+.   .| +...+..+-.+|
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICI---DPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc---CccCHHHHHHHHHHH
Confidence            3444444444444444443332211   1224556666667777777788888877776542   23 356677777788


Q ss_pred             hccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCC
Q 043265          112 GRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPG  148 (245)
Q Consensus       112 ~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~  148 (245)
                      .+.|++++|...|++.. ..| +...+..+-..+...|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhc
Confidence            88888888888887653 233 45556655566655544

>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=97.61  E-value=0.00068  Score=65.53  Aligned_cols=135  Identities=14%  Similarity=0.084  Sum_probs=97.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAV   81 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~   81 (245)
                      |.-++.+|.+.|++++|.+.|...++..  +++...+.+..+|++.+.++..+.+..   .|+...|..+=..|-..|++
T Consensus      1137 y~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~---~~n~ad~~~iGd~le~eg~Y 1211 (1630)
T 1xi4_A         1137 YMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMY 1211 (1630)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHh---CCCHHHHHHHHHHHHhcCCH
Confidence            3456778888888888988888776654  333334458888888888877766653   44666777788888889999


Q ss_pred             HHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCccccc
Q 043265           82 DEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~  154 (245)
                      ++|..+|...          ..|..+..+|.+.|++++|.+.+.+-.   +..+|.-+-.+|...|+++.|..
T Consensus      1212 eeA~~~Y~kA----------~ny~rLA~tLvkLge~q~AIEaarKA~---n~~aWkev~~acve~~Ef~LA~~ 1271 (1630)
T 1xi4_A         1212 DAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVDGARKAN---STRTWKEVCFACVDGKEFRLAQM 1271 (1630)
T ss_pred             HHHHHHHHhh----------hHHHHHHHHHHHhCCHHHHHHHHHHhC---CHHHHHHHHHHHhhhhHHHHHHH
Confidence            9999998753          378899999999999999999888765   45666655555555544444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.61  E-value=0.00044  Score=54.52  Aligned_cols=155  Identities=8%  Similarity=-0.099  Sum_probs=104.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-CC-HHHHHHHHHHhhhhhhHHHHHHHHhcCC--CC----cHhhHHHHHHHhcc-
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIF-LD-SPDIIELLNVCMDLKLLEAGKRFENDGV--RP----NWSTFVGVITACGC-   77 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~-p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p----~~~t~~~ll~~~~~-   77 (245)
                      ..+.+.|++++|.+.|.++.+..-. |. ...+..+-.+|.+.|.++.|....+.-+  .|    ....+..+-.++.. 
T Consensus        23 ~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~  102 (261)
T 3qky_A           23 MEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKL  102 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHh
Confidence            5677899999999999999876421 11 5677778888888898888866533321  22    24456666677777 


Q ss_pred             -------cCcHHHHHHHHHHhhhhcCCCcc-hHHH-----------------HHHHHHHhccCCHHHHHHHHHhcC-CCC
Q 043265           78 -------FGAVDEGFQHFESVTRDYDINPT-LEHF-----------------LGIVDLYGRLQKIAEAREFIRNMQ-IDA  131 (245)
Q Consensus        78 -------~g~~~~a~~~~~~m~~~~~~~p~-~~~~-----------------~~li~~y~~~g~~~~a~~~~~~m~-~~~  131 (245)
                             .|++++|...|++..+..   |+ ....                 -.+-..|.+.|++++|...|++.. ..|
T Consensus       103 ~~~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p  179 (261)
T 3qky_A          103 SPPYELDQTDTRKAIEAFQLFIDRY---PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYP  179 (261)
T ss_dssp             CCCTTSCCHHHHHHHHHHHHHHHHC---TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cccccccchhHHHHHHHHHHHHHHC---cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence                   999999999999987642   33 2233                 455788999999999999998873 234


Q ss_pred             c----HHHHHHHHHHHHhC----------CCCccccccc--cccccccc
Q 043265          132 S----SVVWETLEKYAQTE----------PGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       132 ~----~~~~~~li~~~~~~----------g~~~~~~~~~--~~~~~~~~  164 (245)
                      +    ...+..+-.+|...          |+.+.|...+  +++.+|+.
T Consensus       180 ~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~  228 (261)
T 3qky_A          180 DTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDS  228 (261)
T ss_dssp             TSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             CCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCC
Confidence            3    23455555666554          4455555544  55544443

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=97.58  E-value=0.00076  Score=56.97  Aligned_cols=159  Identities=7%  Similarity=0.032  Sum_probs=122.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhh-HHHHHHHHhcC--CCC-cHhhHHHHHHHhcc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKL-LEAGKRFENDG--VRP-NWSTFVGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~-~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~   77 (245)
                      |+.+-..+.+.|++++|++.|++....+- -+...|+.+-.++.+.|. ++.|....+..  ..| +...|..+-.++.+
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            44555678889999999999999987542 257888888888988886 88887764443  334 57889999999999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHh-CCCCcccc
Q 043265           78 FGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQT-EPGLLLGE  153 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~-~g~~~~~~  153 (245)
                      .|++++|...|+...+   +.| +...|..+-.+|.+.|++++|...|++.- ..| +...|+.+-.++.. .|..+.|.
T Consensus       179 ~g~~~eAl~~~~kal~---ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          179 LRDPSQELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             ccCHHHHHHHHHHHHH---hCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHHH
Confidence            9999999999998865   345 56789999999999999999999998874 344 57788888888877 66656652


Q ss_pred             -----ccc--cccccccc
Q 043265          154 -----PSS--SLRLSNKK  164 (245)
Q Consensus       154 -----~~~--~~~~~~~~  164 (245)
                           ..+  ++++.|+.
T Consensus       256 ~~~el~~~~~Al~l~P~~  273 (382)
T 2h6f_A          256 LEREVQYTLEMIKLVPHN  273 (382)
T ss_dssp             HHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHHHHCCCC
Confidence                 222  66665554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.58  E-value=0.0023  Score=51.50  Aligned_cols=145  Identities=12%  Similarity=-0.018  Sum_probs=109.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CCcHhhHHHHHH-HhcccCcHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RPNWSTFVGVIT-ACGCFGAVD   82 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p~~~t~~~ll~-~~~~~g~~~   82 (245)
                      -..+.+.|++++|+..|++.....- -+...+..+-..+.+.|.+++|....+.-.  .|+......... .+.+.+..+
T Consensus       124 a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~~~~~  202 (287)
T 3qou_A          124 AMQLMQESNYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQAADT  202 (287)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhhcccC
Confidence            3567789999999999999887532 256788889999999999999988766543  455443322222 356677788


Q ss_pred             HHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc---HHHHHHHHHHHHhCCCCccccc
Q 043265           83 EGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS---SVVWETLEKYAQTEPGLLLGEP  154 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~---~~~~~~li~~~~~~g~~~~~~~  154 (245)
                      +|...+++....   .| +...+..+-..|...|+.++|...|.+.- ..|+   ...+..+...+...|+.+.+..
T Consensus       203 ~a~~~l~~al~~---~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~  276 (287)
T 3qou_A          203 PEIQQLQQQVAE---NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALAS  276 (287)
T ss_dssp             HHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHH
T ss_pred             ccHHHHHHHHhc---CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHH
Confidence            888888877552   34 46778899999999999999999998874 3443   6778999999999888776543

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

Probab=97.58  E-value=0.0021  Score=43.53  Aligned_cols=91  Identities=11%  Similarity=0.058  Sum_probs=61.6

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~   78 (245)
                      |..+-..+.+.|++++|.++|.++.+.. ..+..++..+...+.+.|.++.+....+..   .+.+..++..+...|...
T Consensus        12 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~   90 (125)
T 1na0_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQ   90 (125)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Confidence            3445566777788888888888776653 235667777777777777777765543322   233566777777778888


Q ss_pred             CcHHHHHHHHHHhhh
Q 043265           79 GAVDEGFQHFESVTR   93 (245)
Q Consensus        79 g~~~~a~~~~~~m~~   93 (245)
                      |++++|...|+++.+
T Consensus        91 ~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           91 GDYDEAIEYYQKALE  105 (125)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            888888888877654

>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=97.51  E-value=0.0015  Score=48.22  Aligned_cols=146  Identities=15%  Similarity=0.089  Sum_probs=103.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CCcHhhHHHHHHHh--cccCc
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RPNWSTFVGVITAC--GCFGA   80 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p~~~t~~~ll~~~--~~~g~   80 (245)
                      +-..+.+.|++++|...|++..+.. +-+...+..+-..+.+.|.++.|....+..+  .|+...+ .+....  ...+.
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~-~~~~~~~~~~~~~   89 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYK-SLIAKLELHQQAA   89 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHH-HHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHH-HHHHHHHHHhhcc
Confidence            3456889999999999999976542 1256788888899999999999988766543  3433322 222111  12222


Q ss_pred             HHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc---HHHHHHHHHHHHhCCCCcccccc
Q 043265           81 VDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS---SVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~---~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      ...|...++...+   ..| +...+..+-.+|.+.|+.++|...|++.- ..|+   ...|..+...+...|+.+.+...
T Consensus        90 ~~~a~~~~~~al~---~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~  166 (176)
T 2r5s_A           90 ESPELKRLEQELA---ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASK  166 (176)
T ss_dssp             SCHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHH
T ss_pred             cchHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHH
Confidence            3346777777654   345 46788899999999999999999998763 4554   55788888999998988876543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.51  E-value=0.0018  Score=51.98  Aligned_cols=151  Identities=8%  Similarity=-0.050  Sum_probs=103.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCC-H----HHHHHHHHHhhhhhhHHHHHHHHhcC-------CCCc--HhhHH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLD-S----PDIIELLNVCMDLKLLEAGKRFENDG-------VRPN--WSTFV   69 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~-~----~t~~~ll~~~~~~~~~~~~~~~~~~~-------~~p~--~~t~~   69 (245)
                      ..+..+...|++++|.+.+.+..+..-..+ .    ..+..+...+...|.++.|.......       ..+.  ..+|+
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            456778899999999999998776533211 1    12233334455556777776542221       1122  45889


Q ss_pred             HHHHHhcccCcHHHHHHHHHHhhh---hcCCCc--chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-------HHHH
Q 043265           70 GVITACGCFGAVDEGFQHFESVTR---DYDINP--TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-------SVVW  136 (245)
Q Consensus        70 ~ll~~~~~~g~~~~a~~~~~~m~~---~~~~~p--~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-------~~~~  136 (245)
                      .+-..|...|++++|...|++..+   ..+-.+  ...+|..+-.+|.+.|++++|...|++.- +.++       ..+|
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~  239 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            999999999999999999998762   222222  22588899999999999999999997652 1111       4567


Q ss_pred             HHHHHHHHhCCCCccc-cc
Q 043265          137 ETLEKYAQTEPGLLLG-EP  154 (245)
Q Consensus       137 ~~li~~~~~~g~~~~~-~~  154 (245)
                      ..+-..|...|+.+.| ..
T Consensus       240 ~~lg~~y~~~g~~~~Ai~~  258 (293)
T 2qfc_A          240 YQRGECLRKLEYEEAEIED  258 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHHcCCcHHHHHH
Confidence            7777888888988887 44

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.40  E-value=0.0026  Score=53.03  Aligned_cols=155  Identities=10%  Similarity=-0.042  Sum_probs=110.5

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc--------CCCCcHhhH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDLKLLEAGKRFEND--------GVRPNWSTF   68 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~--------~~~p~~~t~   68 (245)
                      ++.+=..|...|++++|.+.|.+..+.    |-.+ ...++..+-..|...|.++.|.+....        +.+....++
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  264 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHH
Confidence            345567788999999999999987642    2211 134677777788888888887664222        333447788


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhcC---CCcchHHHHHHHHHHhccCC---HHHHHHHHHhcCCCCcHH-HHHHHHH
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDYD---INPTLEHFLGIVDLYGRLQK---IAEAREFIRNMQIDASSV-VWETLEK  141 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~---~~p~~~~~~~li~~y~~~g~---~~~a~~~~~~m~~~~~~~-~~~~li~  141 (245)
                      ..+-..|.+.|+.++|...+++..+-..   -......+..+-..|...|+   +++|...+++....|+.. .+..+-.
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  344 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            8899999999999999999998765221   12224457778888888898   899999999876444443 4444558


Q ss_pred             HHHhCCCCccccccc
Q 043265          142 YAQTEPGLLLGEPSS  156 (245)
Q Consensus       142 ~~~~~g~~~~~~~~~  156 (245)
                      .|...|+.+.|...+
T Consensus       345 ~y~~~g~~~~A~~~~  359 (378)
T 3q15_A          345 VFESSCHFEQAAAFY  359 (378)
T ss_dssp             HHHHTTCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHH
Confidence            888889888876544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.38  E-value=0.00017  Score=57.97  Aligned_cols=160  Identities=11%  Similarity=0.024  Sum_probs=109.3

Q ss_pred             hhHHHHHHHHcCC--------------------HHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhhhhHHHHHHH
Q 043265            2 LNSELKHLCRERE--------------------VKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus         2 ~n~ll~~~~~~g~--------------------~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      ++.+-..|...|+                    +++|.+.|.+....    +-.| ...++..+-..|...|.++.+.+.
T Consensus       126 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  205 (338)
T 3ro2_A          126 LYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIA  205 (338)
T ss_dssp             HHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            3445566777788                    89999998886432    2112 234677777788888888887665


Q ss_pred             HhcCC--------CC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhc---CCCc-chHHHHHHHHHHhccCCHHHHHHH
Q 043265           57 ENDGV--------RP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDY---DINP-TLEHFLGIVDLYGRLQKIAEAREF  123 (245)
Q Consensus        57 ~~~~~--------~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---~~~p-~~~~~~~li~~y~~~g~~~~a~~~  123 (245)
                      .+..+        .+ ...++..+...+...|++++|...+++.....   +-.+ ...++..+-..|.+.|++++|...
T Consensus       206 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (338)
T 3ro2_A          206 HEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDY  285 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            33211        11 23478888999999999999999998775421   1111 156788899999999999999999


Q ss_pred             HHhcC-C---CCc----HHHHHHHHHHHHhCCCCccccccc--ccccc
Q 043265          124 IRNMQ-I---DAS----SVVWETLEKYAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       124 ~~~m~-~---~~~----~~~~~~li~~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      +++.. .   .++    ..+|..+-..+...|+.+.|....  ++++.
T Consensus       286 ~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          286 HLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            87653 1   111    346667778888899988877665  44443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.38  E-value=0.00085  Score=56.01  Aligned_cols=162  Identities=9%  Similarity=-0.026  Sum_probs=114.9

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc--------CC-CCcHhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDLKLLEAGKRFEND--------GV-RPNWST   67 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~--------~~-~p~~~t   67 (245)
                      ++.+=..|...|++++|++.|.+..+.    +-.+ ...++..+-..|...|.++.|.+..+.        +. +....+
T Consensus       187 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  266 (383)
T 3ulq_A          187 HSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQA  266 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHH
Confidence            344557788999999999999987643    2111 124677788888888888887664222        33 334677


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhh---cCCCcchHHHHHHHHHHhccCC---HHHHHHHHHhcCCCCcH-HHHHHHH
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRD---YDINPTLEHFLGIVDLYGRLQK---IAEAREFIRNMQIDASS-VVWETLE  140 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~p~~~~~~~li~~y~~~g~---~~~a~~~~~~m~~~~~~-~~~~~li  140 (245)
                      +..+-..|.+.|++++|.+.+++..+-   .+-......+..+-..|.+.|+   +++|..++++....|+. ..+..+-
T Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la  346 (383)
T 3ulq_A          267 YFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            899999999999999999999876541   1111123346778899999999   89999999998744544 3455555


Q ss_pred             HHHHhCCCCccccccc--ccccccc
Q 043265          141 KYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      ..|...|+.+.|...+  ++++...
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~~~~~  371 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQVRQL  371 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            8899999999887666  5544433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.37  E-value=0.00027  Score=59.27  Aligned_cols=154  Identities=12%  Similarity=-0.009  Sum_probs=89.2

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhhhh-----------------HHHHHHHHhc-
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDLKL-----------------LEAGKRFEND-   59 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~~~-----------------~~~~~~~~~~-   59 (245)
                      +.+-..|...|++++|.+.|.+....    +-.| ...++..+-..|...|.                 ++.+.+.... 
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  209 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQEN  209 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            34555667777777777777775432    1111 23456666666666677                 6666543221 


Q ss_pred             -------CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc----hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           60 -------GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT----LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        60 -------~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                             +-.| ...++..+-..|...|++++|.+.+++..+-..-.++    ...+..+..+|...|++++|...|++.
T Consensus       210 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  289 (411)
T 4a1s_A          210 LKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRT  289 (411)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence                   1112 2346667777777778888777777766431100011    225667777777788887777777654


Q ss_pred             C-CCC-------cHHHHHHHHHHHHhCCCCccccccc
Q 043265          128 Q-IDA-------SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       128 ~-~~~-------~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      . ..+       ...+|..+-..+...|+.+.|....
T Consensus       290 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (411)
T 4a1s_A          290 LALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYH  326 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            2 111       1345566667777777777665544

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.37  E-value=0.0049  Score=42.27  Aligned_cols=110  Identities=7%  Similarity=0.074  Sum_probs=68.8

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHH
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIV  108 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li  108 (245)
                      +...|..+-..+.+.|.++.|......  ...| +...+..+-..+...|++++|.+.++...+.   .| +...+..+-
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQL---EPTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCchHHHHHHH
Confidence            345555666666666666666554332  1223 4666777777788888888888888777552   23 456777788


Q ss_pred             HHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHh
Q 043265          109 DLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQT  145 (245)
Q Consensus       109 ~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~  145 (245)
                      .+|.+.|++++|...|++.. ..|+ ...|..+-..+..
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  130 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMA  130 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHH
Confidence            88888888888888887653 2333 3444444444443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=97.34  E-value=0.0012  Score=47.74  Aligned_cols=106  Identities=11%  Similarity=0.077  Sum_probs=53.9

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQH   87 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~   87 (245)
                      .|++++|++.|......  .|+ ...+-.+-..|.+.|.++.|.+..+.  .+.| +...|..+-.+|.+.|++++|...
T Consensus        10 ~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~   87 (150)
T 4ga2_A           10 KADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENTDKAVEC   87 (150)
T ss_dssp             HHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCchHHHHHH
Confidence            34556666655554332  121 22333444555555666655554332  2233 355556666666666666666666


Q ss_pred             HHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHH
Q 043265           88 FESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEARE  122 (245)
Q Consensus        88 ~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~  122 (245)
                      |+...+   +.|+ ...|..+-.+|.+.|+.++|.+
T Consensus        88 ~~~al~---~~p~~~~~~~~la~~~~~~~~~~~aa~  120 (150)
T 4ga2_A           88 YRRSVE---LNPTQKDLVLKIAELLCKNDVTDGRAK  120 (150)
T ss_dssp             HHHHHH---HCTTCHHHHHHHHHHHHHHCSSSSHHH
T ss_pred             HHHHHH---hCCCCHHHHHHHHHHHHHcCChHHHHH
Confidence            665543   2332 4455556666666666555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.33  E-value=0.0044  Score=41.01  Aligned_cols=57  Identities=12%  Similarity=-0.005  Sum_probs=26.1

Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc---chHHHHHHHHHHhcc-CCHHHHHHHHHhc
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRDYDINP---TLEHFLGIVDLYGRL-QKIAEAREFIRNM  127 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p---~~~~~~~li~~y~~~-g~~~~a~~~~~~m  127 (245)
                      +..+-..+...|++++|.+.|++..+.   .|   +...+..+..+|.+. |+.++|.+.|+..
T Consensus        43 ~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~  103 (112)
T 2kck_A           43 WLMKGKALYNLERYEEAVDCYNYVINV---IEDEYNKDVWAAKADALRYIEGKEVEAEIAEARA  103 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT---SCCTTCHHHHHHHHHHHTTCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHh---CcccchHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            333444444445555555555444331   12   234444455555555 5555555555443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=97.32  E-value=0.00044  Score=55.53  Aligned_cols=154  Identities=12%  Similarity=0.028  Sum_probs=90.3

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHhhhhhh--------------------HHHHHHHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGI-FLD----SPDIIELLNVCMDLKL--------------------LEAGKRFE   57 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~-~p~----~~t~~~ll~~~~~~~~--------------------~~~~~~~~   57 (245)
                      ..+-..|...|++++|.+.|.+..+..- .++    ..++..+-..|...|.                    ++.+.+..
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            3455667777888888887777543211 112    2356666666766677                    66665432


Q ss_pred             hc--------CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhc---CCCc-chHHHHHHHHHHhccCCHHHHHHHH
Q 043265           58 ND--------GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDY---DINP-TLEHFLGIVDLYGRLQKIAEAREFI  124 (245)
Q Consensus        58 ~~--------~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---~~~p-~~~~~~~li~~y~~~g~~~~a~~~~  124 (245)
                      ..        +-.| ...++..+-..+...|++++|.+.+++..+-.   +..+ ...++..+...|.+.|+.++|...+
T Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  246 (338)
T 3ro2_A          167 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  246 (338)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            21        1112 23466777777777888888888777664311   1111 1236677777788888888887777


Q ss_pred             HhcC-C---CCc----HHHHHHHHHHHHhCCCCccccccc
Q 043265          125 RNMQ-I---DAS----SVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       125 ~~m~-~---~~~----~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++.. .   .++    ..++..+-..+...|+.+.|....
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (338)
T 3ro2_A          247 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYH  286 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            6542 1   111    345555556777777776655443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.31  E-value=0.00069  Score=56.26  Aligned_cols=159  Identities=13%  Similarity=0.044  Sum_probs=103.1

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCC----HHHHHHHHHHhhhhhh--------------------HHHHHHHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGI-FLD----SPDIIELLNVCMDLKL--------------------LEAGKRFE   57 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~-~p~----~~t~~~ll~~~~~~~~--------------------~~~~~~~~   57 (245)
                      ..+-..|...|++++|.+.|.+..+..- .++    ..++..+-..|...|.                    ++.+....
T Consensus        91 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  170 (406)
T 3sf4_A           91 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFY  170 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            4455677788888888888887654211 012    3467777777777787                    77765542


Q ss_pred             hc--------CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc----hHHHHHHHHHHhccCCHHHHHHHH
Q 043265           58 ND--------GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT----LEHFLGIVDLYGRLQKIAEAREFI  124 (245)
Q Consensus        58 ~~--------~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~y~~~g~~~~a~~~~  124 (245)
                      ..        +-.| ...++..+-..|...|++++|.+.+++..+-..-.++    ..+|..+-..|...|++++|...+
T Consensus       171 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  250 (406)
T 3sf4_A          171 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  250 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            21        2122 2456778888888889999998888876542111112    336778888888999999988888


Q ss_pred             HhcC-C---CCc----HHHHHHHHHHHHhCCCCccccccc--ccccc
Q 043265          125 RNMQ-I---DAS----SVVWETLEKYAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       125 ~~m~-~---~~~----~~~~~~li~~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      ++.. .   .++    ..+|..+-..+...|+.+.|....  ++++.
T Consensus       251 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  297 (406)
T 3sf4_A          251 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIA  297 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHH
Confidence            7652 1   111    456667778888888888877665  44443

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=97.31  E-value=0.0017  Score=59.38  Aligned_cols=121  Identities=8%  Similarity=0.119  Sum_probs=100.3

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~   77 (245)
                      |+.+=..|.+.|++++|++.|++..+.+  | +...|..+-.+|.+.|.+++|.+..+.  .+.| +...|+.+-.+|..
T Consensus        46 ~~nLg~~l~~~g~~~eA~~~~~~Al~l~--P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~  123 (723)
T 4gyw_A           46 HSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKD  123 (723)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            4556678899999999999999988753  4 478899999999999999998776444  2345 47889999999999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           78 FGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .|++++|.+.|++..+   +.|+ ...|..+..+|.+.|++++|.+.|++.
T Consensus       124 ~g~~~eAi~~~~~Al~---l~P~~~~a~~~L~~~l~~~g~~~~A~~~~~ka  171 (723)
T 4gyw_A          124 SGNIPEAIASYRTALK---LKPDFPDAYCNLAHCLQIVCDWTDYDERMKKL  171 (723)
T ss_dssp             TTCHHHHHHHHHHHHH---HCSCCHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH---hCCCChHHHhhhhhHHHhcccHHHHHHHHHHH
Confidence            9999999999998865   4564 678899999999999999998887654

>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=97.30  E-value=0.00039  Score=56.57  Aligned_cols=160  Identities=8%  Similarity=-0.009  Sum_probs=107.6

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhhhhHHHHHHH-------H-hcCCCC-cHhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDLKLLEAGKRF-------E-NDGVRP-NWST   67 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~~~~~~~~~~-------~-~~~~~p-~~~t   67 (245)
                      |+-....|...|++++|.+.|.+..+.    |-.+ -..+|+.+-..|.+.|.++.|...       . ..|-.+ -..+
T Consensus        39 ~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~  118 (307)
T 2ifu_A           39 YAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMA  118 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            445566788889999999999987543    2111 135777888888877766665443       2 122211 2467


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhhc---CCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C---CCc----HHH
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRDY---DINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I---DAS----SVV  135 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~---~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~---~~~----~~~  135 (245)
                      ++.+-..|.. |++++|.+.|++...-.   +-.+ ...++..+-..|.+.|++++|...|++.- +   .++    ...
T Consensus       119 ~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  197 (307)
T 2ifu_A          119 LDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKK  197 (307)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHH
Confidence            8888888988 99999999998765411   1111 14678889999999999999999998663 1   111    225


Q ss_pred             HHHHHHHHHhCCCCccccccc--ccccccc
Q 043265          136 WETLEKYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       136 ~~~li~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      |..+...+...|+.+.|...+  ++ +.|.
T Consensus       198 ~~~~g~~~~~~g~~~~A~~~~~~al-~~p~  226 (307)
T 2ifu_A          198 CIAQVLVQLHRADYVAAQKCVRESY-SIPG  226 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHT-TSTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHh-CCCC
Confidence            555666677778988887766  55 5554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.28  E-value=0.0077  Score=41.25  Aligned_cols=110  Identities=5%  Similarity=-0.055  Sum_probs=83.6

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~   78 (245)
                      |..+-..+.+.|++++|.+.|++..+.. ..+...|..+-..|...|.++.+.+..+..  . +.+...+..+-.++.+.
T Consensus        19 ~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~   97 (133)
T 2lni_A           19 VKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAM   97 (133)
T ss_dssp             HHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHH
Confidence            4556678889999999999999987753 236788888889999999888887654332  2 33578888999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccC
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQ  115 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g  115 (245)
                      |++++|.+.|++..+.   .| +...+..+-.+|.+.|
T Consensus        98 ~~~~~A~~~~~~~~~~---~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           98 KDYTKAMDVYQKALDL---DSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             TCHHHHHHHHHHHHHH---CGGGTHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHHhc
Confidence            9999999999988652   33 3455666666666544

>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=97.28  E-value=0.002  Score=44.07  Aligned_cols=51  Identities=14%  Similarity=0.086  Sum_probs=28.0

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAG   53 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~   53 (245)
                      |..+-..+.+.|++++|...|.+..... ..+...+..+-..|...|.++.+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A   57 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKC   57 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHH
Confidence            3445566677777777777777776543 12334444444444444444443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=97.27  E-value=0.00028  Score=59.19  Aligned_cols=161  Identities=12%  Similarity=0.054  Sum_probs=111.7

Q ss_pred             hhHHHHHHHHcCC-----------------HHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc
Q 043265            2 LNSELKHLCRERE-----------------VKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDLKLLEAGKRFEND   59 (245)
Q Consensus         2 ~n~ll~~~~~~g~-----------------~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~   59 (245)
                      |+.+-..|...|+                 +++|.+.|.+..+.    +-.| ...++..+-..|...|.++.|.+....
T Consensus       169 ~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  248 (411)
T 4a1s_A          169 LYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQE  248 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            3455567778888                 99999998886432    2212 234677777888888888887665333


Q ss_pred             CCC-----Cc----HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcC---CC-cchHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           60 GVR-----PN----WSTFVGVITACGCFGAVDEGFQHFESVTRDYD---IN-PTLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        60 ~~~-----p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~---~~-p~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      .+.     ++    ..++..+-..|...|++++|.+.|++......   -. ....++..+-.+|.+.|++++|...|++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (411)
T 4a1s_A          249 RLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNR  328 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            211     11    23788899999999999999999987754211   10 1256788899999999999999999986


Q ss_pred             cC-CC---Cc----HHHHHHHHHHHHhCCCCccccccc--cccccc
Q 043265          127 MQ-ID---AS----SVVWETLEKYAQTEPGLLLGEPSS--SLRLSN  162 (245)
Q Consensus       127 m~-~~---~~----~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~  162 (245)
                      .. ..   ++    ..+|..+-..|...|+.+.|...+  ++++.+
T Consensus       329 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          329 HLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence            63 11   11    346667778888999988877665  554443

>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=97.27  E-value=0.0036  Score=60.68  Aligned_cols=142  Identities=16%  Similarity=0.136  Sum_probs=108.0

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAV   81 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~   81 (245)
                      |..+...|++.|++++|.+.+.+.      -+..+|.-+-.+|...|.+..|..... ++..+...+..++..|.+.|.+
T Consensus      1224 y~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl-~Iiv~~deLeeli~yYe~~G~f 1296 (1630)
T 1xi4_A         1224 FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGL-HIVVHADELEELINYYQDRGYF 1296 (1630)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHH-hhhcCHHHHHHHHHHHHHcCCH
Confidence            677888888889999998888876      245889888889988888888887654 3666777888999999999999


Q ss_pred             HHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhc--cCCHHHHHHHHH-hcCCCC------cHHHHHHHHHHHHhCCCCcc
Q 043265           82 DEGFQHFESVTRDYDINP-TLEHFLGIVDLYGR--LQKIAEAREFIR-NMQIDA------SSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~--~g~~~~a~~~~~-~m~~~~------~~~~~~~li~~~~~~g~~~~  151 (245)
                      ++|..+++.-.   +..| ....|+-|-.+|++  -+++.++.++|. ++.++|      +...|.-++-.|...|+++.
T Consensus      1297 eEAI~LlE~aL---~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dn 1373 (1630)
T 1xi4_A         1297 EELITMLEAAL---GLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDN 1373 (1630)
T ss_pred             HHHHHHHHHHh---ccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHH
Confidence            99999996543   3443 34456556666665  456667777775 444333      56889999999999999988


Q ss_pred             cc
Q 043265          152 GE  153 (245)
Q Consensus       152 ~~  153 (245)
                      |.
T Consensus      1374 A~ 1375 (1630)
T 1xi4_A         1374 AI 1375 (1630)
T ss_pred             HH
Confidence            75

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=97.27  E-value=0.0024  Score=49.01  Aligned_cols=129  Identities=10%  Similarity=0.013  Sum_probs=97.3

Q ss_pred             CCHHHHHHHHHHhhhhhhHHHHHHHHh----cCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHH
Q 043265           32 LDSPDIIELLNVCMDLKLLEAGKRFEN----DGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLG  106 (245)
Q Consensus        32 p~~~t~~~ll~~~~~~~~~~~~~~~~~----~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~  106 (245)
                      .|+..|...-..+.+.|.++.|.....    ..-+++...+..+-.++.+.|++++|.+.|+...+   ..| +...|..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~   81 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK---KNYNLANAYIG   81 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---TTCSHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH---hCcchHHHHHH
Confidence            356777777778888888888766533    23236778888899999999999999999998865   345 4577889


Q ss_pred             HHHHHhccCCHHHHHHHHHhcC-CCCc-H-------HHHHHHHHHHHhCCCCccccccc--ccccccc
Q 043265          107 IVDLYGRLQKIAEAREFIRNMQ-IDAS-S-------VVWETLEKYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       107 li~~y~~~g~~~~a~~~~~~m~-~~~~-~-------~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      +-.+|.+.|+.++|...|++.- ..|+ .       ..|..+=..+...|+.+.|...+  ++++.|+
T Consensus        82 l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~  149 (228)
T 4i17_A           82 KSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSK  149 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCC
Confidence            9999999999999999998774 3444 3       34555557777888888887776  6665544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.25  E-value=0.00095  Score=47.45  Aligned_cols=126  Identities=10%  Similarity=-0.031  Sum_probs=80.3

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CC----HHHHHHHHHHhhhhhhHHHHHHHHhc--------CCCC-cHhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIF-LD----SPDIIELLNVCMDLKLLEAGKRFEND--------GVRP-NWST   67 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~-p~----~~t~~~ll~~~~~~~~~~~~~~~~~~--------~~~p-~~~t   67 (245)
                      ++.+-..|...|++++|.+.|.+..+..-. ++    ..++..+-..|...|.++.+....+.        +-.+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            445566788899999999999887643211 12    13566666667777777766554222        1111 1456


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhh---cCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRD---YDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      +..+-..+...|++++|.+.+++...-   .+-.+ ....+..+-..|...|+.++|.+.+++.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  155 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  155 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            677777778888888888888766431   11111 2345677778888888888888877653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.22  E-value=0.00046  Score=51.72  Aligned_cols=147  Identities=14%  Similarity=0.044  Sum_probs=95.8

Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHh--------cCCCC-cHhhHHHHHHHhcccC
Q 043265            9 LCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEN--------DGVRP-NWSTFVGVITACGCFG   79 (245)
Q Consensus         9 ~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~--------~~~~p-~~~t~~~ll~~~~~~g   79 (245)
                      ....|++++|.++++.+.. ........+..+-..|...|.++.+.....        .+..| ...++..+-..+...|
T Consensus         2 ~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             -----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            3467899999995555433 222346677888888888888887765422        22323 3567788888899999


Q ss_pred             cHHHHHHHHHHhhhh---cCCCc--chHHHHHHHHHHhccCCHHHHHHHHHhcC----C--CCc--HHHHHHHHHHHHhC
Q 043265           80 AVDEGFQHFESVTRD---YDINP--TLEHFLGIVDLYGRLQKIAEAREFIRNMQ----I--DAS--SVVWETLEKYAQTE  146 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~---~~~~p--~~~~~~~li~~y~~~g~~~~a~~~~~~m~----~--~~~--~~~~~~li~~~~~~  146 (245)
                      ++++|.+.+++...-   .+-.|  ....+..+-..|...|++++|...+++..    .  .+.  ..++..+-..+...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            999999999876542   22122  24557788889999999999998886542    1  121  23345566778888


Q ss_pred             CCCccccccc
Q 043265          147 PGLLLGEPSS  156 (245)
Q Consensus       147 g~~~~~~~~~  156 (245)
                      |+.+.|....
T Consensus       161 g~~~~A~~~~  170 (203)
T 3gw4_A          161 KNLLEAQQHW  170 (203)
T ss_dssp             TCHHHHHHHH
T ss_pred             cCHHHHHHHH
Confidence            8888776554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.22  E-value=0.00033  Score=58.25  Aligned_cols=161  Identities=11%  Similarity=0.023  Sum_probs=110.9

Q ss_pred             hhHHHHHHHHcCC--------------------HHHHHHHHHHHHhc----CCCCC-HHHHHHHHHHhhhhhhHHHHHHH
Q 043265            2 LNSELKHLCRERE--------------------VKAALEVMDKLKNI----GIFLD-SPDIIELLNVCMDLKLLEAGKRF   56 (245)
Q Consensus         2 ~n~ll~~~~~~g~--------------------~~~A~~lf~~m~~~----g~~p~-~~t~~~ll~~~~~~~~~~~~~~~   56 (245)
                      ++.+-..|...|+                    +++|.+.|.+....    +-.|. ..++..+-..|...|.++.|.+.
T Consensus       130 ~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  209 (406)
T 3sf4_A          130 LYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIA  209 (406)
T ss_dssp             HHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHH
T ss_pred             HHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            3445566777888                    99999998876432    22222 34677777888888888887665


Q ss_pred             HhcCC--------CC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhh---cCCCc-chHHHHHHHHHHhccCCHHHHHHH
Q 043265           57 ENDGV--------RP-NWSTFVGVITACGCFGAVDEGFQHFESVTRD---YDINP-TLEHFLGIVDLYGRLQKIAEAREF  123 (245)
Q Consensus        57 ~~~~~--------~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~y~~~g~~~~a~~~  123 (245)
                      ....+        .+ ...++..+-..|...|++++|...+++...-   .+-.+ ...++..+-..|.+.|++++|...
T Consensus       210 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  289 (406)
T 3sf4_A          210 HEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDY  289 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHH
Confidence            32211        11 2347888999999999999999999877541   11111 156788899999999999999999


Q ss_pred             HHhcC-C---CCc----HHHHHHHHHHHHhCCCCccccccc--cccccc
Q 043265          124 IRNMQ-I---DAS----SVVWETLEKYAQTEPGLLLGEPSS--SLRLSN  162 (245)
Q Consensus       124 ~~~m~-~---~~~----~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~  162 (245)
                      |++.. .   .++    ..+|..+-..+...|+.+.|...+  ++++.+
T Consensus       290 ~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  338 (406)
T 3sf4_A          290 HLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  338 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            87653 1   112    456677778888889988887766  554443

>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=97.22  E-value=0.006  Score=50.31  Aligned_cols=122  Identities=14%  Similarity=0.084  Sum_probs=78.1

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC--------------HHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLD--------------SPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NW   65 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~--------------~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~   65 (245)
                      +.+=..|.+.|++++|.+.|.+..+..-...              ...|..+-.+|.+.|.++.|.......  +.| +.
T Consensus       151 ~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~  230 (336)
T 1p5q_A          151 KERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNE  230 (336)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcH
Confidence            3445678889999999999999877543221              366667777777777666665542221  122 46


Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHH-HHHHhc
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAR-EFIRNM  127 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~-~~~~~m  127 (245)
                      ..|..+-.+|...|++++|...|+...+   +.| +...+..+-.+|.+.|+.++|. .+|.+|
T Consensus       231 ~a~~~lg~~~~~~g~~~~A~~~~~~al~---l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          231 KGLSRRGEAHLAVNDFELARADFQKVLQ---LYPNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6677777777777777777777776654   233 3455666777777777776663 344433

>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=97.21  E-value=0.009  Score=52.67  Aligned_cols=122  Identities=8%  Similarity=-0.049  Sum_probs=99.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~   78 (245)
                      |..+-..|.+.|++++|.+.|++..+.. .-+...|..+-..|.+.|.+++|.+..+..  ..| +...+..+-.+|.+.
T Consensus        26 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~  104 (568)
T 2vsy_A           26 WLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQQASDAAPEHPGIALWLGHALEDA  104 (568)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHc
Confidence            3455677888999999999999988754 235788888999999999999887764432  234 577899999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhcc---CCHHHHHHHHHhc
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRL---QKIAEAREFIRNM  127 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~---g~~~~a~~~~~~m  127 (245)
                      |++++|.+.|++..+.   .| +...+..+..+|.+.   |+.++|...+++.
T Consensus       105 g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A          105 GQAEAAAAAYTRAHQL---LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             TCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            9999999999988652   34 467788999999999   9999999999866

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.19  E-value=0.002  Score=42.78  Aligned_cols=97  Identities=12%  Similarity=-0.024  Sum_probs=76.3

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC---cHHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA---SSVVWETL  139 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~---~~~~~~~l  139 (245)
                      +...+..+-..+.+.|++++|...|+...+.  ...+...|..+-.+|.+.|++++|...|++.. ..|   +...|..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            4566777888899999999999999988663  12256778889999999999999999998764 344   47788888


Q ss_pred             HHHHHhC-CCCccccccc--cccccc
Q 043265          140 EKYAQTE-PGLLLGEPSS--SLRLSN  162 (245)
Q Consensus       140 i~~~~~~-g~~~~~~~~~--~~~~~~  162 (245)
                      -..+... |+.+.|....  ++...|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            8999999 9999887766  544444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=97.18  E-value=0.0062  Score=46.82  Aligned_cols=149  Identities=10%  Similarity=0.035  Sum_probs=100.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC-CC-HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCcHh----hHHHHHHHhc
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIF-LD-SPDIIELLNVCMDLKLLEAGKRFEND--GVRPNWS----TFVGVITACG   76 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~-p~-~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~~~----t~~~ll~~~~   76 (245)
                      +-..+.+.|++++|++.|+++.+..-. |. ...+..+-.+|.+.|.++.|....+.  ...|+..    .+-.+-.++.
T Consensus        10 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~   89 (225)
T 2yhc_A           10 TAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNM   89 (225)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHH
Confidence            345688899999999999999875322 22 35677778888888888887664332  1223321    2222222222


Q ss_pred             ------------------ccCcHHHHHHHHHHhhhhcCCCcch-HHH-----------------HHHHHHHhccCCHHHH
Q 043265           77 ------------------CFGAVDEGFQHFESVTRDYDINPTL-EHF-----------------LGIVDLYGRLQKIAEA  120 (245)
Q Consensus        77 ------------------~~g~~~~a~~~~~~m~~~~~~~p~~-~~~-----------------~~li~~y~~~g~~~~a  120 (245)
                                        ..|+.++|...|+...+.   .|+. ..+                 -.+-..|.+.|++++|
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A  166 (225)
T 2yhc_A           90 ALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAV  166 (225)
T ss_dssp             HHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             hhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHH
Confidence                              367999999999988763   3432 222                 2345678899999999


Q ss_pred             HHHHHhcC-CCCcH----HHHHHHHHHHHhCCCCccccccc
Q 043265          121 REFIRNMQ-IDASS----VVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       121 ~~~~~~m~-~~~~~----~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ...|+++- ..|+.    ..+..+-.++...|+.+.|....
T Consensus       167 ~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~  207 (225)
T 2yhc_A          167 VNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVA  207 (225)
T ss_dssp             HHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            99998874 23442    45667778999999998887665

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=97.17  E-value=0.002  Score=47.33  Aligned_cols=120  Identities=8%  Similarity=-0.007  Sum_probs=86.7

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CC-cHhhHHHHHHH-hcccCcH--HH
Q 043265           10 CREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RP-NWSTFVGVITA-CGCFGAV--DE   83 (245)
Q Consensus        10 ~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p-~~~t~~~ll~~-~~~~g~~--~~   83 (245)
                      ...|++++|.+.|.+..... ..+...|..+-..|...|.++.|.......+  .| +...+..+-.+ +...|+.  ++
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHH
Confidence            45678889999999887654 2367888888888989998888877544322  23 56677777777 7788998  99


Q ss_pred             HHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH
Q 043265           84 GFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS  133 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~  133 (245)
                      |...|+...+.   .| +...+..+-.+|.+.|++++|...|++.- ..|+.
T Consensus       100 A~~~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A          100 TRAMIDKALAL---DSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHHh---CCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            99999988653   34 45677888899999999999999998763 44443

>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=97.17  E-value=0.0056  Score=45.09  Aligned_cols=118  Identities=12%  Similarity=0.059  Sum_probs=82.7

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-hhhh----hhHHHHHHHHhcCCCC-cHhhHHHHHHHh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNV-CMDL----KLLEAGKRFENDGVRP-NWSTFVGVITAC   75 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~-~~~~----~~~~~~~~~~~~~~~p-~~~t~~~ll~~~   75 (245)
                      |..+-..|.+.|++++|++.|++.....  |+...+..+... +...    ++.+.+++..+  ..| +...+..+-..+
T Consensus        43 ~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~--~~P~~~~~~~~la~~~  118 (176)
T 2r5s_A           43 KLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQAAESPELKRLEQELA--ANPDNFELACELAVQY  118 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHHHTSCHHHHHHHHHHH--HSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            3445677889999999999999986543  344333222111 1111    12333333332  345 578888999999


Q ss_pred             cccCcHHHHHHHHHHhhhhcCCCcc---hHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           76 GCFGAVDEGFQHFESVTRDYDINPT---LEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        76 ~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      ...|++++|...|++..+   ..|+   ...+..+..+|...|+.++|...|.+
T Consensus       119 ~~~g~~~~A~~~~~~~l~---~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~  169 (176)
T 2r5s_A          119 NQVGRDEEALELLWNILK---VNLGAQDGEVKKTFMDILSALGQGNAIASKYRR  169 (176)
T ss_dssp             HHTTCHHHHHHHHHHHHT---TCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHH---hCcccChHHHHHHHHHHHHHhCCCCcHHHHHHH
Confidence            999999999999998865   3443   56788999999999999999988864

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.12  E-value=0.003  Score=47.09  Aligned_cols=126  Identities=16%  Similarity=0.014  Sum_probs=89.0

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHh----cCCCC-CHHHHHHHHHHhhhhhhHHHHHHHHh--------cCCCC--cHh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKN----IGIFL-DSPDIIELLNVCMDLKLLEAGKRFEN--------DGVRP--NWS   66 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~----~g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~--------~~~~p--~~~   66 (245)
                      ++.+-..|...|++++|.+.|.+...    .|..| ...++..+-..|...|.++.+.....        .+-.|  ...
T Consensus        29 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  108 (203)
T 3gw4_A           29 RFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASA  108 (203)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHH
Confidence            45566778899999999999999765    22222 24567777777888888887765422        22122  245


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhh---cCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRD---YDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .+..+-..+...|++++|.+.+++...-   .+-.+ -..++..+-.+|.+.|++++|...|++.
T Consensus       109 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  173 (203)
T 3gw4_A          109 NAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            6788888999999999999999877531   11111 1344678889999999999999888655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.11  E-value=0.003  Score=48.09  Aligned_cols=151  Identities=8%  Similarity=0.031  Sum_probs=95.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCC-HHHHHH----------------HHHHhhhhhhHHHHHHHHhcC--CCC-cHh
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLD-SPDIIE----------------LLNVCMDLKLLEAGKRFENDG--VRP-NWS   66 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~-~~t~~~----------------ll~~~~~~~~~~~~~~~~~~~--~~p-~~~   66 (245)
                      ..+.+.|++++|+..|.+..+..  |+ ...|..                +-.+|.+.|.++.|....+..  ..| +..
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~   89 (208)
T 3urz_A           12 SAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPNNVD   89 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHH
Confidence            35678899999999999987753  33 344555                666777778888877654432  234 567


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCC--HHHHHHHHHhcCCCCcHHHHHH--HHH
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQK--IAEAREFIRNMQIDASSVVWET--LEK  141 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~--~~~a~~~~~~m~~~~~~~~~~~--li~  141 (245)
                      .+..+-..+...|++++|...|++..+   +.|+ ...|..+-.+|...|.  .+.+...|.... .|+...|..  +=.
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~  165 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQ---LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS-SPTKMQYARYRDGL  165 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh-CCCchhHHHHHHHH
Confidence            788888888899999999999988765   3453 5667777777765543  344555666554 444432211  112


Q ss_pred             HHHhCCCCccccccc--ccccccc
Q 043265          142 YAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       142 ~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      ++...|+.+.|...+  ++++.|+
T Consensus       166 ~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          166 SKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC
Confidence            233345666665555  6665554

>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=97.11  E-value=0.0028  Score=42.41  Aligned_cols=96  Identities=11%  Similarity=0.097  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHH
Q 043265           34 SPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVD  109 (245)
Q Consensus        34 ~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~  109 (245)
                      ...+..+...+...|.++.+.+..+..  ..| +...+..+-..+...|++++|...++...+.   .| +...+..+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL---KPDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh---CcccHHHHHHHHH
Confidence            456666777777778887776654332  223 5677777888888888888888888877652   23 4567778888


Q ss_pred             HHhccCCHHHHHHHHHhcC-CCCc
Q 043265          110 LYGRLQKIAEAREFIRNMQ-IDAS  132 (245)
Q Consensus       110 ~y~~~g~~~~a~~~~~~m~-~~~~  132 (245)
                      +|.+.|+.++|...|+... ..|+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~~~  104 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHEAN  104 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCC
Confidence            8888888888888887653 3443

>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=97.08  E-value=0.0013  Score=47.45  Aligned_cols=118  Identities=7%  Similarity=-0.165  Sum_probs=89.1

Q ss_pred             hhhhhhHHHHHHHHhcCCC--C-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHH
Q 043265           44 CMDLKLLEAGKRFENDGVR--P-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAE  119 (245)
Q Consensus        44 ~~~~~~~~~~~~~~~~~~~--p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~  119 (245)
                      +...|.++.+.......++  | +...+-.+-..|.+.|++++|.+.|++..+   +.| +...|..+-.+|.+.|++++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN---VQERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCchHH
Confidence            4556788887665444333  3 345566788889999999999999998865   345 56789999999999999999


Q ss_pred             HHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcccccc--c-cccccccc
Q 043265          120 AREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPS--S-SLRLSNKK  164 (245)
Q Consensus       120 a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~--~-~~~~~~~~  164 (245)
                      |...|++.- +.| +...|..+-..+...|+.+.+...  . ++++.|+.
T Consensus        84 A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~  133 (150)
T 4ga2_A           84 AVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGS  133 (150)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCC
Confidence            999998764 455 467788888888888888764433  2 77887766

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.06  E-value=0.003  Score=44.35  Aligned_cols=103  Identities=7%  Similarity=-0.015  Sum_probs=70.9

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc----HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHH
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN----WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFL  105 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~  105 (245)
                      +...+..+-..+...|.++.+.+..+.  ...|+    ...|..+-.+|...|++++|.+.++...+.   .| +...|.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK---DGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh---CccCHHHHH
Confidence            456777777777777888777765443  34565    567777777888888888888888877552   33 456677


Q ss_pred             HHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHH
Q 043265          106 GIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWET  138 (245)
Q Consensus       106 ~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~  138 (245)
                      .+-.+|.+.|+.++|...|++.. ..|+ ...+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~  138 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEA  138 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHH
Confidence            77888888888888888887663 3343 344433

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=97.05  E-value=0.0022  Score=58.22  Aligned_cols=150  Identities=13%  Similarity=0.015  Sum_probs=102.7

Q ss_pred             HHcCCHHHHHHHHHHHH--------hcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CC-cHhhHHHHHHHhccc
Q 043265           10 CREREVKAALEVMDKLK--------NIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RP-NWSTFVGVITACGCF   78 (245)
Q Consensus        10 ~~~g~~~~A~~lf~~m~--------~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p-~~~t~~~ll~~~~~~   78 (245)
                      ...|++++|++.|++..        +. -..+...|..+-.+|.+.|.++.|....+..+  .| +...|..+-.++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            56788888888888876        22 12345667777777888888877766543322  23 466777777788888


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcccccc
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPS  155 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~  155 (245)
                      |++++|.+.|++..+   ..| +...|..+-.+|.+.|++++ ...|++.- ..| +...|..+-.++...|+.+.|...
T Consensus       481 g~~~~A~~~~~~al~---l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLD---TFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHH---HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            888888888887754   234 35667777788888888888 77776653 333 456676666778888888777666


Q ss_pred             c--cccccccc
Q 043265          156 S--SLRLSNKK  164 (245)
Q Consensus       156 ~--~~~~~~~~  164 (245)
                      +  ++++.|+.
T Consensus       557 ~~~al~l~P~~  567 (681)
T 2pzi_A          557 LDEVPPTSRHF  567 (681)
T ss_dssp             HHTSCTTSTTH
T ss_pred             HHhhcccCccc
Confidence            5  66555543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.04  E-value=0.0021  Score=43.85  Aligned_cols=98  Identities=10%  Similarity=-0.024  Sum_probs=77.3

Q ss_pred             CcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHH
Q 043265           63 PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLE  140 (245)
Q Consensus        63 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li  140 (245)
                      .+...+..+...+...|++++|...|+.....  ...+...+..+...|...|++++|...+++.. . +.+...|..+-
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~   87 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHH
Confidence            35677888889999999999999999988653  12256788899999999999999999998764 2 33567777777


Q ss_pred             HHHHhCCCCccccccc--cccccc
Q 043265          141 KYAQTEPGLLLGEPSS--SLRLSN  162 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~--~~~~~~  162 (245)
                      ..+...|+.+.|...+  ++++.|
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~p  111 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELDP  111 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCc
Confidence            8899999988877666  555444

>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=97.04  E-value=0.0077  Score=54.68  Aligned_cols=157  Identities=6%  Similarity=-0.088  Sum_probs=114.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC---------CCC------------HHHHHHHHHHhhhhhhHHHHHHHHhcCC--
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGI---------FLD------------SPDIIELLNVCMDLKLLEAGKRFENDGV--   61 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~---------~p~------------~~t~~~ll~~~~~~~~~~~~~~~~~~~~--   61 (245)
                      .+...-+.|++++|.++|+++.....         .|+            ...|...++..-+.|.++.|+.+.....  
T Consensus       384 ~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~  463 (679)
T 4e6h_A          384 LSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL  463 (679)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44556778999999999999876420         142            3468888888888888888888754432  


Q ss_pred             ----CCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC----c
Q 043265           62 ----RPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA----S  132 (245)
Q Consensus        62 ----~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~----~  132 (245)
                          .+......+.|.-.+ .++.+.|..+|+...+.  +.-+...|...++.....|+.+.|+.+|++.- ..|    .
T Consensus       464 ~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~  540 (679)
T 4e6h_A          464 KKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLL  540 (679)
T ss_dssp             GGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHH
T ss_pred             cCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHH
Confidence                223333444444332 35699999999988774  33345567788888889999999999999864 223    3


Q ss_pred             HHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          133 SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       133 ~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ...|...+..-..+|+.+.+..+.  +.+.+|+.
T Consensus       541 ~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          541 KMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             HHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            578999999999999999988887  77777765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.04  E-value=0.0072  Score=48.45  Aligned_cols=122  Identities=7%  Similarity=-0.044  Sum_probs=88.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC---CCC--HHHHHHHHHHhhhhhhHHHHHHHHhcCC-----CCc-----HhhHH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGI---FLD--SPDIIELLNVCMDLKLLEAGKRFENDGV-----RPN-----WSTFV   69 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~---~p~--~~t~~~ll~~~~~~~~~~~~~~~~~~~~-----~p~-----~~t~~   69 (245)
                      +-..+...|++++|++.|.+..+...   .+.  ..+|+.+-..|...|.++.|.......+     .|+     ..+|.
T Consensus       121 ~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~  200 (293)
T 2qfc_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHH
Confidence            33456778899999999999865322   222  4588888889999998888766532211     122     26889


Q ss_pred             HHHHHhcccCcHHHHHHHHHHhhhh---cCCCc-chHHHHHHHHHHhccCCHHHH-HHHHHh
Q 043265           70 GVITACGCFGAVDEGFQHFESVTRD---YDINP-TLEHFLGIVDLYGRLQKIAEA-REFIRN  126 (245)
Q Consensus        70 ~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~p-~~~~~~~li~~y~~~g~~~~a-~~~~~~  126 (245)
                      .+-..|.+.|++++|...+++...-   .+..+ -..+|..+-.+|.+.|+.++| ...|++
T Consensus       201 nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~  262 (293)
T 2qfc_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKK  262 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             hHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            9999999999999999999876541   11111 156788899999999999999 665554

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=96.95  E-value=0.0043  Score=42.35  Aligned_cols=109  Identities=12%  Similarity=0.005  Sum_probs=78.4

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcC---CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCC-Ccc----hHHHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDG---VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDI-NPT----LEHFLG  106 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~---~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~-~p~----~~~~~~  106 (245)
                      ..|..+-..+...|.++.|.......   .+.+...+..+-..+...|++++|...++.......- .++    ...|..
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            45667777788888888877654332   2346778888889999999999999999887552111 112    667888


Q ss_pred             HHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Q 043265          107 IVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYA  143 (245)
Q Consensus       107 li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~  143 (245)
                      +-.+|.+.|++++|...|+... ..|+...+..+-...
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~  122 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHRTPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            8999999999999999998764 456665555554443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=96.93  E-value=0.0058  Score=52.04  Aligned_cols=92  Identities=12%  Similarity=-0.095  Sum_probs=59.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc-----C--CCC-CHHHHHHHHHHhhhhhhHHHHHHHHh-------c---CCCC
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI-----G--IFL-DSPDIIELLNVCMDLKLLEAGKRFEN-------D---GVRP   63 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~-----g--~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~-------~---~~~p   63 (245)
                      ||.|=..|...|++++|++.|++..+-     +  ..| ...+|+.+-.+|...|.++.|.....       .   ...+
T Consensus        54 yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~  133 (472)
T 4g1t_A           54 CNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRI  133 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccch
Confidence            566667788899999999999886431     1  123 46789999999999988888755411       1   1112


Q ss_pred             -cHhhHHHHHHHhcc--cCcHHHHHHHHHHhhh
Q 043265           64 -NWSTFVGVITACGC--FGAVDEGFQHFESVTR   93 (245)
Q Consensus        64 -~~~t~~~ll~~~~~--~g~~~~a~~~~~~m~~   93 (245)
                       ...+++.+-.++.+  .++.++|.+.|++..+
T Consensus       134 ~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~  166 (472)
T 4g1t_A          134 ESPELDCEEGWTRLKCGGNQNERAKVCFEKALE  166 (472)
T ss_dssp             CCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHccccHHHHHHHHHHHHH
Confidence             23445444334433  3468888888887654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=96.92  E-value=0.017  Score=47.56  Aligned_cols=153  Identities=10%  Similarity=0.040  Sum_probs=100.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc----CCC--CC-HHHHHHHHHHhhhhhhHHHHHHHHhcC--------CCCcHhhH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNI----GIF--LD-SPDIIELLNVCMDLKLLEAGKRFENDG--------VRPNWSTF   68 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~----g~~--p~-~~t~~~ll~~~~~~~~~~~~~~~~~~~--------~~p~~~t~   68 (245)
                      .+-..+...|++++|.+.|.+....    +-.  |. ...+..+-..+...|.++.+.......        ......+|
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            3456678889999999999987542    222  32 345566777788889888887653322        11124567


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHH-----HHHHHHhccCCHHHHHHHHHhcC-CCCc-----HHHHH
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFL-----GIVDLYGRLQKIAEAREFIRNMQ-IDAS-----SVVWE  137 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~-----~li~~y~~~g~~~~a~~~~~~m~-~~~~-----~~~~~  137 (245)
                      ..+-..+...|++++|...+++...-..-......+.     .....+...|+.++|...+.... ..|.     ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            7888889999999999999988754211111111111     33455889999999999998875 1221     23455


Q ss_pred             HHHHHHHhCCCCccccccc
Q 043265          138 TLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       138 ~li~~~~~~g~~~~~~~~~  156 (245)
                      .+-..+...|+.+.|....
T Consensus       258 ~la~~~~~~g~~~~A~~~l  276 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVL  276 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHH
Confidence            6667888888888766554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.92  E-value=0.033  Score=38.76  Aligned_cols=84  Identities=8%  Similarity=0.030  Sum_probs=39.0

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccC
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLD----SPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFG   79 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~----~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g   79 (245)
                      ..+.+.|++++|.+.|.+..+.  .|+    ...|..+-..|...|.++.+......  ...| +...+..+-.++...|
T Consensus        36 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  113 (148)
T 2dba_A           36 NELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQALEKLG  113 (148)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHHHHHHcC
Confidence            3444555555555555555443  233    34444444445455555544433221  1122 3444445555555555


Q ss_pred             cHHHHHHHHHHhh
Q 043265           80 AVDEGFQHFESVT   92 (245)
Q Consensus        80 ~~~~a~~~~~~m~   92 (245)
                      ++++|...|++..
T Consensus       114 ~~~~A~~~~~~al  126 (148)
T 2dba_A          114 RLDQAVLDLQRCV  126 (148)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555555443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=96.92  E-value=0.0082  Score=49.93  Aligned_cols=122  Identities=10%  Similarity=0.083  Sum_probs=90.3

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CC-CCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--------CCCcHhhH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GI-FLDSPDIIELLNVCMDLKLLEAGKRFENDG--------VRPNWSTF   68 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~-~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--------~~p~~~t~   68 (245)
                      |+.+=..|...|++++|.+.|.+..+.    +- .....++..+-..|.+.|.++.|....+..        -+.....+
T Consensus       227 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  306 (383)
T 3ulq_A          227 LYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEF  306 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            445567788999999999999998762    33 334677888888899999888887653332        22233446


Q ss_pred             HHHHHHhcccCc---HHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           69 VGVITACGCFGA---VDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        69 ~~ll~~~~~~g~---~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+-..+...|+   +++|..+++..    +..|+ ...+..+-..|.+.|+.++|...|++.
T Consensus       307 ~~l~~~~~~~~~~~~~~~al~~~~~~----~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~a  365 (383)
T 3ulq_A          307 EFLKSLYLSGPDEEAIQGFFDFLESK----MLYADLEDFAIDVAKYYHERKNFQKASAYFLKV  365 (383)
T ss_dssp             HHHHHHHTSSCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHC----cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            778888888998   78888888755    22333 456778999999999999999998754

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=96.91  E-value=0.0036  Score=43.57  Aligned_cols=91  Identities=5%  Similarity=-0.045  Sum_probs=43.1

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHH
Q 043265           34 SPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVD  109 (245)
Q Consensus        34 ~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~  109 (245)
                      ...|..+-..+...|.++.|.......  ..| +...|..+-.++...|++++|...++.....   .| +...|..+-.
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~   85 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL---DGQSVKAHFFLGQ   85 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CchhHHHHHHHHH
Confidence            444555555555555555544432221  112 3444555555555555555555555544331   12 2344455555


Q ss_pred             HHhccCCHHHHHHHHHhc
Q 043265          110 LYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       110 ~y~~~g~~~~a~~~~~~m  127 (245)
                      +|.+.|++++|...|+..
T Consensus        86 ~~~~~~~~~~A~~~~~~a  103 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRA  103 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHH
Confidence            555555555555555443

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=96.88  E-value=0.032  Score=38.16  Aligned_cols=60  Identities=10%  Similarity=0.078  Sum_probs=38.2

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ...|..+-.+|.+.|++++|...|+...+   +.| +...|..+-.+|...|++++|...|++.
T Consensus        38 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~a   98 (126)
T 3upv_A           38 ARGYSNRAAALAKLMSFPEAIADCNKAIE---KDPNFVRAYIRKATAQIAVKEYASALETLDAA   98 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHH
Confidence            44555666666666777777777766644   223 3456666777777777777777777655

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=96.84  E-value=0.027  Score=40.31  Aligned_cols=91  Identities=10%  Similarity=0.016  Sum_probs=63.5

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHH
Q 043265           34 SPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVD  109 (245)
Q Consensus        34 ~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~  109 (245)
                      ...+..+-..+.+.|.++.|....+.-  ..| +...|..+-.+|...|++++|...|+....   +.| +...|..+-.
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~lg~   97 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAV---MDIXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh---cCCCCchHHHHHHH
Confidence            345555666667777777776653331  233 566777777788888888888888887754   234 4566777888


Q ss_pred             HHhccCCHHHHHHHHHhc
Q 043265          110 LYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       110 ~y~~~g~~~~a~~~~~~m  127 (245)
                      +|...|++++|...|+..
T Consensus        98 ~~~~~g~~~~A~~~~~~a  115 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLA  115 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            888888888888888765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.84  E-value=0.004  Score=45.25  Aligned_cols=92  Identities=14%  Similarity=0.069  Sum_probs=65.9

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHH
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIV  108 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li  108 (245)
                      +...|..+-..+.+.|.++.|.+.....  ..| +...|..+-.+|.+.|++++|...|+...+   +.| +...|..+-
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATV---VDPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHH---hCCCCHHHHHHHH
Confidence            3456667777777778777776654332  233 567778888888888888888888887755   234 366777888


Q ss_pred             HHHhccCCHHHHHHHHHhc
Q 043265          109 DLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       109 ~~y~~~g~~~~a~~~~~~m  127 (245)
                      .+|.+.|++++|...|++.
T Consensus        87 ~~~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHH
Confidence            8888888888888888766

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=96.83  E-value=0.0041  Score=50.40  Aligned_cols=148  Identities=10%  Similarity=-0.043  Sum_probs=99.5

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CCCC-CHHHHHHHHHHhhhhhhHHHHHHHHhc--------CCCC-cHhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GIFL-DSPDIIELLNVCMDLKLLEAGKRFEND--------GVRP-NWST   67 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p-~~~t~~~ll~~~~~~~~~~~~~~~~~~--------~~~p-~~~t   67 (245)
                      |+.+-..|.+.|++++|++.|.+..+.    |-.+ -..+++.+-..|.. |.++.|....+.        +-.+ -..+
T Consensus        79 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~  157 (307)
T 2ifu_A           79 FEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAEL  157 (307)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHH
Confidence            455667788889999999999986542    2111 13567777788877 888887654222        1111 1467


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhh---cCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcCCCCc------HHHHH
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRD---YDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQIDAS------SVVWE  137 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~------~~~~~  137 (245)
                      +..+-..|.+.|++++|...|++...-   .+..++ ...+..+..+|...|+.++|...|++....|+      .....
T Consensus       158 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~p~~~~~~e~~~l~  237 (307)
T 2ifu_A          158 IGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESYSIPGFSGSEDCAALE  237 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTSTTSHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhCCCCCCCCHHHHHHH
Confidence            888999999999999999999987542   111122 23677778888889999999999987543342      22344


Q ss_pred             HHHHHHHhCCCCcc
Q 043265          138 TLEKYAQTEPGLLL  151 (245)
Q Consensus       138 ~li~~~~~~g~~~~  151 (245)
                      .++.++ ..|+.+.
T Consensus       238 ~l~~~~-~~~d~~~  250 (307)
T 2ifu_A          238 DLLQAY-DEQDEEQ  250 (307)
T ss_dssp             HHHHHH-HTTCHHH
T ss_pred             HHHHHH-HhcCHHH
Confidence            555655 4455444

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=96.83  E-value=0.0097  Score=47.76  Aligned_cols=121  Identities=7%  Similarity=-0.085  Sum_probs=85.6

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH-hhhhhhHHHHH----HHHhcCCCCcHhhHHHHHHHhcc
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNV-CMDLKLLEAGK----RFENDGVRPNWSTFVGVITACGC   77 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~-~~~~~~~~~~~----~~~~~~~~p~~~t~~~ll~~~~~   77 (245)
                      ..+-..|.+.|++++|..+|++....  .|+.......... +.+.+..+.+.    +.... -+.+...+..+-..+..
T Consensus       155 ~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~-~P~~~~~~~~la~~l~~  231 (287)
T 3qou_A          155 LLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAE-NPEDAALATQLALQLHQ  231 (287)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH-CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhc-CCccHHHHHHHHHHHHH
Confidence            34567889999999999999998765  3555433332222 34444443333    22222 23467888999999999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           78 FGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      .|++++|...|.+..+...-..+...+..+...|...|+.++|...|.+
T Consensus       232 ~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~  280 (287)
T 3qou_A          232 VGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRR  280 (287)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            9999999999999876322222367889999999999999999887754

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=96.82  E-value=0.0041  Score=45.19  Aligned_cols=60  Identities=8%  Similarity=0.041  Sum_probs=27.0

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ...|..+-.+|...|++++|...|+...+   +.| +...|..+-.+|.+.|+.++|...|++.
T Consensus        70 ~~~~~~lg~~~~~~g~~~~Ai~~~~~al~---l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~a  130 (151)
T 3gyz_A           70 VDYIMGLAAIYQIKEQFQQAADLYAVAFA---LGKNDYTPVFHTGQCQLRLKAPLKAKECFELV  130 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHh---hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444444444445555555554444432   122 2333444444444555555555444433

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=96.82  E-value=0.027  Score=37.28  Aligned_cols=91  Identities=8%  Similarity=-0.004  Sum_probs=67.3

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~   78 (245)
                      |..+-..+...|++++|.+.|.+..... +.+...+..+-..+...|.++.+.......  ..| +...+..+..++...
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~   85 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFL   85 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3455667788899999999999887653 235677788888888888888776653332  223 567788888888899


Q ss_pred             CcHHHHHHHHHHhhh
Q 043265           79 GAVDEGFQHFESVTR   93 (245)
Q Consensus        79 g~~~~a~~~~~~m~~   93 (245)
                      |++++|.+.++...+
T Consensus        86 ~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           86 NRFEEAKRTYEEGLK  100 (118)
T ss_dssp             TCHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHH
Confidence            999999999887754

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=96.80  E-value=0.0095  Score=50.20  Aligned_cols=142  Identities=9%  Similarity=-0.015  Sum_probs=108.5

Q ss_pred             hhHHHHHHHHcCC-HHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcc
Q 043265            2 LNSELKHLCRERE-VKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGC   77 (245)
Q Consensus         2 ~n~ll~~~~~~g~-~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~   77 (245)
                      |+.+-..+.+.|+ +++|++.|++..+.+- -+...|..+-.++.+.|.++.|....+..  ..| +...|..+-.++.+
T Consensus       134 ~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~  212 (382)
T 2h6f_A          134 WHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQE  212 (382)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHH
Confidence            4555667888896 9999999999987643 26788999989999988888776654432  233 67889999999999


Q ss_pred             cCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhc-cCCHHHH-----HHHHHhcC-CCC-cHHHHHHHHHHHHhCC
Q 043265           78 FGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGR-LQKIAEA-----REFIRNMQ-IDA-SSVVWETLEKYAQTEP  147 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~-~g~~~~a-----~~~~~~m~-~~~-~~~~~~~li~~~~~~g  147 (245)
                      .|++++|...|+.+.+   +.| +...|+.+-.+|.+ .|..++|     ...|++.- ..| +...|+.+-..+...|
T Consensus       213 ~g~~~eAl~~~~~al~---l~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g  288 (382)
T 2h6f_A          213 FKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG  288 (382)
T ss_dssp             HTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC
T ss_pred             cCChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccC
Confidence            9999999999999876   334 56788999999999 7776777     36665542 344 4677888877777766

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=96.79  E-value=0.0072  Score=42.13  Aligned_cols=89  Identities=8%  Similarity=0.084  Sum_probs=52.0

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHH
Q 043265           36 DIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLY  111 (245)
Q Consensus        36 t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y  111 (245)
                      .+...=..|.+.|.++.|.+.....  ..| +...|..+-.+|.+.|++++|...|+...+   +.| +...|..+-.+|
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIR---LDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHH---hhhhhhHHHHHHHHHH
Confidence            3444444555666666665543322  222 456666666667777777777777666544   223 345566666667


Q ss_pred             hccCCHHHHHHHHHhc
Q 043265          112 GRLQKIAEAREFIRNM  127 (245)
Q Consensus       112 ~~~g~~~~a~~~~~~m  127 (245)
                      .+.|++++|...|++.
T Consensus        92 ~~~~~~~~A~~~~~~a  107 (126)
T 4gco_A           92 VAMREWSKAQRAYEDA  107 (126)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            7777777777766654

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=96.78  E-value=0.016  Score=46.35  Aligned_cols=160  Identities=8%  Similarity=-0.061  Sum_probs=113.4

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCC----HHHHHHHHHHhhhhhhHHHHHHH----HhcCC-CCc----HhhH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIG-IFLD----SPDIIELLNVCMDLKLLEAGKRF----ENDGV-RPN----WSTF   68 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g-~~p~----~~t~~~ll~~~~~~~~~~~~~~~----~~~~~-~p~----~~t~   68 (245)
                      ...+..+...|++++|.+++.+..+.. ..|+    ...+..+...+...+.++.|...    ..... .++    ..+|
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            346778899999999999999987644 3455    45888888888777767766553    22111 222    3368


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhhhh---c-CCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-------CCCc-HHH
Q 043265           69 VGVITACGCFGAVDEGFQHFESVTRD---Y-DINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-------IDAS-SVV  135 (245)
Q Consensus        69 ~~ll~~~~~~g~~~~a~~~~~~m~~~---~-~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-------~~~~-~~~  135 (245)
                      +.+-..|...|++++|...|++..+.   . +..|. ..+|..+-..|.+.|++++|...+++.-       ..+. ..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            99999999999999999999988631   1 22333 3478899999999999999999887542       1122 456


Q ss_pred             HHHHHHHHHhCCC-Cccccccc--cccccc
Q 043265          136 WETLEKYAQTEPG-LLLGEPSS--SLRLSN  162 (245)
Q Consensus       136 ~~~li~~~~~~g~-~~~~~~~~--~~~~~~  162 (245)
                      |..+=.++...|+ .+.|....  ++.+..
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~i~~  268 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASFFFD  268 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHHHHH
Confidence            6666678888885 47776655  555443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.75  E-value=0.033  Score=40.14  Aligned_cols=92  Identities=12%  Similarity=0.006  Sum_probs=73.8

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhccc
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~   78 (245)
                      |..+-..|.+.|++++|++.|.+..+..- -+...|..+-.+|.+.|.++.|....+..  +.| +...|..+-.+|.+.
T Consensus        14 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   92 (164)
T 3sz7_A           14 LKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFDM   92 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            34455678899999999999999987642 26788999999999999988887654332  234 478899999999999


Q ss_pred             CcHHHHHHHHHHhhhh
Q 043265           79 GAVDEGFQHFESVTRD   94 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~   94 (245)
                      |++++|.+.|++..+-
T Consensus        93 g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           93 ADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHh
Confidence            9999999999988653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=96.74  E-value=0.029  Score=43.00  Aligned_cols=125  Identities=14%  Similarity=0.044  Sum_probs=82.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCC-CCH-HHHHHHHHHhhh------------------hhhHHHHHHHHhc--CC
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIF-LDS-PDIIELLNVCMD------------------LKLLEAGKRFEND--GV   61 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~-p~~-~t~~~ll~~~~~------------------~~~~~~~~~~~~~--~~   61 (245)
                      .+-.+|.+.|++++|+..|++..+..-. |.. ..+-.+-.++.+                  .|..+.|....+.  ..
T Consensus        46 ~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  125 (225)
T 2yhc_A           46 DLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG  125 (225)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH
Confidence            3456888999999999999999865422 221 123223333322                  3566666554332  22


Q ss_pred             CCcHh-hH-----------------HHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHH
Q 043265           62 RPNWS-TF-----------------VGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEARE  122 (245)
Q Consensus        62 ~p~~~-t~-----------------~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~  122 (245)
                      .|+.. .+                 -.+-..|.+.|++++|...|+.+.+...-.|. ...+..+..+|.+.|+.++|.+
T Consensus       126 ~P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~  205 (225)
T 2yhc_A          126 YPNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEK  205 (225)
T ss_dssp             CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHH
Confidence            34322 22                 23445678899999999999998764322221 2567889999999999999999


Q ss_pred             HHHhcC
Q 043265          123 FIRNMQ  128 (245)
Q Consensus       123 ~~~~m~  128 (245)
                      .++.+.
T Consensus       206 ~~~~l~  211 (225)
T 2yhc_A          206 VAKIIA  211 (225)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998774

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=96.74  E-value=0.014  Score=52.98  Aligned_cols=140  Identities=11%  Similarity=0.041  Sum_probs=106.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGA   80 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~   80 (245)
                      .+-..|.+.|++++|++.|++..+.+- -+...|..+-.+|.+.|.+++|....+.  ...| +...|..+-.++.+.|+
T Consensus       438 ~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~  516 (681)
T 2pzi_A          438 MEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGN  516 (681)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCC
Confidence            345678899999999999999987532 2567888888889999999988765443  2344 56778899999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCC
Q 043265           81 VDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPG  148 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~  148 (245)
                      +++ .+.|++..+   +.| +...|..+-.+|.+.|+.++|...|++.. ..|+ ...|..+-.++...+.
T Consensus       517 ~~~-~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          517 TDE-HKFYQTVWS---TNDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             CCT-TCHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             hHH-HHHHHHHHH---hCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            999 999988765   234 45788899999999999999999999886 5665 4556555566555444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=96.71  E-value=0.027  Score=39.10  Aligned_cols=90  Identities=4%  Similarity=0.017  Sum_probs=72.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ..|.+.|++++|++.|++..+.+ +.+...|..+-.+|.+.|.++.|....+..  +.| +...|..+-.++...|++++
T Consensus        21 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~   99 (126)
T 4gco_A           21 NEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMREWSK   99 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCCCHHH
Confidence            46889999999999999988754 236788999999999999888887654332  233 57789999999999999999


Q ss_pred             HHHHHHHhhhhcCCCcc
Q 043265           84 GFQHFESVTRDYDINPT  100 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p~  100 (245)
                      |.+.|+...+   +.|+
T Consensus       100 A~~~~~~al~---l~P~  113 (126)
T 4gco_A          100 AQRAYEDALQ---VDPS  113 (126)
T ss_dssp             HHHHHHHHHH---HCTT
T ss_pred             HHHHHHHHHH---HCcC
Confidence            9999998865   4565

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=96.69  E-value=0.015  Score=46.49  Aligned_cols=132  Identities=7%  Similarity=-0.065  Sum_probs=92.1

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHHhc-----CCCCcH----hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc---
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFEND-----GVRPNW----STFVGVITACGCFGAVDEGFQHFESVTRDYDINPT---  100 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~~~-----~~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~---  100 (245)
                      ....+...+..+...|.++.+....+.     ...|+.    ..+..+...+...|++++|...|+....-..-.++   
T Consensus        74 ~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~  153 (293)
T 3u3w_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTH
T ss_pred             hHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHH
Confidence            456666677778888888887665332     223332    23445777778888999999999988652111233   


Q ss_pred             -hHHHHHHHHHHhccCCHHHHHHHHHhcC-----C---CCc-HHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          101 -LEHFLGIVDLYGRLQKIAEAREFIRNMQ-----I---DAS-SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       101 -~~~~~~li~~y~~~g~~~~a~~~~~~m~-----~---~~~-~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                       ..+|+.+-.+|.+.|++++|...|++.-     .   .+. ..+|..+-..|...|+.+.|....  ++++.++.
T Consensus       154 ~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~  229 (293)
T 3u3w_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRI  229 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHc
Confidence             3368999999999999999999887653     1   122 346777888999999999988776  66554433

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=96.66  E-value=0.0059  Score=43.87  Aligned_cols=98  Identities=10%  Similarity=0.025  Sum_probs=77.4

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLE  140 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li  140 (245)
                      +...+..+-..+.+.|++++|...|+....   ..| +...|..+-.+|.+.|++++|...|++.- ..| +...|..+-
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg   96 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCV---LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHH---cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHH
Confidence            455677778889999999999999998865   234 56778889999999999999999998774 344 456777777


Q ss_pred             HHHHhCCCCccccccc--cccccccc
Q 043265          141 KYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .++...|+.+.|...+  ++++.|+.
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~~~p~~  122 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQELIANX  122 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            8889999999988776  66665543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=96.64  E-value=0.026  Score=44.07  Aligned_cols=129  Identities=12%  Similarity=-0.001  Sum_probs=89.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCC-CCC-HHHHHHHHHHhhh--------hhhHHHHHHHHhcCC--CCc-HhhH--
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGI-FLD-SPDIIELLNVCMD--------LKLLEAGKRFENDGV--RPN-WSTF--   68 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~-~p~-~~t~~~ll~~~~~--------~~~~~~~~~~~~~~~--~p~-~~t~--   68 (245)
                      .+-..|.+.|++++|...|++..+..- .|. ...+..+-.++..        .|.++.|....+.-+  .|+ ....  
T Consensus        57 ~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  136 (261)
T 3qky_A           57 YLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDA  136 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHH
Confidence            344678899999999999999987532 222 4456666667777        788888766543322  233 2333  


Q ss_pred             ---------------HHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhcc----------CCHHHHHH
Q 043265           69 ---------------VGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRL----------QKIAEARE  122 (245)
Q Consensus        69 ---------------~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~----------g~~~~a~~  122 (245)
                                     -.+-..|.+.|++++|...|+...+...-.| ....+..+..+|.+.          |++++|..
T Consensus       137 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~  216 (261)
T 3qky_A          137 TQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVE  216 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHH
Confidence                           4456778899999999999999876422222 234667778888866          88999999


Q ss_pred             HHHhcC-CCCc
Q 043265          123 FIRNMQ-IDAS  132 (245)
Q Consensus       123 ~~~~m~-~~~~  132 (245)
                      .|++.. ..|+
T Consensus       217 ~~~~~~~~~p~  227 (261)
T 3qky_A          217 LYERLLQIFPD  227 (261)
T ss_dssp             HHHHHHHHCTT
T ss_pred             HHHHHHHHCCC
Confidence            998774 3444

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=96.61  E-value=0.0068  Score=52.60  Aligned_cols=115  Identities=4%  Similarity=-0.024  Sum_probs=81.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      .|.+.|++++|++.|++..+.. .-+...|..+-.+|.+.|.+++|.+..+..  ..| +...|..+-.+|.+.|++++|
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            3567899999999999988753 224788888888999999888887654332  234 567888888899999999999


Q ss_pred             HHHHHHhhhhcCCCcchHHHHHHHHH--HhccCCHHHHHHHHH
Q 043265           85 FQHFESVTRDYDINPTLEHFLGIVDL--YGRLQKIAEAREFIR  125 (245)
Q Consensus        85 ~~~~~~m~~~~~~~p~~~~~~~li~~--y~~~g~~~~a~~~~~  125 (245)
                      .+.|++..+-..-  +...+..+-.+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~p~--~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVKPH--DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHSTT--CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhCCC--CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999887653222  22344444444  888899999999887

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=96.60  E-value=0.037  Score=41.27  Aligned_cols=127  Identities=11%  Similarity=0.022  Sum_probs=70.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGI-FLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~-~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~   83 (245)
                      +=..+.+.|++++|.+.|.+..+..- .|+.   ...     .....  ...+       ....|..+-.+|.+.|++++
T Consensus        44 ~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~---~~~-----~~~~~--~~~~-------~~~~~~~la~~~~~~~~~~~  106 (198)
T 2fbn_A           44 EGNEFFKKNEINEAIVKYKEALDFFIHTEEW---DDQ-----ILLDK--KKNI-------EISCNLNLATCYNKNKDYPK  106 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTTTCTTC---CCH-----HHHHH--HHHH-------HHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhccccc---chh-----hHHHH--HHHH-------HHHHHHHHHHHHHHhcCHHH
Confidence            34567788999999999998876421 1110   000     00000  0000       13455666666777777777


Q ss_pred             HHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcc
Q 043265           84 GFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~  151 (245)
                      |...++...+-   .| +...|..+-.+|...|++++|...|++.. ..| +...+..+-..+...++.+.
T Consensus       107 A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~  174 (198)
T 2fbn_A          107 AIDHASKVLKI---DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKEARK  174 (198)
T ss_dssp             HHHHHHHHHHH---STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHh---CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHH
Confidence            77777766542   23 45566667777777777777777776552 233 34445444455544444333

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=96.59  E-value=0.0067  Score=42.95  Aligned_cols=88  Identities=8%  Similarity=0.009  Sum_probs=47.1

Q ss_pred             HHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHh
Q 043265           37 IIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYG  112 (245)
Q Consensus        37 ~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~  112 (245)
                      +..+-..+.+.|.++.|....+.  ...| +...|..+-.+|.+.|++++|...|+....-   .| +...|..+-.+|.
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALM---DINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc---CCCCcHHHHHHHHHHH
Confidence            33344445555655555544322  1222 4555555666666666666666666655441   22 2344555666666


Q ss_pred             ccCCHHHHHHHHHhc
Q 043265          113 RLQKIAEAREFIRNM  127 (245)
Q Consensus       113 ~~g~~~~a~~~~~~m  127 (245)
                      ..|++++|...|+..
T Consensus        98 ~~g~~~~A~~~~~~a  112 (142)
T 2xcb_A           98 QLGDLDGAESGFYSA  112 (142)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHH
Confidence            666666666666554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=96.58  E-value=0.0031  Score=43.10  Aligned_cols=60  Identities=8%  Similarity=0.091  Sum_probs=37.3

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ...+..+-.+|...|++++|...|++..+.   .| +...+..+-.+|.+.|+.++|...|++.
T Consensus        27 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   87 (117)
T 3k9i_A           27 AECYLGLGSTFRTLGEYRKAEAVLANGVKQ---FPNHQALRVFYAMVLYNLGRYEQGVELLLKI   87 (117)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344555556666667777777777666542   23 3455666677777777777777766654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=96.55  E-value=0.044  Score=38.56  Aligned_cols=88  Identities=14%  Similarity=0.002  Sum_probs=70.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAV   81 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~   81 (245)
                      +-..+.+.|++++|.+.|.+....+- .+...|..+-.+|.+.|.++.|....+..  ..| +...+..+-.+|...|++
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~  102 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGDL  102 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCH
Confidence            34567889999999999999887542 36778888888899999998887764432  223 567788888999999999


Q ss_pred             HHHHHHHHHhhh
Q 043265           82 DEGFQHFESVTR   93 (245)
Q Consensus        82 ~~a~~~~~~m~~   93 (245)
                      ++|.+.|+...+
T Consensus       103 ~~A~~~~~~al~  114 (142)
T 2xcb_A          103 DGAESGFYSARA  114 (142)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=96.55  E-value=0.025  Score=46.97  Aligned_cols=121  Identities=12%  Similarity=0.051  Sum_probs=88.6

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHh-----cCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--------CCCCcHhhH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKN-----IGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--------GVRPNWSTF   68 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~-----~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--------~~~p~~~t~   68 (245)
                      ++.+=..|...|++++|.+.|.+..+     .. .....++..+-..|.+.|.++.|....+.        +-+.....+
T Consensus       225 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  303 (378)
T 3q15_A          225 LLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELF  303 (378)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            34455678889999999999999876     32 22367788888889999988888765332        222334566


Q ss_pred             HHHHHHhcccCc---HHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           69 VGVITACGCFGA---VDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        69 ~~ll~~~~~~g~---~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+-..+...++   +.+|...++..    +..|+ ...+..+-..|.+.|+.++|...|++.
T Consensus       304 ~~l~~ly~~~~~~~~~~~al~~~~~~----~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~a  362 (378)
T 3q15_A          304 LFLQAVYKETVDERKIHDLLSYFEKK----NLHAYIEACARSAAAVFESSCHFEQAAAFYRKV  362 (378)
T ss_dssp             HHHHHHHSSSCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHhC----CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            777777888888   88888887753    22333 356678999999999999999999765

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=96.55  E-value=0.025  Score=39.28  Aligned_cols=48  Identities=10%  Similarity=0.032  Sum_probs=27.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKR   55 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~   55 (245)
                      ..+.+.|++++|++.|.+..+..- -+...|+.+-.+|.+.|.++.|.+
T Consensus        16 ~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~   63 (127)
T 4gcn_A           16 NAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQ   63 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHH
Confidence            456777888888888887765421 134445555455555554444433

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=96.48  E-value=0.031  Score=46.00  Aligned_cols=150  Identities=9%  Similarity=-0.124  Sum_probs=101.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHH----HHHHHHHHhhhhhhHHHHHHHHhcCCC-----Cc----HhhHHHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSP----DIIELLNVCMDLKLLEAGKRFENDGVR-----PN----WSTFVGVIT   73 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~----t~~~ll~~~~~~~~~~~~~~~~~~~~~-----p~----~~t~~~ll~   73 (245)
                      ..+...|++++|...+.+.....-..+..    .++.+-..+...|.++.+.+.....+.     ++    ..++..+-.
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34567899999999999987654222332    445555667777888877665322111     11    234566777


Q ss_pred             HhcccCcHHHHHHHHHHhhhh---cCCC--cc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-----CCC--cHHHHHHHH
Q 043265           74 ACGCFGAVDEGFQHFESVTRD---YDIN--PT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-----IDA--SSVVWETLE  140 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~---~~~~--p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-----~~~--~~~~~~~li  140 (245)
                      .+...|++++|.+.+++....   .+..  |. ...+..+-..|...|++++|...+++.-     ..+  ...+|..+-
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            888999999999999877542   1222  32 3556778889999999999999997642     111  134566666


Q ss_pred             HHHHhCCCCccccccc
Q 043265          141 KYAQTEPGLLLGEPSS  156 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~  156 (245)
                      ..+...|+.+.|....
T Consensus       182 ~~~~~~g~~~~A~~~l  197 (373)
T 1hz4_A          182 QCSLARGDLDNARSQL  197 (373)
T ss_dssp             HHHHHHTCHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHH
Confidence            7888889988877655

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=96.45  E-value=0.011  Score=40.53  Aligned_cols=94  Identities=5%  Similarity=-0.110  Sum_probs=75.2

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHH
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEK  141 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~  141 (245)
                      ...|..+-..+.+.|++++|...|++..+.   .| +...|..+-.+|.+.|++++|...|++.- ..| +...|..+-.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            455667777889999999999999988652   34 56788999999999999999999998764 344 4667777778


Q ss_pred             HHHhCCCCccccccc--ccccc
Q 043265          142 YAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       142 ~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      ++...|+.+.|...+  ++++.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHhC
Confidence            889999999887766  66655

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=96.43  E-value=0.056  Score=37.20  Aligned_cols=97  Identities=11%  Similarity=-0.031  Sum_probs=60.3

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLE  140 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li  140 (245)
                      +...|..+-..+...|++++|...|......   .| +...|..+-.+|.+.|++++|...|+... ..| +...|..+-
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            4566666666777777777777777766442   22 34566667777777777777777776553 223 355566666


Q ss_pred             HHHHhCCCCccccccc--ccccccc
Q 043265          141 KYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      ..+...|+.+.|...+  ++++.|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChh
Confidence            6666777777666555  5555444

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.43  E-value=0.042  Score=36.26  Aligned_cols=87  Identities=9%  Similarity=0.016  Sum_probs=65.0

Q ss_pred             CcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-------H
Q 043265           63 PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-------S  133 (245)
Q Consensus        63 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-------~  133 (245)
                      ++...+..+-..+.+.|++++|.+.|++..+.   .| +...|..+-.+|.+.|++++|...|++.- ..|+       .
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~   78 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITA---QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRS   78 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHH
Confidence            35667788888899999999999999988652   34 56778889999999999999999998763 4555       3


Q ss_pred             HHHHHHHHHHHhCCCCccc
Q 043265          134 VVWETLEKYAQTEPGLLLG  152 (245)
Q Consensus       134 ~~~~~li~~~~~~g~~~~~  152 (245)
                      ..+..+-.++...|+.+.+
T Consensus        79 ~~~~~~~~~~~~~~~~~~a   97 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIP   97 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCC
T ss_pred             HHHHHHHHHHHHHHhHhhh
Confidence            4444444556565655554

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=96.43  E-value=0.011  Score=53.64  Aligned_cols=153  Identities=5%  Similarity=-0.106  Sum_probs=104.1

Q ss_pred             HHHHHcCCHHHHH-HHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCC-------------C---------
Q 043265            7 KHLCREREVKAAL-EVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVR-------------P---------   63 (245)
Q Consensus         7 ~~~~~~g~~~~A~-~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~-------------p---------   63 (245)
                      .-+-+.|+.++|. ++|.+.... ++.+...|-..+...-+.|.++.++++.+..+.             |         
T Consensus       351 ~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~  429 (679)
T 4e6h_A          351 NYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQL  429 (679)
T ss_dssp             HHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhh
Confidence            3445668888886 999988753 344666677777777778888888765333221             3         


Q ss_pred             ---cHhhHHHHHHHhcccCcHHHHHHHHHHhhhh-cCCCcchHHHHHHHHHHhcc-CCHHHHHHHHHhcC--CCCcHHHH
Q 043265           64 ---NWSTFVGVITACGCFGAVDEGFQHFESVTRD-YDINPTLEHFLGIVDLYGRL-QKIAEAREFIRNMQ--IDASSVVW  136 (245)
Q Consensus        64 ---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~-~~~~p~~~~~~~li~~y~~~-g~~~~a~~~~~~m~--~~~~~~~~  136 (245)
                         ....|...+....+.|.++.|..+|....+. ....+.+....+.+  --+. ++.+.|.++|+..-  +..+...|
T Consensus       430 ~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~l--E~~~~~d~e~Ar~ife~~Lk~~p~~~~~w  507 (679)
T 4e6h_A          430 KSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYI--EYHISKDTKTACKVLELGLKYFATDGEYI  507 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHH--HHTTTSCCHHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHH--HHHhCCCHHHHHHHHHHHHHHCCCchHHH
Confidence               2346888888888899999999999988763 12233333333333  3344 45899999998663  34466778


Q ss_pred             HHHHHHHHhCCCCccccccc--cccccc
Q 043265          137 ETLEKYAQTEPGLLLGEPSS--SLRLSN  162 (245)
Q Consensus       137 ~~li~~~~~~g~~~~~~~~~--~~~~~~  162 (245)
                      ...+......|+.+.++.++  ++...+
T Consensus       508 ~~y~~fe~~~~~~~~AR~lferal~~~~  535 (679)
T 4e6h_A          508 NKYLDFLIYVNEESQVKSLFESSIDKIS  535 (679)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHTTTSS
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhcC
Confidence            88888888888888888777  555444

>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=96.40  E-value=0.017  Score=41.23  Aligned_cols=117  Identities=8%  Similarity=-0.067  Sum_probs=72.7

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLY  111 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y  111 (245)
                      ..|..+-..+...|.++.|.......  . +.+...+..+-..+...|++++|.+.++...+.  ...+...|..+-.+|
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            44566666666777777776543332  2 235677777788888888888888888877552  122456777788888


Q ss_pred             hccCCHHHHHHHHHhcC-CCC-cHHHHHHHH--HHHHhCCCCcccc
Q 043265          112 GRLQKIAEAREFIRNMQ-IDA-SSVVWETLE--KYAQTEPGLLLGE  153 (245)
Q Consensus       112 ~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li--~~~~~~g~~~~~~  153 (245)
                      .+.|++++|...|++.. ..| +...+..+-  ..+...|+.+.|.
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~  137 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAI  137 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888887663 223 333442222  2244445555443

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=96.28  E-value=0.052  Score=46.65  Aligned_cols=26  Identities=8%  Similarity=-0.026  Sum_probs=20.6

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhc
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNI   28 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~   28 (245)
                      +.+=..|.+.|++++|...|.+..+.
T Consensus       272 ~~~G~~~~~~g~~~~A~~~y~~Al~~  297 (457)
T 1kt0_A          272 KEKGTVYFKGGKYMQAVIQYGKIVSW  297 (457)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence            33446788899999999999998764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=96.27  E-value=0.052  Score=39.17  Aligned_cols=94  Identities=9%  Similarity=-0.012  Sum_probs=75.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAV   81 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~   81 (245)
                      +=..+.+.|++++|++.|++....+- -+...|..+-.+|...|.+++|....+.  .+.| +...|..+-.+|.+.|++
T Consensus        42 lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~~lg~~  120 (151)
T 3gyz_A           42 YAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQLRLKAP  120 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH
Confidence            44577889999999999999987642 3678899999999999999988775433  2344 477888999999999999


Q ss_pred             HHHHHHHHHhhhhcCCCcchH
Q 043265           82 DEGFQHFESVTRDYDINPTLE  102 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~~~  102 (245)
                      ++|...|+...+   +.|+..
T Consensus       121 ~eA~~~~~~al~---l~~~~~  138 (151)
T 3gyz_A          121 LKAKECFELVIQ---HSNDEK  138 (151)
T ss_dssp             HHHHHHHHHHHH---HCCCHH
T ss_pred             HHHHHHHHHHHH---hCCCHH
Confidence            999999998866   346643

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=96.23  E-value=0.019  Score=41.90  Aligned_cols=99  Identities=10%  Similarity=0.066  Sum_probs=78.0

Q ss_pred             CcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHH-HhccCCH--HHHHHHHHhcC-CCC-cHHHH
Q 043265           63 PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDL-YGRLQKI--AEAREFIRNMQ-IDA-SSVVW  136 (245)
Q Consensus        63 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~-y~~~g~~--~~a~~~~~~m~-~~~-~~~~~  136 (245)
                      .+...|..+-..|...|++++|...|+...+.   .| +...+..+-.+ |.+.|+.  ++|...|++.. ..| +...|
T Consensus        42 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  118 (177)
T 2e2e_A           42 QNSEQWALLGEYYLWQNDYSNSLLAYRQALQL---RGENAELYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITAL  118 (177)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHH
Confidence            46788899999999999999999999988652   23 45677778888 8889998  99999998774 344 46677


Q ss_pred             HHHHHHHHhCCCCccccccc--cccccccc
Q 043265          137 ETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       137 ~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ..+-..+...|+.+.|...+  ++++.|+.
T Consensus       119 ~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A          119 MLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            77778899999999888776  66665543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.22  E-value=0.13  Score=43.10  Aligned_cols=61  Identities=13%  Similarity=0.215  Sum_probs=30.0

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCC---Cc-chHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDI---NP-TLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~---~p-~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      .++..+...|...|++++|..++++......-   .| ....|..++..|...|++++|..++++
T Consensus       136 ~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  200 (434)
T 4b4t_Q          136 SLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTA  200 (434)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            34455555555556666665555544321111   11 123455555566666666655555543

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=96.18  E-value=0.14  Score=38.70  Aligned_cols=116  Identities=10%  Similarity=0.088  Sum_probs=65.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh----hHHHHHHHHhcCCCC-cHhhHHHHHHHhcc----
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLK----LLEAGKRFENDGVRP-NWSTFVGVITACGC----   77 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~----~~~~~~~~~~~~~~p-~~~t~~~ll~~~~~----   77 (245)
                      ..|...+++++|.++|.+..+.|   ++..+..|=..|.. +    +.+.+.+..+....+ +...+..|-..|..    
T Consensus        26 ~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g~~~a~~~Lg~~y~~g~g~  101 (212)
T 3rjv_A           26 DTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAGSKSGEIVLARVLVNRQAG  101 (212)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTCGGGS
T ss_pred             HHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCC
Confidence            34555677777777777776665   34455555555555 4    555555443332222 34455555555555    


Q ss_pred             cCcHHHHHHHHHHhhhhcCCC-cchHHHHHHHHHHhc----cCCHHHHHHHHHhc
Q 043265           78 FGAVDEGFQHFESVTRDYDIN-PTLEHFLGIVDLYGR----LQKIAEAREFIRNM  127 (245)
Q Consensus        78 ~g~~~~a~~~~~~m~~~~~~~-p~~~~~~~li~~y~~----~g~~~~a~~~~~~m  127 (245)
                      .++.++|.+.|+...+ .+.. .....+..|=.+|..    .++.++|...|++-
T Consensus       102 ~~d~~~A~~~~~~A~~-~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A  155 (212)
T 3rjv_A          102 ATDVAHAITLLQDAAR-DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGS  155 (212)
T ss_dssp             SCCHHHHHHHHHHHTS-STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHH-cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            6677777777766644 2221 014455566666666    56677777777655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=96.13  E-value=0.18  Score=37.97  Aligned_cols=133  Identities=8%  Similarity=-0.109  Sum_probs=89.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCc-
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGA-   80 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~-   80 (245)
                      +-..|.+.|++++|+..|++..+.+- -+...|..+-..|...|.++.|....+.-  ..| +...|..+-..|...|. 
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~  138 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQ  138 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHH
Confidence            55778899999999999999987642 25788999999999999999887764432  344 46677777777765554 


Q ss_pred             -HHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHH
Q 043265           81 -VDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEK  141 (245)
Q Consensus        81 -~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~  141 (245)
                       .+.+...+....   ...|....+-.+-.++...|+.++|...|++.- ..|+......+..
T Consensus       139 ~~~~~~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~~  198 (208)
T 3urz_A          139 EKKKLETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence             344455554332   122222233334445566789999999998874 6788766555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=96.09  E-value=0.071  Score=36.23  Aligned_cols=94  Identities=7%  Similarity=-0.045  Sum_probs=49.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      +-..+.+.|++++|.+.|.+..+..  |+..                           .....+..+-.++.+.|++++|
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~---------------------------~~~~~~~~lg~~~~~~~~~~~A   58 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGV---------------------------YTPNALYWLGESYYATRNFQLA   58 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSST---------------------------THHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCc---------------------------ccHHHHHHHHHHHHHhccHHHH
Confidence            3356677888888888888876543  2210                           0001233333444555666666


Q ss_pred             HHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           85 FQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        85 ~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ...|+.......-.+. ...+..+-.+|.+.|+.++|...|+..
T Consensus        59 ~~~~~~~~~~~p~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  102 (129)
T 2xev_A           59 EAQFRDLVSRYPTHDKAAGGLLKLGLSQYGEGKNTEAQQTLQQV  102 (129)
T ss_dssp             HHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6666655432111100 334455556666666666666666555

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=96.08  E-value=0.012  Score=40.31  Aligned_cols=92  Identities=13%  Similarity=-0.045  Sum_probs=67.8

Q ss_pred             HHHHHhcccCcHHHHHHHHHHhhhhcCCCcch----HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc----HHHHHHHH
Q 043265           70 GVITACGCFGAVDEGFQHFESVTRDYDINPTL----EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS----SVVWETLE  140 (245)
Q Consensus        70 ~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~----~~~~~~li  140 (245)
                      .+-..+...|++++|...|+...+.   .|+.    ..+..+-.+|.+.|++++|...|++.- ..|+    ...+..+-
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            3455677899999999999988663   2332    467788899999999999999998773 2344    44566666


Q ss_pred             HHHHhCCCCccccccc--cccccccc
Q 043265          141 KYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ..+...|+.+.|...+  ++...|+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p~~  109 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYPGS  109 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence            7888889988887766  55554443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=96.06  E-value=0.02  Score=45.77  Aligned_cols=92  Identities=5%  Similarity=-0.018  Sum_probs=65.8

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHH
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIV  108 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li  108 (245)
                      +...+..+-..+.+.|.++.|.......  ..| +...|..+-.+|.+.|++++|...++...+   +.| +...+..+-
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCCHHHHHHHH
Confidence            4456666777777778777776654432  234 567777788888888888888888877644   344 456677788


Q ss_pred             HHHhccCCHHHHHHHHHhc
Q 043265          109 DLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       109 ~~y~~~g~~~~a~~~~~~m  127 (245)
                      .+|.+.|++++|...|++.
T Consensus        80 ~~~~~~g~~~~A~~~~~~a   98 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRA   98 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            8888888888888888765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=95.97  E-value=0.025  Score=49.28  Aligned_cols=121  Identities=8%  Similarity=-0.057  Sum_probs=84.3

Q ss_pred             HHHHcCCHHHHHHHHHHHHhc---CC---CCC-HHHHHHHHHHhhhhhhHHHHHHHHhc----------CCCCc-HhhHH
Q 043265            8 HLCREREVKAALEVMDKLKNI---GI---FLD-SPDIIELLNVCMDLKLLEAGKRFEND----------GVRPN-WSTFV   69 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~---g~---~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~----------~~~p~-~~t~~   69 (245)
                      .+-..|++++|+.++.+..+.   -+   .|+ ..+++.|..+|...|.+++|..+.+.          .-.|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            455789999999998887532   12   233 46788888888888988888765221          23344 56788


Q ss_pred             HHHHHhcccCcHHHHHHHHHHhhh----hcCCC-cc-hHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           70 GVITACGCFGAVDEGFQHFESVTR----DYDIN-PT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        70 ~ll~~~~~~g~~~~a~~~~~~m~~----~~~~~-p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      .|-..|...|++++|+.++++..+    ..|-. |+ ..+.+.+-.++...|..++|+.+|.+++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888889999999988888875532    12322 33 3455667778888888888888887764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=95.94  E-value=0.15  Score=43.23  Aligned_cols=160  Identities=13%  Similarity=0.015  Sum_probs=84.1

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh-------------------hHHHHHHHHhc--C
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLK-------------------LLEAGKRFEND--G   60 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~-------------------~~~~~~~~~~~--~   60 (245)
                      ++.+-..|.+.|++++|.+.|.+..+..- -+..++..+-..|...+                   ..+.+....+.  .
T Consensus       250 ~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~  328 (472)
T 4g1t_A          250 LRSAAKFYRRKDEPDKAIELLKKALEYIP-NNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADE  328 (472)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhh
Confidence            34455677888888888888888776531 23455555544443221                   12222221111  1


Q ss_pred             C-CCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchH--HHHHHH-HHHhccCCHHHHHHHHHhcC-CC-----
Q 043265           61 V-RPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLE--HFLGIV-DLYGRLQKIAEAREFIRNMQ-ID-----  130 (245)
Q Consensus        61 ~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~--~~~~li-~~y~~~g~~~~a~~~~~~m~-~~-----  130 (245)
                      . +.+..++..+-..|...|++++|.+.|++..+ ....|...  .+..+- -.+...|+.++|...|++.- +.     
T Consensus       329 ~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~  407 (472)
T 4g1t_A          329 ANDNLFRVCSILASLHALADQYEEAEYYFQKEFS-KELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSRE  407 (472)
T ss_dssp             HCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHH
T ss_pred             cCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHH
Confidence            2 23456677888888999999999999987755 22222211  122221 12346788888888775431 22     


Q ss_pred             --------------------CcHHHHHHHHHHHHhCCCCccccccc--ccccccc
Q 043265          131 --------------------ASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       131 --------------------~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                                          .+..+|+.+=..|...|+.+.|...+  ++++.+.
T Consensus       408 ~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~  462 (472)
T 4g1t_A          408 KEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSL  462 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC---------------
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence                                23455666666677777777766665  5555443

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=95.87  E-value=0.03  Score=46.03  Aligned_cols=117  Identities=9%  Similarity=-0.042  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc----------------HhhHHHHHHHhcccCcHHHHHHHHHHhhhhc
Q 043265           34 SPDIIELLNVCMDLKLLEAGKRFEND--GVRPN----------------WSTFVGVITACGCFGAVDEGFQHFESVTRDY   95 (245)
Q Consensus        34 ~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~----------------~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~   95 (245)
                      ...|..+-..|.+.|.++.|....+.  .+.|+                ...|..+-.+|.+.|++++|...|+...+  
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~--  224 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE--  224 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--
Confidence            45677777788888888888665332  22343                47889999999999999999999998865  


Q ss_pred             CCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcccc
Q 043265           96 DINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGE  153 (245)
Q Consensus        96 ~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~  153 (245)
                       +.| +...|..+-.+|.+.|++++|...|++.. +.| +...|..+-..+...|+.+.+.
T Consensus       225 -~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  284 (336)
T 1p5q_A          225 -LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  284 (336)
T ss_dssp             -HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence             234 56788889999999999999999998764 344 4566766667777777766653

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=95.76  E-value=0.023  Score=39.15  Aligned_cols=60  Identities=5%  Similarity=-0.057  Sum_probs=29.1

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ...|..+-.++...|+.++|...|+...+   +.| +...+..+-.+|.+.|+.++|...|++.
T Consensus        51 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~---l~P~~~~~~~~la~~~~~~g~~~~A~~~~~~a  111 (121)
T 1hxi_A           51 EEAWRSLGLTQAENEKDGLAIIALNHARM---LDPKDIAVHAALAVSHTNEHNANAALASLRAW  111 (121)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44444444455555555555555554433   223 2334445555555555555555555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.72  E-value=0.11  Score=32.64  Aligned_cols=78  Identities=17%  Similarity=0.216  Sum_probs=56.9

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLE  140 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li  140 (245)
                      +...+..+-..+...|++++|...|++....   .| +...+..+-.+|.+.|++++|...|++.. ..| +...+..+-
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~   84 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL---DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLG   84 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            3566777778888999999999999887652   23 46678888899999999999999998763 334 344554444


Q ss_pred             HHHH
Q 043265          141 KYAQ  144 (245)
Q Consensus       141 ~~~~  144 (245)
                      ..+.
T Consensus        85 ~~~~   88 (91)
T 1na3_A           85 NAKQ   88 (91)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=95.62  E-value=0.25  Score=42.38  Aligned_cols=17  Identities=12%  Similarity=-0.042  Sum_probs=8.1

Q ss_pred             cCCHHHHHHHHHHHHhc
Q 043265           12 EREVKAALEVMDKLKNI   28 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~   28 (245)
                      .+++++|.++|.+..+.
T Consensus        92 ~~~~~~A~~~~~~a~~~  108 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALK  108 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHC
Confidence            44444555555444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=95.48  E-value=0.017  Score=40.59  Aligned_cols=122  Identities=9%  Similarity=-0.024  Sum_probs=81.9

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcCCC-----Cc----HhhHHHHHHHhcccCcHHHHHHHHHHhhhhc---CCCc-ch
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDGVR-----PN----WSTFVGVITACGCFGAVDEGFQHFESVTRDY---DINP-TL  101 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~~~-----p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---~~~p-~~  101 (245)
                      .++..+-..|...|.++.+.......+.     ++    ..++..+-..+...|++++|.+.+++...-.   +-.+ ..
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            4566666677777777777654222111     11    2478888899999999999999998765421   1111 14


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHhcC-----C-CC--cHHHHHHHHHHHHhCCCCccccccc
Q 043265          102 EHFLGIVDLYGRLQKIAEAREFIRNMQ-----I-DA--SSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       102 ~~~~~li~~y~~~g~~~~a~~~~~~m~-----~-~~--~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ..+..+-..|...|++++|...+++..     . .+  ...++..+-..+...|+.+.|....
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  152 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFA  152 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            567888899999999999999887652     1 11  1345566667788888888766544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=95.48  E-value=0.14  Score=34.93  Aligned_cols=87  Identities=5%  Similarity=-0.119  Sum_probs=70.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVD   82 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~   82 (245)
                      -..+.+.|++++|...|++..+..- -+...|..+-.++.+.|.++.|....+.  ...| +...+..+-.++.+.|+++
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~~~  102 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNAN  102 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            3578899999999999999987532 2677888888888899998888776444  2344 5678888999999999999


Q ss_pred             HHHHHHHHhhh
Q 043265           83 EGFQHFESVTR   93 (245)
Q Consensus        83 ~a~~~~~~m~~   93 (245)
                      +|...|+...+
T Consensus       103 ~A~~~~~~al~  113 (121)
T 1hxi_A          103 AALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            99999998754

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=95.35  E-value=0.28  Score=37.03  Aligned_cols=122  Identities=7%  Similarity=-0.036  Sum_probs=88.7

Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCC-cHhhHHHHHHHhcccC----cHHHHHHHHHH
Q 043265           16 KAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRP-NWSTFVGVITACGCFG----AVDEGFQHFES   90 (245)
Q Consensus        16 ~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p-~~~t~~~ll~~~~~~g----~~~~a~~~~~~   90 (245)
                      .+|.++|.+..+.|   ++..+..+=..|...++++.|.+..+....+ +...+..|=..|.. +    +.++|.+.|+.
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            35778888888876   5677777778888888888887654433322 46666777777777 6    89999999998


Q ss_pred             hhhhcCCCcchHHHHHHHHHHhc----cCCHHHHHHHHHhcC-CCCc---HHHHHHHHHHHHh
Q 043265           91 VTRDYDINPTLEHFLGIVDLYGR----LQKIAEAREFIRNMQ-IDAS---SVVWETLEKYAQT  145 (245)
Q Consensus        91 m~~~~~~~p~~~~~~~li~~y~~----~g~~~~a~~~~~~m~-~~~~---~~~~~~li~~~~~  145 (245)
                      ..+ .|   +...+..|-.+|..    .++.++|...|++-- ..|+   +..+..|=..|..
T Consensus        79 A~~-~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~  137 (212)
T 3rjv_A           79 AVE-AG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYAS  137 (212)
T ss_dssp             HHH-TT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHH
T ss_pred             HHH-CC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHc
Confidence            865 33   56677778888877    889999999998875 2332   5666666666655

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=95.33  E-value=0.12  Score=34.93  Aligned_cols=103  Identities=12%  Similarity=0.061  Sum_probs=70.0

Q ss_pred             HcCCHHHHHHHHHHHHhcCCC-C-CHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHH
Q 043265           11 REREVKAALEVMDKLKNIGIF-L-DSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGF   85 (245)
Q Consensus        11 ~~g~~~~A~~lf~~m~~~g~~-p-~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~   85 (245)
                      ..|++++|+..|.+..+.+.. | +...|..+-..|.+.|.++.|....+..  ..| +...+..+-.++.+.|++++|.
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            457889999999998876521 3 3567778888888889888887754432  233 5778888889999999999999


Q ss_pred             HHHHHhhhhcCCCcchHHHHHHHHHHhc
Q 043265           86 QHFESVTRDYDINPTLEHFLGIVDLYGR  113 (245)
Q Consensus        86 ~~~~~m~~~~~~~p~~~~~~~li~~y~~  113 (245)
                      ..|+.......-.|+...|...|..|.+
T Consensus        82 ~~~~~al~~~p~~~~~~~~~~ai~~~~~  109 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQSYKQAILFYAD  109 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHHTHHHHHHHTT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            9999876644444455555555555443

>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=95.30  E-value=0.096  Score=38.94  Aligned_cols=101  Identities=9%  Similarity=-0.016  Sum_probs=77.7

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc--------------hHHHHHHHHHHhccCCHHHHHHHHHhcC-
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT--------------LEHFLGIVDLYGRLQKIAEAREFIRNMQ-  128 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~--------------~~~~~~li~~y~~~g~~~~a~~~~~~m~-  128 (245)
                      ....+..+-..+.+.|++++|.+.|.+...-..-.|+              ...|..+-.+|.+.|++++|...|+... 
T Consensus        37 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           37 SAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3556677777888999999999999988652222221              2678889999999999999999998764 


Q ss_pred             CC-CcHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          129 ID-ASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       129 ~~-~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .. .+...|..+-.++...|+.+.|...+  ++++.|+.
T Consensus       117 ~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~  155 (198)
T 2fbn_A          117 IDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNN  155 (198)
T ss_dssp             HSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTC
T ss_pred             hCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCc
Confidence            33 45677777778889999999988777  77777765

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=95.27  E-value=0.15  Score=36.53  Aligned_cols=114  Identities=13%  Similarity=0.075  Sum_probs=76.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcC------CCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCc
Q 043265            7 KHLCREREVKAALEVMDKLKNIG------IFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGA   80 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g------~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~   80 (245)
                      ..+.+.|++++|++.|.+....-      -.|+...+                .++    -+-+...|..+-.+|.+.|+
T Consensus        19 ~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~----------------~~~----~~~~~~~~~nla~~~~~~~~   78 (162)
T 3rkv_A           19 NELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEW----------------VEL----DRKNIPLYANMSQCYLNIGD   78 (162)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHH----------------HHH----HHTHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHH----------------HHH----HHHHHHHHHHHHHHHHhcCc
Confidence            46777888888888888865430      00111100                000    11235678888889999999


Q ss_pred             HHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHH-HHHHHHHHH
Q 043265           81 VDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSV-VWETLEKYA  143 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~-~~~~li~~~  143 (245)
                      +++|...++...+   +.| +...|..+-.+|...|++++|...|+... +.|+.. .....+..+
T Consensus        79 ~~~A~~~~~~al~---~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~  141 (162)
T 3rkv_A           79 LHEAEETSSEVLK---REETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIV  141 (162)
T ss_dssp             HHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            9999999988765   234 46778889999999999999999998764 466644 444444333

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=95.27  E-value=0.58  Score=40.08  Aligned_cols=18  Identities=6%  Similarity=0.086  Sum_probs=8.3

Q ss_pred             cCCHHHHHHHHHHHHhcC
Q 043265           12 EREVKAALEVMDKLKNIG   29 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g   29 (245)
                      .+++++|.++|.+..+.|
T Consensus       128 ~~~~~~A~~~~~~a~~~~  145 (490)
T 2xm6_A          128 KVDKAESVKWFRLAAEQG  145 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHCC
Confidence            344444444444444443

>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=95.25  E-value=0.18  Score=42.08  Aligned_cols=129  Identities=11%  Similarity=0.052  Sum_probs=83.2

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCC-cHhhHHHHHHHhcccCcH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRP-NWSTFVGVITACGCFGAV   81 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p-~~~t~~~ll~~~~~~g~~   81 (245)
                      ..+=..|.+.|++++|++.|.+..+.-  |.   .       ......+...+     ..| +...|..+-.+|.+.|++
T Consensus       227 ~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~---~-------~~~~~~~~~~~-----~~~~~~~~~~nla~~~~~~g~~  289 (370)
T 1ihg_A          227 KNIGNTFFKSQNWEMAIKKYTKVLRYV--EG---S-------RAAAEDADGAK-----LQPVALSCVLNIGACKLKMSDW  289 (370)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHH--HH---H-------HHHSCHHHHGG-----GHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHh--hc---C-------ccccChHHHHH-----HHHHHHHHHHHHHHHHHhccCH
Confidence            344567788899999999998876520  00   0       00011111111     122 456788888888889999


Q ss_pred             HHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcc
Q 043265           82 DEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~  151 (245)
                      ++|.+.+++..+   +.| +...|..+-.+|.+.|++++|...|++.. ..| +...+..+-..+...++.+.
T Consensus       290 ~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~  359 (370)
T 1ihg_A          290 QGAVDSCLEALE---IDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKD  359 (370)
T ss_dssp             HHHHHHHHHHHT---TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH---hCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999987754   344 46677788888999999999999887763 344 44555555565555544443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.25  E-value=0.12  Score=33.99  Aligned_cols=80  Identities=13%  Similarity=0.130  Sum_probs=59.9

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC----CCCcHHHHHH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ----IDASSVVWET  138 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~----~~~~~~~~~~  138 (245)
                      +...+..+-..|.+.|++++|...|+...+.   .| +...|..+-.+|.+.|++++|...|++.-    ..++.....-
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~   82 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET---DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSE   82 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHH
Confidence            5677888888999999999999999988663   34 35678889999999999999999997653    1345555555


Q ss_pred             HHHHHHhC
Q 043265          139 LEKYAQTE  146 (245)
Q Consensus       139 li~~~~~~  146 (245)
                      +-..+...
T Consensus        83 l~~~l~~~   90 (100)
T 3ma5_A           83 LQDAKLKA   90 (100)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHc
Confidence            55555443

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=95.19  E-value=0.11  Score=35.97  Aligned_cols=99  Identities=10%  Similarity=0.033  Sum_probs=64.1

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc--------hHHH
Q 043265           36 DIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT--------LEHF  104 (245)
Q Consensus        36 t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~--------~~~~  104 (245)
                      .+..+=..+.+.|.++.|.+....  .+.| +...|+.+-.+|.+.|++++|.+.|+...+   +.|+        ..+|
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVE---VGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH---hCcccchhhHHHHHHH
Confidence            444455566677777777654332  2234 467788888888888888888888876643   1121        2356


Q ss_pred             HHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHH
Q 043265          105 LGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWE  137 (245)
Q Consensus       105 ~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~  137 (245)
                      ..+=.+|...|++++|.+.|++-- ..||..+..
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~~~~~~~  120 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFRDPELVK  120 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSCCHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcCHHHHH
Confidence            666677888888888888887642 345654433

>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=95.18  E-value=0.2  Score=39.84  Aligned_cols=90  Identities=8%  Similarity=-0.062  Sum_probs=72.9

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g   79 (245)
                      ..+-..+.+.|++++|+..|.+.....- -+...|..+-.+|.+.|.++.|....+.  ...| +...+..+-.++...|
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g   86 (281)
T 2c2l_A            8 KEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEME   86 (281)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3445678899999999999999887532 2678889999999999999998876544  3344 5778888999999999


Q ss_pred             cHHHHHHHHHHhhh
Q 043265           80 AVDEGFQHFESVTR   93 (245)
Q Consensus        80 ~~~~a~~~~~~m~~   93 (245)
                      ++++|...|....+
T Consensus        87 ~~~~A~~~~~~al~  100 (281)
T 2c2l_A           87 SYDEAIANLQRAYS  100 (281)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999987754

>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=94.65  E-value=0.11  Score=43.41  Aligned_cols=97  Identities=10%  Similarity=-0.005  Sum_probs=71.0

Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhh-------------cCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRD-------------YDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-  131 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~-------------~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-  131 (245)
                      +..+-..+.+.|++++|.+.|++..+-             ....| +...|..+-.+|.+.|++++|...+++.- ..| 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  305 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  305 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch
Confidence            444555666777777777777765430             00223 45788899999999999999999998763 445 


Q ss_pred             cHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          132 SSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       132 ~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      +...|..+-.++...|+.+.|...+  ++++.|+.
T Consensus       306 ~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~  340 (370)
T 1ihg_A          306 NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPED  340 (370)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCC
Confidence            4667777778899999999988777  77777765

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=94.59  E-value=0.11  Score=42.70  Aligned_cols=116  Identities=12%  Similarity=0.050  Sum_probs=73.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQ   86 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~   86 (245)
                      ..+.+.|++++|...|.+.....  |+...       +...+..+.+..-.      ....|..+-.+|.+.|++++|..
T Consensus       187 ~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l------~~~~~~nla~~~~~~g~~~~A~~  251 (338)
T 2if4_A          187 NSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAV------KNPCHLNIAACLIKLKRYDEAIG  251 (338)
T ss_dssp             HHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHH------HTHHHHHHHHHHHTTTCCHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHH------HHHHHHHHHHHHHHcCCHHHHHH
Confidence            45566788888888888876542  33321       12223333332211      12378888899999999999999


Q ss_pred             HHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH-HHHHHHH
Q 043265           87 HFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS-VVWETLE  140 (245)
Q Consensus        87 ~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~-~~~~~li  140 (245)
                      .++...+   +.| +...|..+-.+|...|++++|...|++.. +.|+. ..+..+-
T Consensus       252 ~~~~al~---~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~  305 (338)
T 2if4_A          252 HCNIVLT---EEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELR  305 (338)
T ss_dssp             HHHHHHH---HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------
T ss_pred             HHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence            9998865   234 56788899999999999999999999875 45543 3344333

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=94.49  E-value=0.21  Score=33.27  Aligned_cols=61  Identities=11%  Similarity=-0.016  Sum_probs=44.3

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      +...+..+-..|...|++++|...|+...+.   .| +...|..+-.+|.+.|+.++|...|++.
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDF---DPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4566777777777888888888888776542   23 3556777778888888888888887765

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=94.23  E-value=0.78  Score=39.79  Aligned_cols=73  Identities=12%  Similarity=0.110  Sum_probs=52.3

Q ss_pred             cHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCCccccccc
Q 043265           80 AVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQIDASSVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      +.+.|..+|+...+..+-.|  ..+...++...+.|+.+.|+.+|++..  .....|...+..=..+|+.+.+..+.
T Consensus       335 d~~~ar~ife~al~~~~~~~--~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~  407 (493)
T 2uy1_A          335 SRATPYNIFSSGLLKHPDST--LLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELV  407 (493)
T ss_dssp             CSHHHHHHHHHHHHHCTTCH--HHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            58888888887766433222  345667777778888888888888874  35778888888777888877765543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=94.15  E-value=0.12  Score=42.35  Aligned_cols=97  Identities=9%  Similarity=-0.099  Sum_probs=73.1

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchH------------------HHHHHHHHHhccCCHHHHHHHHHh
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLE------------------HFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~------------------~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      ...+..+-..+.+.|++++|...|.....   +.|+..                  .|..+-.+|.+.|++++|...|++
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~---~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~  255 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIA---YMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNI  255 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHH---HSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---HhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34466777788899999999999987654   334433                  788899999999999999999987


Q ss_pred             cC-CCC-cHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          127 MQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       127 m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .- ..| +...|..+-.+|...|+++.|...+  ++++.|+.
T Consensus       256 al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~  297 (338)
T 2if4_A          256 VLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDD  297 (338)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence            63 344 5677888889999999999988777  77666654

>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=94.09  E-value=0.41  Score=40.84  Aligned_cols=63  Identities=13%  Similarity=0.103  Sum_probs=39.8

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhh----hc-CCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTR----DY-DINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~-~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+++.+...|...|++++|+.++++...    .. .-.|+ ..+++.|-..|...|++++|+.++++.
T Consensus       329 ~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          329 LKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            34566666666666666666666654432    12 23344 366777888888888888888777644

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=94.05  E-value=0.038  Score=36.47  Aligned_cols=30  Identities=17%  Similarity=0.058  Sum_probs=20.8

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhh
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTR   93 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~   93 (245)
                      +...|..+-.++.+.|++++|.+.|+...+
T Consensus        37 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A           37 NPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            345566666777777788888888776643

>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=94.04  E-value=0.27  Score=42.08  Aligned_cols=63  Identities=11%  Similarity=0.204  Sum_probs=43.7

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhh----hcC-CCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTR----DYD-INPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~~-~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..+++.|..+|...|++++|+.++++..+    ..| -.|+ ..+|+.|-..|...|++++|+.++++-
T Consensus       340 a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          340 LHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            46677777777777777777777765532    123 2355 366888888888888888888877654

>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=93.96  E-value=0.18  Score=43.24  Aligned_cols=84  Identities=2%  Similarity=0.001  Sum_probs=46.5

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHH
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEK  141 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~  141 (245)
                      ...|..+-.+|.+.|++++|...|+...+   +.| +...|..+-.+|.+.|++++|...|++.. +.|+ ...|..+-.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~---~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~  393 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALG---LDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISM  393 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            35566666666666666666666666544   223 34556666666666666666666666552 3333 334444445


Q ss_pred             HHHhCCCCcc
Q 043265          142 YAQTEPGLLL  151 (245)
Q Consensus       142 ~~~~~g~~~~  151 (245)
                      ++...++.+.
T Consensus       394 ~~~~~~~~~~  403 (457)
T 1kt0_A          394 CQKKAKEHNE  403 (457)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555444443

>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=93.82  E-value=0.19  Score=43.36  Aligned_cols=110  Identities=8%  Similarity=-0.015  Sum_probs=77.5

Q ss_pred             HhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHH
Q 043265           43 VCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIA  118 (245)
Q Consensus        43 ~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~  118 (245)
                      .+.+.|.+++|.+..+..  ..| +...|..+-.+|.+.|++++|.+.+++..+   +.| +...|..+-.+|.+.|+++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIE---LDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---SCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHH
Confidence            345567777776653332  234 478899999999999999999999998865   344 4678889999999999999


Q ss_pred             HHHHHHHhcC-CCCc-HHHHHHHHHH--HHhCCCCcccccc
Q 043265          119 EAREFIRNMQ-IDAS-SVVWETLEKY--AQTEPGLLLGEPS  155 (245)
Q Consensus       119 ~a~~~~~~m~-~~~~-~~~~~~li~~--~~~~g~~~~~~~~  155 (245)
                      +|.+.|++.- ..|+ ...+..+-.+  +...|+.+.|...
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~  132 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  132 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC---
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999998763 3333 3344444333  6666777766544

>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=93.80  E-value=0.29  Score=34.34  Aligned_cols=107  Identities=7%  Similarity=-0.084  Sum_probs=73.3

Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC-CCcHhhHHHHHHHhcc----cCcHHHHHH
Q 043265           12 EREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV-RPNWSTFVGVITACGC----FGAVDEGFQ   86 (245)
Q Consensus        12 ~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~-~p~~~t~~~ll~~~~~----~g~~~~a~~   86 (245)
                      .+++++|.++|.+..+.|- |+..    |=..|...+.++.+.+..+... .-+...+..|=..|..    .++.++|.+
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 KKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            4578999999999998883 4443    4444544445555544322211 1345666666666666    789999999


Q ss_pred             HHHHhhhhcCCCcchHHHHHHHHHHhc----cCCHHHHHHHHHhc
Q 043265           87 HFESVTRDYDINPTLEHFLGIVDLYGR----LQKIAEAREFIRNM  127 (245)
Q Consensus        87 ~~~~m~~~~~~~p~~~~~~~li~~y~~----~g~~~~a~~~~~~m  127 (245)
                      .|+...+ .|   +...+..|-.+|..    .++.++|...|++-
T Consensus        83 ~~~~Aa~-~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~A  123 (138)
T 1klx_A           83 YYSKACG-LN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKA  123 (138)
T ss_dssp             HHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHH
Confidence            9998866 34   55667777788887    78999999998765

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=93.50  E-value=1.4  Score=31.18  Aligned_cols=67  Identities=12%  Similarity=0.093  Sum_probs=50.0

Q ss_pred             CHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchH
Q 043265           33 DSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLE  102 (245)
Q Consensus        33 ~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~  102 (245)
                      +...|..+-.+|.+.|.++.|.......  +.| +...|..+-.+|...|++++|...|+....   +.|+..
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~---l~p~~~  131 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLR---NHPAAA  131 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCGGGH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh---cCCCCH
Confidence            3467888888888888888876643321  234 577888999999999999999999998755   456543

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=93.03  E-value=0.16  Score=37.09  Aligned_cols=94  Identities=12%  Similarity=0.063  Sum_probs=61.9

Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-------------hHHHHHHHHHHhccCCHHHHHHHHHhcC-C----
Q 043265           68 FVGVITACGCFGAVDEGFQHFESVTRDYDINPT-------------LEHFLGIVDLYGRLQKIAEAREFIRNMQ-I----  129 (245)
Q Consensus        68 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-------------~~~~~~li~~y~~~g~~~~a~~~~~~m~-~----  129 (245)
                      +...=..+.+.|++++|.+.|+...+   +.|+             ...|+.+-.++.+.|++++|...|++-- +    
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~---l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAME---ISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH---HHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            33444456677888888888876644   2333             2277778888888888888877775442 3    


Q ss_pred             ---CCc-HHHH----HHHHHHHHhCCCCccccccc--cccccccc
Q 043265          130 ---DAS-SVVW----ETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       130 ---~~~-~~~~----~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                         .|| ...|    ...=.++...|+.+.|...+  ++++.|+.
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d  135 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  135 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence               565 3456    55557777778888777766  66666654

>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=92.73  E-value=0.59  Score=34.04  Aligned_cols=100  Identities=12%  Similarity=0.045  Sum_probs=66.7

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-CCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIF-LDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGF   85 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~-p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~   85 (245)
                      ..+.+.|++++|++.|++..+..-. |+.             ..++.        .+.+...|+.+-.++.+.|++++|.
T Consensus        19 ~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~-------------~a~~~--------~~~~a~a~~n~g~al~~Lgr~~eAl   77 (159)
T 2hr2_A           19 QRQLVAGEYDEAAANCRRAMEISHTMPPE-------------EAFDH--------AGFDAFCHAGLAEALAGLRSFDEAL   77 (159)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTT-------------SCCCH--------HHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCCcch-------------hhhhh--------ccchHHHHHHHHHHHHHCCCHHHHH
Confidence            3456678888888888887653221 221             00000        0012347888888888899999988


Q ss_pred             HHHHHhhhh----cCCCcc-hHHH----HHHHHHHhccCCHHHHHHHHHhc
Q 043265           86 QHFESVTRD----YDINPT-LEHF----LGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        86 ~~~~~m~~~----~~~~p~-~~~~----~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ..++...+-    ..+.|+ ...|    .-.=.++...|++++|...|++-
T Consensus        78 ~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kA  128 (159)
T 2hr2_A           78 HSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKV  128 (159)
T ss_dssp             HHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHH
Confidence            888877541    123675 4566    77788999999999999999865

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=92.67  E-value=0.24  Score=43.11  Aligned_cols=93  Identities=8%  Similarity=-0.062  Sum_probs=69.7

Q ss_pred             ChhHHHHHHHHcCCHHHHHHHHHHHHhc-----CC-CCC-HHHHHHHHHHhhhhhhHHHHHHHHhc---------C-CCC
Q 043265            1 DLNSELKHLCREREVKAALEVMDKLKNI-----GI-FLD-SPDIIELLNVCMDLKLLEAGKRFEND---------G-VRP   63 (245)
Q Consensus         1 t~n~ll~~~~~~g~~~~A~~lf~~m~~~-----g~-~p~-~~t~~~ll~~~~~~~~~~~~~~~~~~---------~-~~p   63 (245)
                      ++|.|-..|...|++++|+.++.+....     |- .|+ ..+++.|-..|...|.+++|..+.+.         | -+|
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp  432 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHP  432 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            4688889999999999999999987532     32 344 47789999999999999998776221         2 234


Q ss_pred             cH-hhHHHHHHHhcccCcHHHHHHHHHHhhh
Q 043265           64 NW-STFVGVITACGCFGAVDEGFQHFESVTR   93 (245)
Q Consensus        64 ~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~   93 (245)
                      +. .+.+.+-.++...+..++|+.++..+++
T Consensus       433 ~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          433 ITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            43 3455566677778889999999988865

>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=92.61  E-value=0.53  Score=40.13  Aligned_cols=85  Identities=9%  Similarity=-0.046  Sum_probs=60.6

Q ss_pred             HHHhcccCcHHHHHHHHHHhhhh--cCCC---c-chHHHHHHHHHHhccCCHHHHHHHHHhcC---------CCCcH-HH
Q 043265           72 ITACGCFGAVDEGFQHFESVTRD--YDIN---P-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ---------IDASS-VV  135 (245)
Q Consensus        72 l~~~~~~g~~~~a~~~~~~m~~~--~~~~---p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~---------~~~~~-~~  135 (245)
                      +..+.+.|++++|+.++++..+.  .-+-   | ...+++.|..+|...|++++|+.++++.-         ..|++ .+
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            44455677888888888766431  1222   3 35678889999999999999988887552         24553 56


Q ss_pred             HHHHHHHHHhCCCCccccccc
Q 043265          136 WETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       136 ~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ++.|=..|...|+++.|....
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~  394 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNL  394 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHH
Confidence            777778888999988887666

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=92.57  E-value=0.57  Score=31.05  Aligned_cols=76  Identities=13%  Similarity=-0.004  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhh
Q 043265           17 AALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTR   93 (245)
Q Consensus        17 ~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~   93 (245)
                      +|++.|.+..+.. ..+...|..+-..|...|.++.|....+..  ..| +...|..+-.+|...|+.++|...|+...+
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            4677777776643 235778888888898999888887654332  233 467888899999999999999999987754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=91.70  E-value=5.5  Score=33.73  Aligned_cols=134  Identities=10%  Similarity=0.016  Sum_probs=87.0

Q ss_pred             HHHHHHHcC---CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhh----hhHHHHHHHHhcCCCCcHhhHHHHHHH-h-
Q 043265            5 ELKHLCRER---EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDL----KLLEAGKRFENDGVRPNWSTFVGVITA-C-   75 (245)
Q Consensus         5 ll~~~~~~g---~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~----~~~~~~~~~~~~~~~p~~~t~~~ll~~-~-   75 (245)
                      |=..|.+.|   +.++|+++|.+..+.|- ++...+..|-..|...    ++.+.+.+..+...+-+...+..+-.. + 
T Consensus       182 Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~  260 (452)
T 3e4b_A          182 LATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYD  260 (452)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence            344566678   88899999999888874 4555445555555443    466666554333333344555555444 3 


Q ss_pred             -cccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccC-----CHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 043265           76 -GCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQ-----KIAEAREFIRNMQIDASSVVWETLEKYAQT  145 (245)
Q Consensus        76 -~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g-----~~~~a~~~~~~m~~~~~~~~~~~li~~~~~  145 (245)
                       ...++.++|.+.|+...+ .|   +...+..|=.+|. .|     +.++|...|++-- .-++..+..|=..|..
T Consensus       261 ~~~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g~~~A~~~Lg~~y~~  330 (452)
T 3e4b_A          261 FPELGDVEQMMKYLDNGRA-AD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GREVAADYYLGQIYRR  330 (452)
T ss_dssp             SGGGCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TTCHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHC
Confidence             458899999999988765 45   5556666666676 55     8999999998887 5555555555455544

>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=91.48  E-value=0.52  Score=40.26  Aligned_cols=76  Identities=11%  Similarity=0.087  Sum_probs=39.7

Q ss_pred             CCHHHHHHHHHHHHhc---CCC---CC-HHHHHHHHHHhhhhhhHHHHHHHHhc----------CCCCc-HhhHHHHHHH
Q 043265           13 REVKAALEVMDKLKNI---GIF---LD-SPDIIELLNVCMDLKLLEAGKRFEND----------GVRPN-WSTFVGVITA   74 (245)
Q Consensus        13 g~~~~A~~lf~~m~~~---g~~---p~-~~t~~~ll~~~~~~~~~~~~~~~~~~----------~~~p~-~~t~~~ll~~   74 (245)
                      |++++|+.++.+..+.   -+.   |+ ..+++.|..+|...|.+++|..+.+.          .-.|+ ..+++.|-..
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            4566666666654321   111   22 24566666666666666666554111          12333 3446666666


Q ss_pred             hcccCcHHHHHHHH
Q 043265           75 CGCFGAVDEGFQHF   88 (245)
Q Consensus        75 ~~~~g~~~~a~~~~   88 (245)
                      |...|+.++|+.++
T Consensus       392 ~~~qg~~~eA~~~~  405 (433)
T 3qww_A          392 YMGLENKAAGEKAL  405 (433)
T ss_dssp             HHHTTCHHHHHHHH
T ss_pred             HHhccCHHHHHHHH
Confidence            66666666666555

>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=91.37  E-value=5.4  Score=33.20  Aligned_cols=119  Identities=10%  Similarity=0.016  Sum_probs=80.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhh-----------hhHHHHHHH-Hh-cCCCCcHhhHHHHHHHhcccC
Q 043265           14 EVKAALEVMDKLKNIGIFLD-SPDIIELLNVCMDL-----------KLLEAGKRF-EN-DGVRPNWSTFVGVITACGCFG   79 (245)
Q Consensus        14 ~~~~A~~lf~~m~~~g~~p~-~~t~~~ll~~~~~~-----------~~~~~~~~~-~~-~~~~p~~~t~~~ll~~~~~~g   79 (245)
                      ...+|..+|++..+..  |+ ...|..+.-+|...           ..+..+.+- .. ..-+.+..+|.++--.+...|
T Consensus       214 ~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~g  291 (372)
T 3ly7_A          214 SLNRASELLGEIVQSS--PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKG  291 (372)
T ss_dssp             HHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCC
Confidence            3578999999988753  54 34444444444211           111112111 11 233567888888777777789


Q ss_pred             cHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc-CCCCcHHHHH
Q 043265           80 AVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM-QIDASSVVWE  137 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m-~~~~~~~~~~  137 (245)
                      ++++|...++.... .+  |+...|..+=..+.-.|+.++|.+.|.+- .+.|...||.
T Consensus       292 d~d~A~~~l~rAl~-Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~t~~  347 (372)
T 3ly7_A          292 KTDESYQAINTGID-LE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGANTLY  347 (372)
T ss_dssp             CHHHHHHHHHHHHH-HC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHHHHH
T ss_pred             CHHHHHHHHHHHHh-cC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcChHH
Confidence            99999999999877 34  88888878888899999999999999655 3577776643

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=91.13  E-value=2.1  Score=37.04  Aligned_cols=115  Identities=11%  Similarity=0.064  Sum_probs=76.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhh-hHHHHHHHHhcCCC--Cc-HhhHHHHHHHhcccCc
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLK-LLEAGKRFENDGVR--PN-WSTFVGVITACGCFGA   80 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~-~~~~~~~~~~~~~~--p~-~~t~~~ll~~~~~~g~   80 (245)
                      -+..+.+.+.++.|..+|.+....+  ++...|......-...+ +.+.++.+.+.+++  |+ ...+...+.-..+.|+
T Consensus       292 y~~~~~r~~~~~~AR~i~~~A~~~~--~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~  369 (493)
T 2uy1_A          292 HLNYVLKKRGLELFRKLFIELGNEG--VGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGD  369 (493)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHTTSC--CCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHhhCCC--CChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCC
Confidence            3444556778999999999993222  23444432222212223 47777776554432  33 3345556666778899


Q ss_pred             HHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           81 VDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        81 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .+.|..+|+...+      ....|...++.=.+.|+.+.+..++++.
T Consensus       370 ~~~aR~l~er~~k------~~~lw~~~~~fE~~~G~~~~~r~v~~~~  410 (493)
T 2uy1_A          370 EENARALFKRLEK------TSRMWDSMIEYEFMVGSMELFRELVDQK  410 (493)
T ss_dssp             HHHHHHHHHHSCC------BHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH------HHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999997732      5778889998888899999999988755

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=90.97  E-value=1.5  Score=35.07  Aligned_cols=124  Identities=5%  Similarity=-0.145  Sum_probs=82.8

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhcC--CCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc--hHHHHHHHHHHhc
Q 043265           38 IELLNVCMDLKLLEAGKRFENDG--VRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT--LEHFLGIVDLYGR  113 (245)
Q Consensus        38 ~~ll~~~~~~~~~~~~~~~~~~~--~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~y~~  113 (245)
                      -.+..++...|.+++|.++...-  ..|+....-.+-..+.+.+++++|+..|+..... . .|.  ...+..+=.++.+
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHHHHH
Confidence            34556677779999998876543  2454444455555788999999999999855331 1 121  2356667788999


Q ss_pred             cCCHHHHHHHHHhcCCC---Cc--HHHHHHHHHHHHhCCCCccccccc--ccccccc
Q 043265          114 LQKIAEAREFIRNMQID---AS--SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       114 ~g~~~~a~~~~~~m~~~---~~--~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      .|++++|++.|++....   |.  ...+...-.++...|+.+.|...+  +....|+
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             CCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            99999999999987312   43  223333445667778888888776  5555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=89.45  E-value=0.94  Score=29.38  Aligned_cols=26  Identities=8%  Similarity=0.146  Sum_probs=13.4

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHh
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESV   91 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m   91 (245)
                      ..|..+-.+|...|++++|.+.|++.
T Consensus        42 ~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A           42 GTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444555555555555555555544

>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=89.40  E-value=1.7  Score=31.56  Aligned_cols=111  Identities=14%  Similarity=0.139  Sum_probs=67.6

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHH
Q 043265           10 CREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFE   89 (245)
Q Consensus        10 ~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~   89 (245)
                      .|-+.+++|.+.|+...+.+- -+...|+.+=.++...+.++.+..-.                     +.+++|...|+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al---------------------~~~~eAi~~le   70 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAK---------------------QMIQEAITKFE   70 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHH---------------------HHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhH---------------------hHHHHHHHHHH
Confidence            344567777777777765432 24556665555665555444322211                     13677888777


Q ss_pred             HhhhhcCCCcc-hHHHHHHHHHHhccC-----------CHHHHHHHHHhcC-CCCcHHHHHHHHHHHHh
Q 043265           90 SVTRDYDINPT-LEHFLGIVDLYGRLQ-----------KIAEAREFIRNMQ-IDASSVVWETLEKYAQT  145 (245)
Q Consensus        90 ~m~~~~~~~p~-~~~~~~li~~y~~~g-----------~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~  145 (245)
                      +..+   +.|+ ...|..+=.+|.+.|           ++++|...|++-- +.|+...|..-+..+.+
T Consensus        71 ~AL~---ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~~~k  136 (158)
T 1zu2_A           71 EALL---IDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAK  136 (158)
T ss_dssp             HHHH---HCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHH---hCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            6654   4554 456777777777654           7888888887664 57777666666655444

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=89.38  E-value=1.3  Score=28.17  Aligned_cols=54  Identities=15%  Similarity=0.215  Sum_probs=41.2

Q ss_pred             HHHhcccCcHHHHHHHHHHhhhhcCCCc-chH-HHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           72 ITACGCFGAVDEGFQHFESVTRDYDINP-TLE-HFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        72 l~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~-~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      -..+.+.|++++|.+.|+...+.   .| +.. .|..+-.+|.+.|++++|...|++.-
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQT---EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH---CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34566788999999999887652   34 345 77788888889999999999887763

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=88.75  E-value=0.64  Score=29.71  Aligned_cols=46  Identities=13%  Similarity=0.169  Sum_probs=24.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHH-HHHHHHHHhhhhhhHHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSP-DIIELLNVCMDLKLLEAG   53 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~~   53 (245)
                      ..+.+.|++++|.+.|++..+..- .+.. .|..+-.+|...|.++.|
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A   54 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKA   54 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHH
Confidence            456677788888888877765421 1223 344444444444444433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.62  E-value=3.7  Score=33.94  Aligned_cols=115  Identities=10%  Similarity=-0.075  Sum_probs=76.8

Q ss_pred             CCHHHHHHHHHHHH----hcCCCCC-HHHHHHHHHHhhhhhhHHHHHHHHh--------cCCCC-cHhhHHHHHHHhccc
Q 043265           13 REVKAALEVMDKLK----NIGIFLD-SPDIIELLNVCMDLKLLEAGKRFEN--------DGVRP-NWSTFVGVITACGCF   78 (245)
Q Consensus        13 g~~~~A~~lf~~m~----~~g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~--------~~~~p-~~~t~~~ll~~~~~~   78 (245)
                      |.+++|.+++....    ..+..+. ..++..+...|...|.++.|..+..        ..-+| ...+|..+...|...
T Consensus       109 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (434)
T 4b4t_Q          109 DSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKL  188 (434)
T ss_dssp             SCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHh
Confidence            55666666665543    2233333 4566777788888888888866422        11222 246789999999999


Q ss_pred             CcHHHHHHHHHHhhhh---cCCCcc--hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           79 GAVDEGFQHFESVTRD---YDINPT--LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~---~~~~p~--~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      |++++|..+++....-   .+..|.  ...+..+...+...|++++|...|...
T Consensus       189 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          189 RNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            9999999999876431   111122  356778888889999999998877544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=88.58  E-value=3.5  Score=37.32  Aligned_cols=74  Identities=9%  Similarity=0.061  Sum_probs=44.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHH
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~   83 (245)
                      .++..+.+.|.+++|.++.++-..        -    .......|+++.|.++.+..  .+...|..+-..|.+.|+++.
T Consensus       634 ~~~~~l~~~~~~~~a~~~~~~~~~--------~----f~~~l~~~~~~~A~~~~~~~--~~~~~W~~la~~al~~~~~~~  699 (814)
T 3mkq_A          634 KIARFLEGQEYYEEALNISPDQDQ--------K----FELALKVGQLTLARDLLTDE--SAEMKWRALGDASLQRFNFKL  699 (814)
T ss_dssp             HHHHHHHHTTCHHHHHHHCCCHHH--------H----HHHHHHHTCHHHHHHHHTTC--CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhCCChHHheecCCCcch--------h----eehhhhcCCHHHHHHHHHhh--CcHhHHHHHHHHHHHcCCHHH
Confidence            455667777777777665532111        1    22233456677776664332  456677777777777777777


Q ss_pred             HHHHHHHh
Q 043265           84 GFQHFESV   91 (245)
Q Consensus        84 a~~~~~~m   91 (245)
                      |++.|..+
T Consensus       700 A~~~y~~~  707 (814)
T 3mkq_A          700 AIEAFTNA  707 (814)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHc
Confidence            77777655

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=88.19  E-value=3.1  Score=25.51  Aligned_cols=76  Identities=12%  Similarity=0.077  Sum_probs=42.9

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHH
Q 043265           36 DIIELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLY  111 (245)
Q Consensus        36 t~~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y  111 (245)
                      .|..+-..+.+.|.++.|....+..  . +.+...+..+-.++.+.|++++|.+.|++..+.   .| +...+..+-.++
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~p~~~~~~~~l~~~~   87 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL---DPNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc---CCCCHHHHHHHHHHH
Confidence            4444444455555555544432211  1 224556667777788888888888888877552   23 345555565555


Q ss_pred             hcc
Q 043265          112 GRL  114 (245)
Q Consensus       112 ~~~  114 (245)
                      .+.
T Consensus        88 ~~~   90 (91)
T 1na3_A           88 QKQ   90 (91)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            543

>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=88.11  E-value=1.4  Score=29.37  Aligned_cols=51  Identities=14%  Similarity=0.218  Sum_probs=33.8

Q ss_pred             HhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHH
Q 043265           57 ENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD  109 (245)
Q Consensus        57 ~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  109 (245)
                      ...-+.|++....+.|+||.|.+++..|.++|+.++.+  +.+...+|..+++
T Consensus        37 ~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K--~~~~~~iY~~~lq   87 (109)
T 1v54_E           37 VGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ   87 (109)
T ss_dssp             TTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             hccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCchhhHHHHHH
Confidence            44556777777777777777777777777777777543  4344445665554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=87.95  E-value=3  Score=37.80  Aligned_cols=99  Identities=12%  Similarity=0.079  Sum_probs=65.8

Q ss_pred             HHHcCCHHHHHH-HHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHH
Q 043265            9 LCREREVKAALE-VMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQH   87 (245)
Q Consensus         9 ~~~~g~~~~A~~-lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~   87 (245)
                      ....+++++|.+ ++..++      +......++..+.+.|.++.|.++.+.   | ..-    .......|+++.|.++
T Consensus       609 ~~~~~~~~~a~~~~l~~i~------~~~~~~~~~~~l~~~~~~~~a~~~~~~---~-~~~----f~~~l~~~~~~~A~~~  674 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVE------GKDSLTKIARFLEGQEYYEEALNISPD---Q-DQK----FELALKVGQLTLARDL  674 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCC------CHHHHHHHHHHHHHTTCHHHHHHHCCC---H-HHH----HHHHHHHTCHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHhcCC------chHHHHHHHHHHHhCCChHHheecCCC---c-chh----eehhhhcCCHHHHHHH
Confidence            345788888876 553222      112236667777777888888766432   1 111    2334567899988887


Q ss_pred             HHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           88 FESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        88 ~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      .+.+       .+...|..|-..+.+.|+++.|++.|.+++
T Consensus       675 ~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          675 LTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            6544       255688888888888888888888888775

>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=87.12  E-value=2.2  Score=28.42  Aligned_cols=60  Identities=18%  Similarity=0.199  Sum_probs=48.5

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHH---hcCCCCcHhhHHHHHH
Q 043265           14 EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFE---NDGVRPNWSTFVGVIT   73 (245)
Q Consensus        14 ~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~---~~~~~p~~~t~~~ll~   73 (245)
                      +.-+..+-++.+...++.|++....+-|+||-+.+++..|.++.   +.++.+...+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            55678888888999999999999999999999999999987763   3345555667887774

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=87.07  E-value=4.4  Score=37.09  Aligned_cols=52  Identities=12%  Similarity=0.029  Sum_probs=45.1

Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      -|...|+++-|+++-++...   +.|+ -.+|-.|..+|.+.|+++.|+-.++.++
T Consensus       346 FLl~K~~~elAL~~Ak~AV~---~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTE---LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHh---cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            35568999999999987654   6776 6889999999999999999999999997

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=86.99  E-value=2.3  Score=27.51  Aligned_cols=74  Identities=11%  Similarity=-0.082  Sum_probs=50.1

Q ss_pred             CcHhhHHHHHHHhcccCc---HHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHH
Q 043265           63 PNWSTFVGVITACGCFGA---VDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWE  137 (245)
Q Consensus        63 p~~~t~~~ll~~~~~~g~---~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~  137 (245)
                      .|...+..+-.++...++   .++|..++++..+   ..|+ +.....+=..+.+.|++++|...|+++. ..|+ ..|.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~---~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~~~   79 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQ---LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NLDR   79 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TCCH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH---HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CccH
Confidence            455566666666644333   6889999987755   3454 5566677788899999999999999884 4455 4444


Q ss_pred             HHH
Q 043265          138 TLE  140 (245)
Q Consensus       138 ~li  140 (245)
                      .+|
T Consensus        80 ~~i   82 (93)
T 3bee_A           80 VTI   82 (93)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=84.67  E-value=3.7  Score=26.83  Aligned_cols=70  Identities=6%  Similarity=-0.083  Sum_probs=49.1

Q ss_pred             cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhc-----CCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH
Q 043265           64 NWSTFVGVITACGCFGAVDEGFQHFESVTRDY-----DINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS  133 (245)
Q Consensus        64 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~  133 (245)
                      +..-+-.|=..+.+.|+++.|..-|+...+..     +-.+....+..|-.+|.+.|+++.|...+++.. ..|+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~   79 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEH   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCC
Confidence            34445566667778888888888887665421     112345678888899999999999999888774 45553

>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=82.82  E-value=3.2  Score=29.26  Aligned_cols=48  Identities=15%  Similarity=0.235  Sum_probs=28.2

Q ss_pred             cCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHH
Q 043265           59 DGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIV  108 (245)
Q Consensus        59 ~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li  108 (245)
                      ..+.|++....+.|++|.|.+++..|.++|+.++.+  +.+....|..++
T Consensus        82 ~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~l  129 (152)
T 2y69_E           82 YDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVI  129 (152)
T ss_dssp             SSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHH
T ss_pred             cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHH
Confidence            345566666666666666666666666666666443  334444455544

>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=82.36  E-value=3.6  Score=33.13  Aligned_cols=89  Identities=16%  Similarity=0.161  Sum_probs=63.2

Q ss_pred             hHHHHHHHHhc--CCCCc---HhhHHHHHHHhcc-----cCcHHHHHHHHHHhhhhcCCCc--chHHHHHHHHHHhcc-C
Q 043265           49 LLEAGKRFEND--GVRPN---WSTFVGVITACGC-----FGAVDEGFQHFESVTRDYDINP--TLEHFLGIVDLYGRL-Q  115 (245)
Q Consensus        49 ~~~~~~~~~~~--~~~p~---~~t~~~ll~~~~~-----~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~y~~~-g  115 (245)
                      .+..++.+.++  .+.|+   ...|.++-..|.+     .|+.++|++.|++..+   +.|  ++.++...-+.|++. |
T Consensus       178 ~l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~---LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          178 TVHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR---YCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH---HCCTTCSHHHHHHHHHTTTTTT
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH---hCCCCCchHHHHHHHHHHHhcC
Confidence            34445555444  34555   5578888888988     5999999999998865   566  367778889999995 9


Q ss_pred             CHHHHHHHHHhcC-CC----CcHHHHHHHH
Q 043265          116 KIAEAREFIRNMQ-ID----ASSVVWETLE  140 (245)
Q Consensus       116 ~~~~a~~~~~~m~-~~----~~~~~~~~li  140 (245)
                      +.+++.+.+++-- ..    |+....|.+-
T Consensus       255 d~~~a~~~L~kAL~a~p~~~P~~~lan~~~  284 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPESVPHNKLLVILS  284 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGGGCSSCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCChhHHHHHH
Confidence            9999999998763 22    5555555443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=82.14  E-value=13  Score=27.38  Aligned_cols=103  Identities=13%  Similarity=-0.021  Sum_probs=73.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQH   87 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~   87 (245)
                      -..+.|+++.|.++-.++      -+...|..|-...-+.|+++.|++....     ..-|..+.--|.-.|+.+.-.++
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~-----~~D~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQT-----QHSFDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHH-----TTCHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHH-----hCCHHHHHHHHHHhCCHHHHHHH
Confidence            356789999999998776      2568999999999999999999887544     22344555556667777665554


Q ss_pred             HHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           88 FESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        88 ~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      -+.-.. .|      -++.....+.-.|+++++.++|.+..
T Consensus        83 a~iA~~-~g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           83 QNIAQT-RE------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHH-TT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHH-Cc------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            432222 12      34666666777789999999998887

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=81.71  E-value=23  Score=29.87  Aligned_cols=104  Identities=12%  Similarity=0.034  Sum_probs=59.8

Q ss_pred             HHHHHHHHhhhhh---hHHHHHHHHhc---CCCCcHhhHHHHHHHhccc----CcHHHHHHHHHHhhhhcCCCcchHHHH
Q 043265           36 DIIELLNVCMDLK---LLEAGKRFEND---GVRPNWSTFVGVITACGCF----GAVDEGFQHFESVTRDYDINPTLEHFL  105 (245)
Q Consensus        36 t~~~ll~~~~~~~---~~~~~~~~~~~---~~~p~~~t~~~ll~~~~~~----g~~~~a~~~~~~m~~~~~~~p~~~~~~  105 (245)
                      .+..|-..|...|   +.+.+.+..+.   .-.++...+..+-..|...    ++.++|.+.|+...  .|   +...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa--~g---~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA--PG---YPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG--GG---STHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc--CC---CHHHHH
Confidence            5666666666666   55555443221   1234444444555555544    68888888888765  12   444555


Q ss_pred             HHHHH-H--hccCCHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 043265          106 GIVDL-Y--GRLQKIAEAREFIRNMQIDASSVVWETLEKYAQ  144 (245)
Q Consensus       106 ~li~~-y--~~~g~~~~a~~~~~~m~~~~~~~~~~~li~~~~  144 (245)
                      .|-.+ |  ...|+.++|...|++---.-+...+..|=..|.
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~  294 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYY  294 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555 3  458888999888876641234444544444554

>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=80.06  E-value=3.7  Score=34.18  Aligned_cols=135  Identities=9%  Similarity=-0.091  Sum_probs=80.6

Q ss_pred             CCCCHHHHHHHHHHhhhh-----hhHHHHHHHHhcC--CCCc-HhhHHHHHHHhcc--------cCcHHHHHHHHHHhhh
Q 043265           30 IFLDSPDIIELLNVCMDL-----KLLEAGKRFENDG--VRPN-WSTFVGVITACGC--------FGAVDEGFQHFESVTR   93 (245)
Q Consensus        30 ~~p~~~t~~~ll~~~~~~-----~~~~~~~~~~~~~--~~p~-~~t~~~ll~~~~~--------~g~~~~a~~~~~~m~~   93 (245)
                      ...+...|...+++....     .....+..+.++-  ..|+ ...|..+--+|.-        ....+...+.+.....
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            445678899999886543     3445555554443  3454 2344433333321        0111111122221111


Q ss_pred             hcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265           94 DYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus        94 ~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      -..-..+..+|.++-..+...|++++|...+++.. ..|+...|..+=..+...|+.+.|....  ++++.|..
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            01123467788888777777899999999998875 5677766644447778899999888777  77776654

---

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	245
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.51
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.26
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.25
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.22
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.91
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	97.67
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.09
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.07
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	96.92
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	96.81
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.79
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	96.71
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.68
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	96.61
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	96.36
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.32
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	96.3
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.27
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	96.11
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.05
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.05
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	95.98
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	95.9
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	95.84
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	95.79
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	95.76
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	95.61
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	95.12
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	95.07
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	94.76
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	94.44
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	94.34
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	94.25
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	93.99
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	93.82
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	93.26
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	93.08
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	92.8
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	92.5
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	92.28
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	92.28
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	92.07
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	91.84
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	90.77
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	89.85
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	88.87
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	87.63
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.06
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.56
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	84.43
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	82.71

>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=98.51  E-value=2.7e-06  Score=68.18  Aligned_cols=159  Identities=13%  Similarity=0.064  Sum_probs=111.9

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g   79 (245)
                      ..+-..+...|++++|...|.+....+. .+...+..+-..+.+.|.++.|....+.  ...| +..++..+-..+...|
T Consensus       207 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~  285 (388)
T d1w3ba_         207 INLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKG  285 (388)
T ss_dssp             HHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHS
T ss_pred             HHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3445667777888888888887766543 3556677777777777777777665333  2334 4667788888888888


Q ss_pred             cHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCccccccc-
Q 043265           80 AVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLLGEPSS-  156 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~~~~~~-  156 (245)
                      +.++|.+.++.....  ...+...+..+...|.+.|++++|...|++.- ..|+ ..+|..+-..+...|+.+.|...+ 
T Consensus       286 ~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~  363 (388)
T d1w3ba_         286 SVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888888888877553  33455677788888888888888888887753 4554 556666668888888888877666 


Q ss_pred             -cccccccc
Q 043265          157 -SLRLSNKK  164 (245)
Q Consensus       157 -~~~~~~~~  164 (245)
                       ++++.|+.
T Consensus       364 ~al~l~P~~  372 (388)
T d1w3ba_         364 EAIRISPTF  372 (388)
T ss_dssp             HHHTTCTTC
T ss_pred             HHHHhCCCC
Confidence             66665543

>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=98.26  E-value=3.4e-05  Score=61.49  Aligned_cols=142  Identities=8%  Similarity=0.069  Sum_probs=114.0

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc---CCCCcHhhHHHHHHHhcccC
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND---GVRPNWSTFVGVITACGCFG   79 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~---~~~p~~~t~~~ll~~~~~~g   79 (245)
                      ..+-..|.+.|++++|++.|++..+.. +-+..+|..+-..+...|.+++|.+....   ..+.+...+..+...+.+.|
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            345577889999999999999987753 22467889999999999988888775332   34567788999999999999


Q ss_pred             cHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc-CCCCc-HHHHHHHHHHHHhCCC
Q 043265           80 AVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM-QIDAS-SVVWETLEKYAQTEPG  148 (245)
Q Consensus        80 ~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m-~~~~~-~~~~~~li~~~~~~g~  148 (245)
                      ++++|.+.|++..+   +.|+ ..+|..+-.+|.+.|++++|...|++. .+.|+ ...|..|-..+...||
T Consensus       320 ~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         320 NIEEAVRLYRKALE---VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             CHHHHHHHHHHHTT---SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            99999999998754   4564 567888999999999999999999876 45665 6678888788777654

>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=98.25  E-value=1e-05  Score=64.21  Aligned_cols=160  Identities=10%  Similarity=0.098  Sum_probs=116.3

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CC-cHhhHHHHHH-Hhccc
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RP-NWSTFVGVIT-ACGCF   78 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p-~~~t~~~ll~-~~~~~   78 (245)
                      ......+.+.|++++|..+|+++...........|...+..+.+.|.++.++++....+  .| +...|..... -+...
T Consensus       103 ~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~  182 (308)
T d2onda1         103 FAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCS  182 (308)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhc
Confidence            34456677889999999999998875444445679999999999998888877654422  22 3333333332 23446


Q ss_pred             CcHHHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC----CCCc--HHHHHHHHHHHHhCCCCccc
Q 043265           79 GAVDEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ----IDAS--SVVWETLEKYAQTEPGLLLG  152 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~----~~~~--~~~~~~li~~~~~~g~~~~~  152 (245)
                      |+.+.|..+|+.....  ...+...|...++.+.+.|+.+.|+.+|++--    ..|+  ...|...+..-..+|+.+.+
T Consensus       183 ~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~  260 (308)
T d2onda1         183 KDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  260 (308)
T ss_dssp             CCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHH
T ss_pred             cCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8899999999988764  23346788999999999999999999998752    2332  46899999988999998887


Q ss_pred             cccc--cccccccc
Q 043265          153 EPSS--SLRLSNKK  164 (245)
Q Consensus       153 ~~~~--~~~~~~~~  164 (245)
                      ..+.  +.+++|+.
T Consensus       261 ~~~~~r~~~~~~~~  274 (308)
T d2onda1         261 LKVEKRRFTAFREE  274 (308)
T ss_dssp             HHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHCccc
Confidence            7665  55666555

>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=98.22  E-value=2.3e-05  Score=61.88  Aligned_cols=99  Identities=11%  Similarity=-0.014  Sum_probs=69.4

Q ss_pred             CcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHH
Q 043265           63 PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETL  139 (245)
Q Consensus        63 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~l  139 (245)
                      ++...+..+-..+...|++++|...|+.....   .| +...|..+-.+|.+.|++++|.+.|++.- ..| +...|..+
T Consensus       170 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~l  246 (323)
T d1fcha_         170 IDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNL  246 (323)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             cccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHH
Confidence            34556667777777888888888888876542   23 35667777888888888888888887653 344 35567777


Q ss_pred             HHHHHhCCCCccccccc--cccccccc
Q 043265          140 EKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       140 i~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      -.+|...|+.+.|...+  ++++.|+.
T Consensus       247 g~~~~~~g~~~~A~~~~~~al~l~p~~  273 (323)
T d1fcha_         247 GISCINLGAHREAVEHFLEALNMQRKS  273 (323)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCcC
Confidence            77788888888777666  66666654

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.91  E-value=0.00012  Score=57.57  Aligned_cols=155  Identities=8%  Similarity=0.010  Sum_probs=109.9

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      .+.+.|++++|.+.|++..+..- -+..+|..+-..|...|.++.|......  .+.| +...|..+...|...|++++|
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A  106 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQA  106 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccccccccccccccccccccccccc
Confidence            46788999999999999887642 2467888888888888888887665332  2234 466777777888888888888


Q ss_pred             HHHHHHhhhh-------------------------------------------------cCCCcchHHHHHHHHHHhccC
Q 043265           85 FQHFESVTRD-------------------------------------------------YDINPTLEHFLGIVDLYGRLQ  115 (245)
Q Consensus        85 ~~~~~~m~~~-------------------------------------------------~~~~p~~~~~~~li~~y~~~g  115 (245)
                      .+.++.....                                                 ..-.++...+..+-..+.+.|
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~  186 (323)
T d1fcha_         107 CEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSG  186 (323)
T ss_dssp             HHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTT
T ss_pred             ccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHH
Confidence            8877765321                                                 011223455667778888899


Q ss_pred             CHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc--ccccccc
Q 043265          116 KIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNK  163 (245)
Q Consensus       116 ~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~  163 (245)
                      ++++|...|++.- ..| +...|..+-..+...|+.+.|...+  ++++.|+
T Consensus       187 ~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  238 (323)
T d1fcha_         187 EYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG  238 (323)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhc
Confidence            9999999888753 334 4667777778888889888887766  6655444

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.67  E-value=0.0003  Score=55.35  Aligned_cols=146  Identities=7%  Similarity=-0.095  Sum_probs=108.7

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCCc--HhhHHHHHHHhcccCcHHHHHHHH
Q 043265           13 REVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRPN--WSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus        13 g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p~--~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      +..++|..+|++..+....-+...|.......-+.|.++.++.+...  ...|.  ...|...+..+.+.|+++.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            44678889999988765555677888888888888888988776544  44453  447899999999999999999999


Q ss_pred             HHhhhhcCCCcchHHHHHHHHH-HhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCCCccccccc--cccc
Q 043265           89 ESVTRDYDINPTLEHFLGIVDL-YGRLQKIAEAREFIRNMQ--IDASSVVWETLEKYAQTEPGLLLGEPSS--SLRL  160 (245)
Q Consensus        89 ~~m~~~~~~~p~~~~~~~li~~-y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~~~~~g~~~~~~~~~--~~~~  160 (245)
                      +...+....  +...|...... +...|+.+.|..+|+..-  .+.+...|...+......|+.+.|+.++  ++..
T Consensus       158 ~~al~~~~~--~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~  232 (308)
T d2onda1         158 KKAREDART--RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  232 (308)
T ss_dssp             HHHHTSTTC--CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHS
T ss_pred             HHHHHhCCC--cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence            988653222  33334333333 344688999999998774  3446788999999999999999988777  5543

>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=97.09  E-value=0.0056  Score=42.73  Aligned_cols=86  Identities=5%  Similarity=0.042  Sum_probs=61.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ..|.+.|++++|+..|.+..+.+ +-+...|..+-..|...|.++.|.+....  .+.| +...|..+..++...|++++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHH
Confidence            35778899999999999888764 23566777777777777777777665332  2233 45677777777888888888


Q ss_pred             HHHHHHHhhh
Q 043265           84 GFQHFESVTR   93 (245)
Q Consensus        84 a~~~~~~m~~   93 (245)
                      |...+++...
T Consensus        97 A~~~~~~a~~  106 (159)
T d1a17a_          97 ALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888877754

>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=97.07  E-value=0.0083  Score=39.63  Aligned_cols=86  Identities=8%  Similarity=-0.036  Sum_probs=45.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQH   87 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~   87 (245)
                      .+.+.|++++|+..|++..+.. +-+...|..+-.                               ++...|++++|.+.
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~-------------------------------~~~~~~~~~~A~~~   59 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSA-------------------------------AYAKKGDYQKAYED   59 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH-------------------------------HHHHHTCHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-Ccchhhhhcccc-------------------------------cccccccccccchh
Confidence            4667778888888887776543 113334444444                               44445555555555


Q ss_pred             HHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           88 FESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        88 ~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      +....+- . ..+...|..+-.+|...|++++|...|++.
T Consensus        60 ~~~al~~-~-p~~~~~~~~~g~~~~~~~~~~~A~~~~~~a   97 (117)
T d1elwa_          60 GCKTVDL-K-PDWGKGYSRKAAALEFLNRFEEAKRTYEEG   97 (117)
T ss_dssp             HHHHHHH-C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhhHHHh-c-cchhhHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            5544331 1 113444555555555555555555555444

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.92  E-value=0.0097  Score=43.06  Aligned_cols=116  Identities=10%  Similarity=0.015  Sum_probs=85.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      .+...|++++|++.|.++    ..|+..+|..+=.+|...|.++.|.+.....  +.| +...|..+=.+|.+.|+.++|
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHH
Confidence            456789999999999865    3467788888888888889888887754332  233 467788888889999999999


Q ss_pred             HHHHHHhhhh-----------cCCC--cc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           85 FQHFESVTRD-----------YDIN--PT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        85 ~~~~~~m~~~-----------~~~~--p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      .+.|+.....           .|..  ++ ..++..+-.+|.+.|++++|...|...
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A  146 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALA  146 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9998876431           0111  11 244556677899999999999988765

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.81  E-value=0.0045  Score=47.84  Aligned_cols=160  Identities=8%  Similarity=-0.059  Sum_probs=102.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhc----CCCCC-HHHHHHHHHHhhhhhhHHHHHHHHh--------cC-CCCcHhh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNI----GIFLD-SPDIIELLNVCMDLKLLEAGKRFEN--------DG-VRPNWST   67 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~----g~~p~-~~t~~~ll~~~~~~~~~~~~~~~~~--------~~-~~p~~~t   67 (245)
                      |.-.-..|...|++++|.+.|.+..+.    +-.|+ ..+|..+-..|.+.|.++.|.+..+        .| ......+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            344556788899999999999988543    22222 3678888888888888888765422        12 1222455


Q ss_pred             HHHHHHHhc-ccCcHHHHHHHHHHhhh---hcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-------H-
Q 043265           68 FVGVITACG-CFGAVDEGFQHFESVTR---DYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-------S-  133 (245)
Q Consensus        68 ~~~ll~~~~-~~g~~~~a~~~~~~m~~---~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-------~-  133 (245)
                      +..+...|- ..|++++|.+.+.+...   ..+-.+. ..+|..+...|.+.|++++|...|++.. ..|+       . 
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            666666674 46999999999987643   1122222 3557888999999999999999998753 1111       1 


Q ss_pred             HHHHHHHHHHHhCCCCccccccc--ccccc
Q 043265          134 VVWETLEKYAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       134 ~~~~~li~~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      ..|..+.-.+...|+.+.+...+  ..++.
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            11222333445567777765554  44443

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.79  E-value=0.0078  Score=40.30  Aligned_cols=89  Identities=7%  Similarity=0.008  Sum_probs=44.7

Q ss_pred             hHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh---hhhHHHHHHHHhcCCC--CcH---hhHHHHHHH
Q 043265            3 NSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMD---LKLLEAGKRFENDGVR--PNW---STFVGVITA   74 (245)
Q Consensus         3 n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~---~~~~~~~~~~~~~~~~--p~~---~t~~~ll~~   74 (245)
                      ..+++.+...+++++|++.|.+....+- .++.++..+-.++.+   .++++.|..+.+.-+.  |+.   .++..+-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p-~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            3456666666677777777776665432 244555555555543   2333334433322211  211   234445555


Q ss_pred             hcccCcHHHHHHHHHHhh
Q 043265           75 CGCFGAVDEGFQHFESVT   92 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~   92 (245)
                      |.+.|++++|.+.|+...
T Consensus        82 y~~~g~~~~A~~~~~~aL   99 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLL   99 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHH
Confidence            555555555555555553

>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=96.71  E-value=0.0052  Score=44.17  Aligned_cols=85  Identities=8%  Similarity=-0.064  Sum_probs=65.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ..|.+.|++++|+..|.+..... +-+...|+.+-.+|.+.|.++.|......  .+.| +..+|..+-.+|.+.|++++
T Consensus        12 n~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~l~~~~~   90 (201)
T d2c2la1          12 NRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDE   90 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHH
Confidence            46788999999999999987654 23577788888888888888888776443  3445 36678888888888888888


Q ss_pred             HHHHHHHhh
Q 043265           84 GFQHFESVT   92 (245)
Q Consensus        84 a~~~~~~m~   92 (245)
                      |...|+...
T Consensus        91 A~~~~~~al   99 (201)
T d2c2la1          91 AIANLQRAY   99 (201)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888887654

>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=96.68  E-value=0.0029  Score=41.99  Aligned_cols=89  Identities=9%  Similarity=0.057  Sum_probs=72.6

Q ss_pred             HHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHHHHHHHHhCCCC
Q 043265           73 TACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWETLEKYAQTEPGL  149 (245)
Q Consensus        73 ~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~li~~~~~~g~~  149 (245)
                      ..+.+.|++++|...|.+..+.   .| +...|..+-.+|.+.|++++|...|...- + +.+...|..+-..+...|+.
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            4567889999999999998663   34 56779999999999999999999998764 2 45677888888999999999


Q ss_pred             ccccccc--cccccccc
Q 043265          150 LLGEPSS--SLRLSNKK  164 (245)
Q Consensus       150 ~~~~~~~--~~~~~~~~  164 (245)
                      +.|...+  ++++.|+.
T Consensus        88 ~~A~~~~~~a~~~~p~~  104 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANN  104 (117)
T ss_dssp             HHHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHHHHhCCCC
Confidence            9988877  76666654

>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=96.61  E-value=0.0044  Score=44.58  Aligned_cols=93  Identities=5%  Similarity=-0.023  Sum_probs=54.1

Q ss_pred             CCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHH
Q 043265           32 LDSPDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGI  107 (245)
Q Consensus        32 p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  107 (245)
                      |+...+...=..|.+.|.++.|.......  +.| +...|+.+-.+|.+.|++++|...|....   .+.|+ ..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHHH
Confidence            44444444445556666666665543221  122 45556666666677777777777776553   24453 4556666


Q ss_pred             HHHHhccCCHHHHHHHHHhc
Q 043265          108 VDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus       108 i~~y~~~g~~~~a~~~~~~m  127 (245)
                      -.+|.+.|++++|...|++.
T Consensus        79 g~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH
Confidence            66677777777776666544

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.36  E-value=0.026  Score=44.05  Aligned_cols=141  Identities=8%  Similarity=0.074  Sum_probs=105.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhh-hHHHHHHHHhc--CCCC-cHhhHHHHHHHhccc
Q 043265            4 SELKHLCREREVKAALEVMDKLKNIGIFL-DSPDIIELLNVCMDLK-LLEAGKRFEND--GVRP-NWSTFVGVITACGCF   78 (245)
Q Consensus         4 ~ll~~~~~~g~~~~A~~lf~~m~~~g~~p-~~~t~~~ll~~~~~~~-~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~   78 (245)
                      -+=..+.+.+.+++|++++++..+.+  | +...|+..-.++...| .++++......  .+.| +..+|..+-..+.+.
T Consensus        48 ~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l  125 (315)
T d2h6fa1          48 YFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWL  125 (315)
T ss_dssp             HHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhh
Confidence            33445778889999999999998864  4 4567777777766655 46776655332  2334 588899999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCC
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGL  149 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~  149 (245)
                      |+.++|.+.+..+.+   +.| +...|..+-.+|.+.|++++|...|++.- ..| +...|+-+-..+...+..
T Consensus       126 ~~~~eAl~~~~kal~---~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         126 RDPSQELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             TCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCS
T ss_pred             ccHHHHHHHHhhhhh---hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHcccc
Confidence            999999999998865   345 47889999999999999999999998774 344 566777665555555543

>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=96.32  E-value=0.031  Score=39.31  Aligned_cols=105  Identities=8%  Similarity=-0.003  Sum_probs=71.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGI-FLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQ   86 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~-~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~   86 (245)
                      .+.+.|++++|++.|.+.....- .+..           ..........+       -..+|+.+-.+|.+.|++++|..
T Consensus        22 ~~~~~~~~~~Ai~~y~~al~~~~~~~~~-----------~~~~~~~~~~~-------~~~~~~nla~~y~k~~~~~~A~~   83 (170)
T d1p5qa1          22 VYFKEGKYKQALLQYKKIVSWLEYESSF-----------SNEEAQKAQAL-------RLASHLNLAMCHLKLQAFSAAIE   83 (170)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTTCCCC-----------CSHHHHHHHHH-------HHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhhhcccc-----------chHHHhhhchh-------HHHHHHHHHHHHHhhhhcccccc
Confidence            57788999999999988765311 0100           00001111111       12357778888899999999999


Q ss_pred             HHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcH
Q 043265           87 HFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASS  133 (245)
Q Consensus        87 ~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~  133 (245)
                      .++....   +.| ++..|.-+-.+|...|++++|...|+... +.|+.
T Consensus        84 ~~~~al~---~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n  129 (170)
T d1p5qa1          84 SCNKALE---LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNN  129 (170)
T ss_dssp             HHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSC
T ss_pred             hhhhhhh---ccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCC
Confidence            9987765   345 56778888899999999999999998774 45543

>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=96.30  E-value=0.0057  Score=42.68  Aligned_cols=79  Identities=8%  Similarity=-0.094  Sum_probs=39.0

Q ss_pred             hcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCcc
Q 043265           75 CGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        75 ~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~  151 (245)
                      |.+.|++++|...|.+..+   +.| +...|..+-.+|.+.|++++|...|++.- +.| +...|..+-.++...|+.+.
T Consensus        20 ~~~~~~y~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          20 YFKAKDYENAIKFYSQAIE---LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHhhhccc---cchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHH
Confidence            3455555555555555543   122 33445555555555555555555555442 222 33445555555555555555


Q ss_pred             ccccc
Q 043265          152 GEPSS  156 (245)
Q Consensus       152 ~~~~~  156 (245)
                      |....
T Consensus        97 A~~~~  101 (159)
T d1a17a_          97 ALRDY  101 (159)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            54444

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.27  E-value=0.017  Score=38.50  Aligned_cols=103  Identities=13%  Similarity=0.037  Sum_probs=69.3

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhcccC---cHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHH
Q 043265           38 IELLNVCMDLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCFG---AVDEGFQHFESVTRDYDINPT-LEHFLGIVDL  110 (245)
Q Consensus        38 ~~ll~~~~~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~g---~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~  110 (245)
                      ..+++.+...+.++.|++.-+.-  . +.+..++..+-.++.+.+   ++++|..+|+.... ..-.|+ ..+|..|-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~-~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLP-KGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTT-TSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHh-ccCCchHHHHHHHHHHH
Confidence            46777888888888887764432  2 235677777777777655   44568888887754 222233 2356678888


Q ss_pred             HhccCCHHHHHHHHHhcC-CCCcHHHHHHHHH
Q 043265          111 YGRLQKIAEAREFIRNMQ-IDASSVVWETLEK  141 (245)
Q Consensus       111 y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li~  141 (245)
                      |.+.|++++|.+.|++.- +.|+..-...+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~  113 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAKELER  113 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            999999999999998774 5676544444443

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.11  E-value=0.062  Score=41.01  Aligned_cols=144  Identities=15%  Similarity=0.030  Sum_probs=92.4

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHh----cCCC-CCHHHHHHHHHHhh-hhhhHHHHHHHH--------hcCCCCc-Hh
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKN----IGIF-LDSPDIIELLNVCM-DLKLLEAGKRFE--------NDGVRPN-WS   66 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~----~g~~-p~~~t~~~ll~~~~-~~~~~~~~~~~~--------~~~~~p~-~~   66 (245)
                      |+.+-..|.+.|++++|.+.|.+..+    .|-. ....++..+...|- ..|.++.|.+..        ..+..+. ..
T Consensus        80 ~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~  159 (290)
T d1qqea_          80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhh
Confidence            55667788999999999999997643    2221 12344555555553 347777765542        2233332 45


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc----h-HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc------HH
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRDYDINPT----L-EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS------SV  134 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~----~-~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~------~~  134 (245)
                      +|..+...+...|++++|...|++......-.+.    . ..+..+...+...|+.+.|...|++.. +.|+      ..
T Consensus       160 ~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~  239 (290)
T d1qqea_         160 CFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESN  239 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HH
T ss_pred             HHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHH
Confidence            6888999999999999999999987653211111    1 123445567778899999999999885 3332      23


Q ss_pred             HHHHHHHHHHh
Q 043265          135 VWETLEKYAQT  145 (245)
Q Consensus       135 ~~~~li~~~~~  145 (245)
                      ....++.++..
T Consensus       240 ~l~~l~~a~~~  250 (290)
T d1qqea_         240 FLKSLIDAVNE  250 (290)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            44566666654

>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=96.05  E-value=0.039  Score=39.36  Aligned_cols=113  Identities=15%  Similarity=0.104  Sum_probs=78.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHHHhhh-hhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNI--GIFLDSPDIIELLNVCMD-LKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~--g~~p~~~t~~~ll~~~~~-~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ......|++++|.+.|.+...-  |-...         .+.. .........+...    ....+..+..++.+.|++++
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~---------~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~~~~   85 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLD---------DLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGRASA   85 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTG---------GGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccc---------cCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCCchH
Confidence            4667889999999999998753  22100         0000 0111222222211    24567788999999999999


Q ss_pred             HHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhc--------CCCCcHHH
Q 043265           84 GFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNM--------QIDASSVV  135 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m--------~~~~~~~~  135 (245)
                      |...++....   +.| +...|..++.+|.+.|+.++|.+.|+.+        .++|+..+
T Consensus        86 Al~~~~~al~---~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          86 VIAELEALTF---EHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHH---HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHH---hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999998865   344 5678999999999999999999999865        46777654

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=96.05  E-value=0.02  Score=37.33  Aligned_cols=59  Identities=5%  Similarity=-0.053  Sum_probs=37.8

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      ...|..+-.++.+.|++++|...|+...+   +.| +...|..+-..|.+.|+.++|.+.|++
T Consensus        50 ~~a~~~lg~~~~~~~~~~~A~~~~~~al~---~~p~~~~a~~~la~~y~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          50 EEAWRSLGLTQAENEKDGLAIIALNHARM---LDPKDIAVHAALAVSHTNEHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhhhhhhhhhhHHHhhcccccccc---cccccccchHHHHHHHHHCCCHHHHHHHHHH
Confidence            55556666666666677777777766543   234 355666677777777777777776654

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=95.98  E-value=0.049  Score=40.28  Aligned_cols=110  Identities=16%  Similarity=0.055  Sum_probs=69.3

Q ss_pred             HHHHHHHHHHHHhcCC-CCC--HHHHHHHHHHhhhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHhcccCcHHHHHHHH
Q 043265           15 VKAALEVMDKLKNIGI-FLD--SPDIIELLNVCMDLKLLEAGKRFEND--GVRP-NWSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus        15 ~~~A~~lf~~m~~~g~-~p~--~~t~~~ll~~~~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      .+.|+.-+.+.....- .++  ..+|-.+=..|.+.|.++.|....+.  .+.| +..+|..+-.+|.+.|++++|.+.|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            3455555666654322 221  23444444566666777776554322  2234 4677778888888888888888888


Q ss_pred             HHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhc
Q 043265           89 ESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNM  127 (245)
Q Consensus        89 ~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m  127 (245)
                      ++..+   +.|+ ..+|..+-.+|.+.|+.++|...|+..
T Consensus        95 ~~al~---~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  131 (259)
T d1xnfa_          95 DSVLE---LDPTYNYAHLNRGIALYYGGRDKLAQDDLLAF  131 (259)
T ss_dssp             HHHHH---HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHH---HHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            87755   2343 456777778888888888888888755

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.90  E-value=0.028  Score=40.44  Aligned_cols=109  Identities=10%  Similarity=-0.025  Sum_probs=79.7

Q ss_pred             hhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHH
Q 043265           45 MDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREF  123 (245)
Q Consensus        45 ~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~  123 (245)
                      ...|+++.|.+....-.+|+..+|..+=.+|...|++++|.+.|++..+   +.| +...|..+=.+|.+.|+.++|.+.
T Consensus        16 ~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~---ldp~~~~a~~~~g~~~~~~g~~~~A~~~   92 (192)
T d1hh8a_          16 ADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSIN---RDKHLAVAYFQRGMLYYQTEKYDLAIKD   92 (192)
T ss_dssp             HHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHH---HhhhhhhhHHHHHHHHHhhccHHHHHHH
Confidence            4557788887776666788889999999999999999999999998865   344 467888899999999999999988


Q ss_pred             HHhcC--CCC---------------c-HHHHHHHHHHHHhCCCCccccccc
Q 043265          124 IRNMQ--IDA---------------S-SVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       124 ~~~m~--~~~---------------~-~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      |++--  .++               + ..++..+=.++...|+++.|...+
T Consensus        93 ~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l  143 (192)
T d1hh8a_          93 LKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQL  143 (192)
T ss_dssp             HHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            87531  011               1 123333445566677777765544

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.84  E-value=0.05  Score=42.32  Aligned_cols=141  Identities=9%  Similarity=0.019  Sum_probs=100.9

Q ss_pred             hHHHHHHHHcC-CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCC--CC-cHhhHHHHHHHhccc
Q 043265            3 NSELKHLCRER-EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGV--RP-NWSTFVGVITACGCF   78 (245)
Q Consensus         3 n~ll~~~~~~g-~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~--~p-~~~t~~~ll~~~~~~   78 (245)
                      +..-..+...| ++++|++.++...+..- -+..+|..+-..+.+.|.+++|.......+  .| +...|..+-..+.+.
T Consensus        81 ~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~  159 (315)
T d2h6fa1          81 HFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEF  159 (315)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHH
Confidence            33344555655 59999999999877642 257889998888989988888877654433  33 588899999999999


Q ss_pred             CcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCC------HHHHHHHHHhc-CCCC-cHHHHHHHHHHHHhCC
Q 043265           79 GAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQK------IAEAREFIRNM-QIDA-SSVVWETLEKYAQTEP  147 (245)
Q Consensus        79 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~------~~~a~~~~~~m-~~~~-~~~~~~~li~~~~~~g  147 (245)
                      |++++|.+.++...+   +.| +...|+.+-.++.+.|.      +++|...+.+. ...| +...|+-+-..+...|
T Consensus       160 ~~~~~Al~~~~~al~---~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~  234 (315)
T d2h6fa1         160 KLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG  234 (315)
T ss_dssp             TCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC
T ss_pred             HhhHHHHHHHHHHHH---HCCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC
Confidence            999999999999876   344 45667766666655554      56777777654 3344 5777877766665543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=95.79  E-value=0.15  Score=34.78  Aligned_cols=105  Identities=12%  Similarity=0.119  Sum_probs=76.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC----CCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHH
Q 043265            7 KHLCREREVKAALEVMDKLKNIGI----FLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVD   82 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~----~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~   82 (245)
                      ..+.+.|++++|+..|.+..+.-.    .++.....             ...       .....+|+.+-.+|.+.|+++
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~-------------~~~-------~~~~~~~~Nla~~~~~l~~~~   84 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLD-------------KKK-------NIEISCNLNLATCYNKNKDYP   84 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHH-------------HHH-------HHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHH-------------hhh-------hHHHHHHhhHHHHHHHhcccc
Confidence            456788999999999998765311    11111110             001       112357888899999999999


Q ss_pred             HHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHH
Q 043265           83 EGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSV  134 (245)
Q Consensus        83 ~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~  134 (245)
                      +|.+.+....+   +.| ++..|--+-.+|.+.|++++|...|+... +.|+..
T Consensus        85 ~Al~~~~~al~---~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~  135 (153)
T d2fbna1          85 KAIDHASKVLK---IDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNL  135 (153)
T ss_dssp             HHHHHHHHHHH---HSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCH
T ss_pred             hhhhhhhcccc---ccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence            99999998865   345 57889999999999999999999998774 566533

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.025  Score=37.80  Aligned_cols=84  Identities=8%  Similarity=0.114  Sum_probs=48.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCC--Cc--------HhhHHHHHHHhc
Q 043265            7 KHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVR--PN--------WSTFVGVITACG   76 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~--p~--------~~t~~~ll~~~~   76 (245)
                      ..|.+.|++++|++.|.+..+.+- .+...|..+-.+|.+.|.++.|.+.....+.  |+        ..+|..+=..+.
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~   90 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYF   90 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHH
Confidence            357788999999999988876532 2456666666666666666666544222111  10        123444444444


Q ss_pred             ccCcHHHHHHHHHHh
Q 043265           77 CFGAVDEGFQHFESV   91 (245)
Q Consensus        77 ~~g~~~~a~~~~~~m   91 (245)
                      ..+++++|.+.|..-
T Consensus        91 ~~~~~~~A~~~~~ka  105 (128)
T d1elra_          91 KEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHH
Confidence            555555555555443

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=95.61  E-value=0.015  Score=43.30  Aligned_cols=97  Identities=10%  Similarity=-0.053  Sum_probs=77.4

Q ss_pred             HhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHH
Q 043265           65 WSTFVGVITACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEK  141 (245)
Q Consensus        65 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~  141 (245)
                      ..+|..+=.+|.+.|++++|.+.|+....   +.| +..+|..+-.+|.+.|++++|...|++.- ..| +..+|..+-.
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~---l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~  113 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALA---IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI  113 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhc---cCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHH
Confidence            34566666788999999999999998865   345 46789999999999999999999998874 344 4567777778


Q ss_pred             HHHhCCCCccccccc--cccccccc
Q 043265          142 YAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       142 ~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .+...|+.+.|...+  +++..|+.
T Consensus       114 ~~~~~g~~~~A~~~~~~al~~~p~~  138 (259)
T d1xnfa_         114 ALYYGGRDKLAQDDLLAFYQDDPND  138 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHhhcccc
Confidence            888999999887777  66666654

>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=95.12  E-value=0.032  Score=39.27  Aligned_cols=91  Identities=12%  Similarity=0.071  Sum_probs=65.4

Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCCc-------------chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHH
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDINP-------------TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWET  138 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~p-------------~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~  138 (245)
                      .+.+.|++++|...|.+...-..-.+             -..+|+-+-.+|.+.|++++|...+++.- +.| ++..|..
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            45666777777777765543211111             12456778889999999999999997663 455 6777877


Q ss_pred             HHHHHHhCCCCccccccc--cccccccc
Q 043265          139 LEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       139 li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      +-.++...|+++.|...+  ++++.|+.
T Consensus       102 ~g~~~~~~g~~~~A~~~~~~al~l~P~n  129 (170)
T d1p5qa1         102 RGEAHLAVNDFELARADFQKVLQLYPNN  129 (170)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhCCCC
Confidence            779999999999988877  77777654

>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=95.07  E-value=0.038  Score=35.88  Aligned_cols=76  Identities=16%  Similarity=0.090  Sum_probs=39.4

Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCc
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLL  150 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~  150 (245)
                      .+-+.|++++|...|++....   .| +...|..+-.+|.+.|++++|...|++.- +.| +...|..+-..|...|+.+
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~~  101 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNAN  101 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhccc---ccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCHH
Confidence            344556666666666655432   23 34555555566666666666666665442 223 3444544445555555544


Q ss_pred             cc
Q 043265          151 LG  152 (245)
Q Consensus       151 ~~  152 (245)
                      .|
T Consensus       102 ~A  103 (112)
T d1hxia_         102 AA  103 (112)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=94.76  E-value=0.37  Score=33.16  Aligned_cols=116  Identities=11%  Similarity=0.097  Sum_probs=76.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCC-cHhhHHHHHHHhcccCcHHHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRP-NWSTFVGVITACGCFGAVDEG   84 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p-~~~t~~~ll~~~~~~g~~~~a   84 (245)
                      -..+.+.|++++|++.|.+..+.            +.............     .+.| +...|..+-.++.+.|++++|
T Consensus        34 ~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~~~-----~~~~~~~~~~~nla~~~~~~~~~~~A   96 (169)
T d1ihga1          34 GNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDADGA-----KLQPVALSCVLNIGACKLKMSDWQGA   96 (169)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHHHG-----GGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHHHH-----HhChhhHHHHHHHHHHHHhhcccchh
Confidence            34567788888888888776431            00000000011111     1122 456677788889999999999


Q ss_pred             HHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHH
Q 043265           85 FQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEK  141 (245)
Q Consensus        85 ~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~  141 (245)
                      ...+....+   +.| +...|..+-.+|.+.|++++|...|+..- +.| +...+..+-.
T Consensus        97 i~~~~~al~---~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~  153 (169)
T d1ihga1          97 VDSCLEALE---IDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHT---TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhhhhhhhh---hhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            999998865   345 46788899999999999999999998764 444 4444444433

>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=94.44  E-value=0.47  Score=36.37  Aligned_cols=148  Identities=10%  Similarity=-0.025  Sum_probs=93.2

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCH-HHHHHHHHHh----------hhhhhHHHHHHHHhc--CCCC-cHhhHHHHHHHh
Q 043265           10 CREREVKAALEVMDKLKNIGIFLDS-PDIIELLNVC----------MDLKLLEAGKRFEND--GVRP-NWSTFVGVITAC   75 (245)
Q Consensus        10 ~~~g~~~~A~~lf~~m~~~g~~p~~-~t~~~ll~~~----------~~~~~~~~~~~~~~~--~~~p-~~~t~~~ll~~~   75 (245)
                      -+....++|++++.+..+.+  |+. ..|+..=..+          ...+.++.+..+.+.  ...| +...|..+-.++
T Consensus        40 ~~~~~~~~al~~~~~~l~~~--P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~  117 (334)
T d1dcea1          40 QAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLL  117 (334)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hcccccHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHH
Confidence            33344589999999998754  554 3444322222          222445555444322  1234 556666665555


Q ss_pred             cccC--cHHHHHHHHHHhhhhcCCCc-chHHHHH-HHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCC
Q 043265           76 GCFG--AVDEGFQHFESVTRDYDINP-TLEHFLG-IVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGL  149 (245)
Q Consensus        76 ~~~g--~~~~a~~~~~~m~~~~~~~p-~~~~~~~-li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~  149 (245)
                      ...+  ++++|...+....+.   .| +...+.. +-..+...|..++|...++..- ..| +...|+.+-..+...|+.
T Consensus       118 ~~~~~~~~~~a~~~~~~al~~---~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~  194 (334)
T d1dcea1         118 SRLPEPNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQ  194 (334)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCC
T ss_pred             HHhccccHHHHHHHHHHHHhh---CchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCH
Confidence            5554  588999999888652   33 3444443 4467778899999999998775 444 567788888888888888


Q ss_pred             ccccccc--cccccc
Q 043265          150 LLGEPSS--SLRLSN  162 (245)
Q Consensus       150 ~~~~~~~--~~~~~~  162 (245)
                      +.|....  ++++.|
T Consensus       195 ~~A~~~~~~~~~~~~  209 (334)
T d1dcea1         195 PDSGPQGRLPENVLL  209 (334)
T ss_dssp             CCSSSCCSSCHHHHH
T ss_pred             HHHHHHHHHhHHhHH
Confidence            8776555  444433

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.34  E-value=0.86  Score=35.52  Aligned_cols=142  Identities=14%  Similarity=0.117  Sum_probs=90.2

Q ss_pred             hhHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcH
Q 043265            2 LNSELKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAV   81 (245)
Q Consensus         2 ~n~ll~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~   81 (245)
                      |.-++..|.+.++++.|.+++.+..      +..+|..+..+|.+......+. +...+...+......++..|-..|.+
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~e~~la~-i~~~~~~~~~d~l~~~v~~ye~~~~~  115 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQ-MCGLHIVVHADELEELINYYQDRGYF  115 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTTCHHHHH-HTTTTTTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCcHHHHHH-HHHHHhhcCHHHHHHHHHHHHHcCCh
Confidence            3445666777777777766665432      4468888888887765554442 23344445556667899999999999


Q ss_pred             HHHHHHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCc--------HHHHHHHHHHHHhCCCCcc
Q 043265           82 DEGFQHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDAS--------SVVWETLEKYAQTEPGLLL  151 (245)
Q Consensus        82 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~--------~~~~~~li~~~~~~g~~~~  151 (245)
                      ++...+++....  .-.++...++-++..|++.+.- ...+.++...  ..+.        ...|.-++-.|.+.|.++.
T Consensus       116 e~Li~~Le~~~~--~~~~~~~~~~~L~~lyak~~~~-kl~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~  192 (336)
T d1b89a_         116 EELITMLEAALG--LERAHMGMFTELAILYSKFKPQ-KMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  192 (336)
T ss_dssp             HHHHHHHHHHTT--STTCCHHHHHHHHHHHHTTCHH-HHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHc--CCccchHHHHHHHHHHHHhChH-HHHHHHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHH
Confidence            999999986643  1235667788999999998743 3333344332  1111        1235666666667666665


Q ss_pred             cc
Q 043265          152 GE  153 (245)
Q Consensus       152 ~~  153 (245)
                      |.
T Consensus       193 A~  194 (336)
T d1b89a_         193 AI  194 (336)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=94.25  E-value=0.22  Score=37.65  Aligned_cols=157  Identities=8%  Similarity=-0.059  Sum_probs=100.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC----CCCHHHHHHHHHHhhhhhhHHHHH-------HHHhc-CCCC--cHhhHHH
Q 043265            5 ELKHLCREREVKAALEVMDKLKNIGI----FLDSPDIIELLNVCMDLKLLEAGK-------RFEND-GVRP--NWSTFVG   70 (245)
Q Consensus         5 ll~~~~~~g~~~~A~~lf~~m~~~g~----~p~~~t~~~ll~~~~~~~~~~~~~-------~~~~~-~~~p--~~~t~~~   70 (245)
                      +-..+...|+++.|...+.......-    .....++......+...+....+.       .+... +..+  ....+..
T Consensus       139 la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~  218 (366)
T d1hz4a_         139 RAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV  218 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHH
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHH
Confidence            33567788999999999998865422    223344444555555555444432       22222 2222  2345666


Q ss_pred             HHHHhcccCcHHHHHHHHHHhhhhcCCC--cchHHHHHHHHHHhccCCHHHHHHHHHhc-------CCCCcH-HHHHHHH
Q 043265           71 VITACGCFGAVDEGFQHFESVTRDYDIN--PTLEHFLGIVDLYGRLQKIAEAREFIRNM-------QIDASS-VVWETLE  140 (245)
Q Consensus        71 ll~~~~~~g~~~~a~~~~~~m~~~~~~~--p~~~~~~~li~~y~~~g~~~~a~~~~~~m-------~~~~~~-~~~~~li  140 (245)
                      +...+...|+.+.|...+........-.  .....+..+..+|...|+.++|...++..       ...|+. ..|..+-
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHH
Confidence            7777888999999999998764421111  12345667888999999999999988765       223443 4455555


Q ss_pred             HHHHhCCCCccccccc--ccccc
Q 043265          141 KYAQTEPGLLLGEPSS--SLRLS  161 (245)
Q Consensus       141 ~~~~~~g~~~~~~~~~--~~~~~  161 (245)
                      ..|...|+.+.|....  ++++.
T Consensus       299 ~~~~~~g~~~~A~~~l~~Al~l~  321 (366)
T d1hz4a_         299 QLYWQAGRKSDAQRVLLDALKLA  321 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHh
Confidence            8888999999887665  55543

>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=93.99  E-value=0.078  Score=36.39  Aligned_cols=91  Identities=10%  Similarity=0.021  Sum_probs=66.4

Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCC--------------cchHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHH
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDIN--------------PTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWE  137 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~--------------p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~  137 (245)
                      .+.+.|++.+|...|.+...-....              ..+.+|+-+-.+|.+.|++++|.+.++..- +.| ++..|-
T Consensus        26 ~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~  105 (153)
T d2fbna1          26 EFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALY  105 (153)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhH
Confidence            4456677777777776654311111              123467778899999999999999998763 344 678888


Q ss_pred             HHHHHHHhCCCCccccccc--cccccccc
Q 043265          138 TLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       138 ~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .+-.++...|+++.|...+  ++++.|+.
T Consensus       106 ~~g~~~~~lg~~~~A~~~~~~al~l~P~n  134 (153)
T d2fbna1         106 KLGVANMYFGFLEEAKENLYKAASLNPNN  134 (153)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHSTTC
T ss_pred             HhHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            8889999999999988877  77776654

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=93.82  E-value=0.91  Score=33.92  Aligned_cols=90  Identities=11%  Similarity=-0.019  Sum_probs=54.2

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhhhh---cCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC-------CCCc--HH
Q 043265           67 TFVGVITACGCFGAVDEGFQHFESVTRD---YDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ-------IDAS--SV  134 (245)
Q Consensus        67 t~~~ll~~~~~~g~~~~a~~~~~~m~~~---~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~-------~~~~--~~  134 (245)
                      .+..+-..+...|+++.+...+......   .+.......+..+...+...|...++...+....       ..+.  ..
T Consensus       135 ~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~  214 (366)
T d1hz4a_         135 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISN  214 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHH
T ss_pred             HHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHH
Confidence            4555666777888898888888766442   2223344556666677777787777776664331       1111  23


Q ss_pred             HHHHHHHHHHhCCCCccccccc
Q 043265          135 VWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       135 ~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      .+..+...+...|+.+.+....
T Consensus       215 ~~~~~~~~~~~~~~~~~a~~~~  236 (366)
T d1hz4a_         215 ANKVRVIYWQMTGDKAAAANWL  236 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHH
Confidence            3444446667777777665544

>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=93.26  E-value=0.2  Score=35.43  Aligned_cols=71  Identities=13%  Similarity=-0.012  Sum_probs=53.1

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhcC--CCC-cHhhHHHHHHHhcccCcHHHHHHHHHHhhh----hcCCCcchHHHH
Q 043265           35 PDIIELLNVCMDLKLLEAGKRFENDG--VRP-NWSTFVGVITACGCFGAVDEGFQHFESVTR----DYDINPTLEHFL  105 (245)
Q Consensus        35 ~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~~~~p~~~~~~  105 (245)
                      ..+..+..++.+.|.++.+....+..  ..| +...|..++.+|.+.|+.++|.+.|++...    +.|+.|+..+-.
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            56777788888888888876654432  333 678899999999999999999998887633    479999876543

>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=93.08  E-value=0.17  Score=34.63  Aligned_cols=98  Identities=12%  Similarity=0.033  Sum_probs=48.5

Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHH
Q 043265            8 HLCREREVKAALEVMDKLKNIGI-FLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQ   86 (245)
Q Consensus         8 ~~~~~g~~~~A~~lf~~m~~~g~-~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~   86 (245)
                      .+.+.|++++|++.|.+..+..- -|+...+.         ..            .....+|+.+-.+|...|++++|..
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~---------~~------------~~~a~~~~nlg~~~~~lg~~~~A~~   76 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFD---------HA------------GFDAFCHAGLAEALAGLRSFDEALH   76 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCC---------HH------------HHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcc---------cc------------hhHHHHHHHHHHHHHHcCccchhhH
Confidence            44566888888888888764211 12210000         00            0012344555555556666666555


Q ss_pred             HHHHhhhh----cCCCcc-----hHHHHHHHHHHhccCCHHHHHHHHHh
Q 043265           87 HFESVTRD----YDINPT-----LEHFLGIVDLYGRLQKIAEAREFIRN  126 (245)
Q Consensus        87 ~~~~m~~~----~~~~p~-----~~~~~~li~~y~~~g~~~~a~~~~~~  126 (245)
                      .+++...-    ....++     ...|..+=.+|.+.|+.++|...|++
T Consensus        77 ~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~  125 (156)
T d2hr2a1          77 SADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKK  125 (156)
T ss_dssp             HHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            55544220    011111     12345566677777777777776654

>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=92.80  E-value=0.92  Score=31.04  Aligned_cols=111  Identities=6%  Similarity=0.025  Sum_probs=71.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhc---CCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHH
Q 043265            7 KHLCREREVKAALEVMDKLKNI---GIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDE   83 (245)
Q Consensus         7 ~~~~~~g~~~~A~~lf~~m~~~---g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~   83 (245)
                      ..+.+.|++++|.+.|.+....   ...++...             ......+       ....|+.+-.+|.+.|++++
T Consensus        23 ~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~-------------~~~~~~~-------~~~~~~Nla~~~~~l~~~~~   82 (168)
T d1kt1a1          23 TVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKE-------------SKASESF-------LLAAFLNLAMCYLKLREYTK   82 (168)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHH-------------HHHHHHH-------HHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhhccchhh-------------hhhcchh-------HHHHHHhHHHHHHHhhhccc
Confidence            4577889999999999875431   11111100             0000111       13456667778888999999


Q ss_pred             HHHHHHHhhhhcCCCc-chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCcHHHHHHHH
Q 043265           84 GFQHFESVTRDYDINP-TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDASSVVWETLE  140 (245)
Q Consensus        84 a~~~~~~m~~~~~~~p-~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~~~~~~~li  140 (245)
                      |...++....   +.| +...|-.+-.+|...|++++|...|+... +.|+.......+
T Consensus        83 Ai~~~~~al~---l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l  138 (168)
T d1kt1a1          83 AVECCDKALG---LDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQI  138 (168)
T ss_dssp             HHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             chhhhhhhhh---cccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            9998887765   233 56677788888999999999999888774 566544333333

>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=92.50  E-value=0.3  Score=32.09  Aligned_cols=85  Identities=12%  Similarity=0.040  Sum_probs=53.4

Q ss_pred             HhhhhhhHHHHHHHHhc--CCC-CcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-----hHHHHHHHHHHhcc
Q 043265           43 VCMDLKLLEAGKRFEND--GVR-PNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-----LEHFLGIVDLYGRL  114 (245)
Q Consensus        43 ~~~~~~~~~~~~~~~~~--~~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~y~~~  114 (245)
                      .|.+.|.++.|.+....  .+. .+...|..+-.+|.+.|++++|.+.++...+-..-.+.     ..+|..+=+.+...
T Consensus        13 ~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~~~~   92 (128)
T d1elra_          13 DAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSYFKE   92 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHh
Confidence            35555666666554222  122 35777888888888888888888888776431000111     23566667777778


Q ss_pred             CCHHHHHHHHHhc
Q 043265          115 QKIAEAREFIRNM  127 (245)
Q Consensus       115 g~~~~a~~~~~~m  127 (245)
                      +++++|...|+.-
T Consensus        93 ~~~~~A~~~~~ka  105 (128)
T d1elra_          93 EKYKDAIHFYNKS  105 (128)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            8888888888654

>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=92.28  E-value=0.21  Score=34.65  Aligned_cols=91  Identities=11%  Similarity=0.043  Sum_probs=62.7

Q ss_pred             HhcccCcHHHHHHHHHHhhhhcCCCc-------------chHHHHHHHHHHhccCCHHHHHHHHHhcC-C-CCcHHHHHH
Q 043265           74 ACGCFGAVDEGFQHFESVTRDYDINP-------------TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-I-DASSVVWET  138 (245)
Q Consensus        74 ~~~~~g~~~~a~~~~~~m~~~~~~~p-------------~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~-~~~~~~~~~  138 (245)
                      .+.+.|++++|...|.+...-....+             ....|+-+-.+|.+.|++++|...++..- + +.+...|..
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            45566677777776655432111111             12345667788999999999999998763 2 446777888


Q ss_pred             HHHHHHhCCCCccccccc--cccccccc
Q 043265          139 LEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       139 li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      +-.++...|+++.|...+  ++.+.|+.
T Consensus       104 ~~~~~~~l~~~~~A~~~~~~al~l~P~n  131 (168)
T d1kt1a1         104 RGEAQLLMNEFESAKGDFEKVLEVNPQN  131 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            889999999999988877  77776654

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=92.28  E-value=0.11  Score=39.37  Aligned_cols=118  Identities=13%  Similarity=-0.003  Sum_probs=72.5

Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcC--CCCc-HhhHHHHHHHhcccCcHHHHH
Q 043265            9 LCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDG--VRPN-WSTFVGVITACGCFGAVDEGF   85 (245)
Q Consensus         9 ~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~--~~p~-~~t~~~ll~~~~~~g~~~~a~   85 (245)
                      ..+.|++++|+..|.+..+.. .-|...+..+...++..|.++.|.+..+..  ..|+ ...+..+-..+...+..+++.
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHH
Confidence            446799999999999988764 246789999999999999999987654432  3454 333333333333233332222


Q ss_pred             HHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhcC
Q 043265           86 QHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNMQ  128 (245)
Q Consensus        86 ~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m~  128 (245)
                      .-...-.. .+-.++...+......+.+.|+.++|..++....
T Consensus        85 ~~~~~~~~-~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~  126 (264)
T d1zbpa1          85 QGAATAKV-LGENEELTKSLVSFNLSMVSQDYEQVSELALQIE  126 (264)
T ss_dssp             TSCCCEEC-CCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHhhhhhc-ccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            11110000 0111233445556677888999999999887663

>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=92.07  E-value=0.22  Score=33.70  Aligned_cols=111  Identities=14%  Similarity=0.136  Sum_probs=65.9

Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHHHHH
Q 043265            9 LCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGFQHF   88 (245)
Q Consensus         9 ~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~   88 (245)
                      |-+.+.+++|.+.|+...+.. +-+...+..+=.+|...+.+..+.+                     ..+.+++|...|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e---------------------~~~~~~~Ai~~~   64 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISD---------------------AKQMIQEAITKF   64 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHH---------------------HHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhH---------------------HHHHHHHHHHHH
Confidence            445667889999999987764 2345666666666655544433221                     123456677777


Q ss_pred             HHhhhhcCCCcc-hHHHHHHHHHHhccC-----------CHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Q 043265           89 ESVTRDYDINPT-LEHFLGIVDLYGRLQ-----------KIAEAREFIRNMQ-IDASSVVWETLEKYAQ  144 (245)
Q Consensus        89 ~~m~~~~~~~p~-~~~~~~li~~y~~~g-----------~~~~a~~~~~~m~-~~~~~~~~~~li~~~~  144 (245)
                      +...+   +.|+ ..+|..+=.+|...|           .+++|.+.|++.- +.|+...|..-+.-+.
T Consensus        65 ~kAl~---l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~  130 (145)
T d1zu2a1          65 EEALL---IDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA  130 (145)
T ss_dssp             HHHHH---HCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHH---hcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHH
Confidence            66643   3443 455666666665543           2466777776553 5777666666665543

>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=91.84  E-value=0.89  Score=35.45  Aligned_cols=126  Identities=13%  Similarity=0.032  Sum_probs=86.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHHhcCCCCcHhhHHHHHHHhcccCcHHHHH
Q 043265            6 LKHLCREREVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFENDGVRPNWSTFVGVITACGCFGAVDEGF   85 (245)
Q Consensus         6 l~~~~~~g~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~p~~~t~~~ll~~~~~~g~~~~a~   85 (245)
                      ..-|-+.|.++.|..+|..+..         |.-++..+.+.+++..+.+....-  -+..+|.-+..+|.+......+.
T Consensus        21 ~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e~~la~   89 (336)
T d1b89a_          21 GDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQ   89 (336)
T ss_dssp             --------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcHHHHHH
Confidence            3456688999999999987754         666777777777777665553322  25668888899988887765432


Q ss_pred             HHHHHhhhhcCCCcchHHHHHHHHHHhccCCHHHHHHHHHhc-C-CCCcHHHHHHHHHHHHhCCC
Q 043265           86 QHFESVTRDYDINPTLEHFLGIVDLYGRLQKIAEAREFIRNM-Q-IDASSVVWETLEKYAQTEPG  148 (245)
Q Consensus        86 ~~~~~m~~~~~~~p~~~~~~~li~~y~~~g~~~~a~~~~~~m-~-~~~~~~~~~~li~~~~~~g~  148 (245)
                           +.. .+...+......++..|-..|.+++...+++.. . -.++...++-++.+|++.+.
T Consensus        90 -----i~~-~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~~  148 (336)
T d1b89a_          90 -----MCG-LHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKP  148 (336)
T ss_dssp             -----HTT-TTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCH
T ss_pred             -----HHH-HHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhCh
Confidence                 222 334445556678999999999999999999854 3 25677889999999988754

>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=90.77  E-value=0.4  Score=32.54  Aligned_cols=100  Identities=9%  Similarity=0.018  Sum_probs=68.1

Q ss_pred             HhhHHHH--HHHhcccCcHHHHHHHHHHhhhhcCCCcc----------hHHHHHHHHHHhccCCHHHHHHHHHhcC----
Q 043265           65 WSTFVGV--ITACGCFGAVDEGFQHFESVTRDYDINPT----------LEHFLGIVDLYGRLQKIAEAREFIRNMQ----  128 (245)
Q Consensus        65 ~~t~~~l--l~~~~~~g~~~~a~~~~~~m~~~~~~~p~----------~~~~~~li~~y~~~g~~~~a~~~~~~m~----  128 (245)
                      ..+|..+  -..+.+.|++++|.+.|++..+-..-.|+          ...|+.+-.+|.+.|++++|..-+++.-    
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3456655  34455679999999999887542222222          3578889999999999999988776531    


Q ss_pred             ----CCCc-----HHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          129 ----IDAS-----SVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       129 ----~~~~-----~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                          ..++     ...|+.+=.+|...|+.+.|...+  ++++.|+.
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence                2222     123455558888999999888777  77666544

>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=89.85  E-value=0.65  Score=31.82  Aligned_cols=65  Identities=11%  Similarity=-0.048  Sum_probs=51.5

Q ss_pred             chHHHHHHHHHHhccCCHHHHHHHHHhcC-CCC-cHHHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          100 TLEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDA-SSVVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       100 ~~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~-~~~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      ....|..+-.+|.+.|++++|...|+..- +.| ++..|..+=.++...|+.+.|...+  ++++.|+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n  144 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPED  144 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCC
Confidence            34567778899999999999999998763 444 4677877779999999999988777  77776654

>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=88.87  E-value=0.095  Score=40.57  Aligned_cols=55  Identities=9%  Similarity=-0.211  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHHHHHHHHhCCCCccccccc
Q 043265          102 EHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWETLEKYAQTEPGLLLGEPSS  156 (245)
Q Consensus       102 ~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~li~~~~~~g~~~~~~~~~  156 (245)
                      ..+..+...+...|+.++|...|.+.. ..|+ ..+|..+-.++...|+.+.|....
T Consensus       243 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~  299 (334)
T d1dcea1         243 FRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYF  299 (334)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            334445555555555666655555443 2232 233333445555555555554444

>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=87.63  E-value=0.43  Score=29.51  Aligned_cols=68  Identities=6%  Similarity=-0.111  Sum_probs=46.1

Q ss_pred             HHHHhcccCcHHHHHHHHHHhhhhc----CCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC-CCCc-HHHHHH
Q 043265           71 VITACGCFGAVDEGFQHFESVTRDY----DINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ-IDAS-SVVWET  138 (245)
Q Consensus        71 ll~~~~~~g~~~~a~~~~~~m~~~~----~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~-~~~~-~~~~~~  138 (245)
                      +=..+.+.|+++.|...|++..+..    ...++ ..+++.|-.+|.+.|++++|...+++.- +.|+ ...++.
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~N   85 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHH
Confidence            3345677888888888887664311    11122 4578889999999999999999998763 4555 344443

>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=87.06  E-value=0.86  Score=28.60  Aligned_cols=51  Identities=14%  Similarity=0.218  Sum_probs=33.9

Q ss_pred             HhcCCCCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcchHHHHHHHH
Q 043265           57 ENDGVRPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPTLEHFLGIVD  109 (245)
Q Consensus        57 ~~~~~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  109 (245)
                      ...-..|++....+.|+||.|.+++..|.++|+.++.+  +.++...|..+++
T Consensus        33 ~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K--~~~~k~~y~yilq   83 (105)
T d1v54e_          33 VGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ   83 (105)
T ss_dssp             TTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             hccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCcHHHHHHHHH
Confidence            34456777777777888888888888888888766543  3344445655543

>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=84.56  E-value=1.7  Score=27.16  Aligned_cols=60  Identities=18%  Similarity=0.199  Sum_probs=48.0

Q ss_pred             CHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhhhHHHHHHHH---hcCCCCcHhhHHHHHH
Q 043265           14 EVKAALEVMDKLKNIGIFLDSPDIIELLNVCMDLKLLEAGKRFE---NDGVRPNWSTFVGVIT   73 (245)
Q Consensus        14 ~~~~A~~lf~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~~~~~~---~~~~~p~~~t~~~ll~   73 (245)
                      +.-++.+-++.+-..++.|++....+-|+||-+.+++..|.++.   +..+.++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            55578888888899999999999999999999999999987763   3344455667777663

>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=84.43  E-value=1.3  Score=33.13  Aligned_cols=116  Identities=9%  Similarity=-0.059  Sum_probs=66.4

Q ss_pred             hhhhHHHHHHHHhcC--C-CCcHhhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHH
Q 043265           46 DLKLLEAGKRFENDG--V-RPNWSTFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAR  121 (245)
Q Consensus        46 ~~~~~~~~~~~~~~~--~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~  121 (245)
                      +.|++++|....+.-  . +-|...+..+...++..|++++|.+.|+...+   ..|+ ...+..+-..+...+..+++.
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccHHHH
Confidence            346777776654332  2 34678899999999999999999999988755   3454 334444444443333333322


Q ss_pred             HHHHhcC--CCCcH-HHHHHHHHHHHhCCCCccccccc--cccccccc
Q 043265          122 EFIRNMQ--IDASS-VVWETLEKYAQTEPGLLLGEPSS--SLRLSNKK  164 (245)
Q Consensus       122 ~~~~~m~--~~~~~-~~~~~li~~~~~~g~~~~~~~~~--~~~~~~~~  164 (245)
                      .-...-.  .+|+. ..+......+...|+.+.|....  +.+..|..
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~  132 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEK  132 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCC
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCC
Confidence            2111111  13332 22233336677778888877666  55555544

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.71  E-value=0.81  Score=37.52  Aligned_cols=79  Identities=6%  Similarity=-0.049  Sum_probs=62.6

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhhhhcCCCcc-hHHHHHHHHHHhccCCHHHHHHHHHhcC--CCCcHHHHHHHHHH
Q 043265           66 STFVGVITACGCFGAVDEGFQHFESVTRDYDINPT-LEHFLGIVDLYGRLQKIAEAREFIRNMQ--IDASSVVWETLEKY  142 (245)
Q Consensus        66 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~y~~~g~~~~a~~~~~~m~--~~~~~~~~~~li~~  142 (245)
                      .++..+=..+...|++++|...|.+...   +.|+ ...|+.|=..|...|+..+|...|.+--  .+|-...+..|...
T Consensus       153 ~~~~~LG~l~~~~~~~~~A~~~y~~A~~---l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~  229 (497)
T d1ya0a1         153 HCLVHLGDIARYRNQTSQAESYYRHAAQ---LVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHH---HCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            4566677778889999999999987754   4565 4789999999999999999999887553  25677888888877


Q ss_pred             HHhCC
Q 043265          143 AQTEP  147 (245)
Q Consensus       143 ~~~~g  147 (245)
                      +.+..
T Consensus       230 ~~~~~  234 (497)
T d1ya0a1         230 LSKAL  234 (497)
T ss_dssp             HHHHT
T ss_pred             HHHhh
Confidence            76643