Citrus Sinensis ID: 044945

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290------
Protein Sequence
VIANIVILERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLFRAC
Secondary Structure (PSIPRED)
cccccccccccccEEHHHHHHHHHccccccccccccccHHHHHHHHHHHcccHHHHHHHHccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHcccccccccccEEEccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHccccccccHHHHcccHHHHHHHHHHHcHHHHHHHHHHcccccccEEEEccccccccHHHHHHHHHHHcccEEEEEccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEccccccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccEHHHHHHHHHHHccHHHHHHHHHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEcHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccccEcccccc
Coil and Loop (DISEMBL)
VIANIVILErnenvelsnglagcnefmdkangiTDRFEERAvsighyadldgisdqlpsssggrqvdihfdggvdglrpsrsgsvrKVFEIMAVRDFLEYCDYAisrnsitagcgqngpfdegLKFFGQMLMAKIKArhapfsrimhagSTENVWLTLLSACRVHRNVELAEKVADMIlmiepnntgAYVILINEALKDLLERMeqegyvpdtkEVLLDVEEEQKKNILYYHGERLALVFGIistpdgttirviknlpslrglrhgnkVVSKIVHREMIVRDNRRFCRHFLLFRAC
Flexible Loop (DISEMBL)
vianivilernenvelsnglaGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFdggvdglrpsrsgsvrkVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGiistpdgtTIRVIknlpslrglrhgnkvvskivhremivrdnrRFCRHFLLFRAC
Low Complexity Region (SEG)
VIANIVILERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLFRAC
Disordered region (IsUnstruct)
**ANIVILERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGI**************IHFDGGV*********SVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLFR**
Disordered Region (DISOPRED)
***NIV*LERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLFRAC
Disordered Region (DISEMBL)
VIANIVILERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLFRAC
Disordered Region (DISPRO)
VIANIVILERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLF**C
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VIANIVILERNENVELSNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLFRAC
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	296	2.2.26 [Sep-21-2011]
Q9SHZ8	786	Pentatricopeptide repeat-	yes	no	0.459	0.173	0.359	6e-26
Q9LW63	715	Putative pentatricopeptid	no	no	0.537	0.222	0.346	9e-24
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.459	0.183	0.354	2e-23
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.601	0.205	0.294	2e-22
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.608	0.202	0.308	3e-22
Q0WN60	970	Pentatricopeptide repeat-	no	no	0.608	0.185	0.291	1e-21
Q9FHF9	697	Pentatricopeptide repeat-	no	no	0.466	0.197	0.328	2e-21
O23169	691	Pentatricopeptide repeat-	no	no	0.614	0.263	0.270	3e-21
Q9SMZ2	990	Pentatricopeptide repeat-	no	no	0.304	0.090	0.484	8e-21
Q9LNU6	760	Pentatricopeptide repeat-	no	no	0.625	0.243	0.287	5e-20

>sp|Q9SHZ8|PP168_ARATH Pentatricopeptide repeat-containing protein At2g22070 OS=Arabidopsis thaliana GN=PCMP-H41 PE=3 SV=1

 Score =  118 bits (295), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 69/192 (35%), Positives = 99/192 (51%), Gaps = 56/192 (29%)

Query: 154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN---------------EALK 198
            W +LLSACRVH+N++L +  A+ +L++EP N+GAY  L N               +++K
Sbjct: 585 TWGSLLSACRVHKNIDLGKVAAERLLLLEPENSGAYSALANLYSACGKWEEAAKIRKSMK 644

Query: 199 D----------------------------------------LLERMEQEGYVPDTKEVLL 218
           D                                        + + +++ GYVPDT  VL 
Sbjct: 645 DGRVKKEQGFSWIEVKHKVHVFGVEDGTHPEKNEIYMTMKKIWDEIKKMGYVPDTASVLH 704

Query: 219 DVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREM 278
           D+EEE K+ IL +H E+LA+ FG+ISTPD TT+R++KNL          K +SK+V RE+
Sbjct: 705 DLEEEVKEQILRHHSEKLAIAFGLISTPDKTTLRIMKNLRVCNDCHTAIKFISKLVGREI 764

Query: 279 IVRDNRRFCRHF 290
           IVRD  RF  HF
Sbjct: 765 IVRDTTRF-HHF 775

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW63|PP251_ARATH Putative pentatricopeptide repeat-containing protein At3g23330 OS=Arabidopsis thaliana GN=PCMP-H32 PE=3 SV=1

 Score =  110 bits (276), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 80/231 (34%), Positives = 104/231 (45%), Gaps = 72/231 (31%)

Query: 115 GQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELA--- 171
           G+ G  +E   F  +M +                  T +VW TLLS+C VH+N+ELA   
Sbjct: 491 GRAGKLEEAYNFISKMCVE----------------PTGSVWSTLLSSCSVHKNLELAEKV 534

Query: 172 ---------EKVADMILMIE----------------------------------PNNTGA 188
                    E +   +LM                                     N T  
Sbjct: 535 AEKIFTVDSENMGAYVLMCNMYASNGRWKEMAKLRLRMRKKGLRKKPACSWIEMKNKTHG 594

Query: 189 YVI---------LINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALV 239
           +V           INE LK ++E+ME+EGYV DT  VL DV+EE K+ +L+ H ERLA+ 
Sbjct: 595 FVSGDRSHPSMDKINEFLKAVMEQMEKEGYVADTSGVLHDVDEEHKRELLFGHSERLAVA 654

Query: 240 FGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
           FGII+T  GTTIRV KN+          K +SKI  RE+IVRDN RF  HF
Sbjct: 655 FGIINTEPGTTIRVTKNIRICTDCHVAIKFISKITEREIIVRDNSRF-HHF 704

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070 OS=Arabidopsis thaliana GN=PCMP-H12 PE=2 SV=1

 Score =  109 bits (273), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 68/192 (35%), Positives = 93/192 (48%), Gaps = 56/192 (29%)

Query: 154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL---------INEALKD----- 199
           +W +LL AC++H NVEL E  A+ ++ IEP N G+YV+L          NE  K      
Sbjct: 540 IWCSLLKACKMHGNVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLN 599

Query: 200 -------------------------------------LLERME----QEGYVPDTKEVLL 218
                                                +LE ME    + G+VPDT EVL 
Sbjct: 600 DKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAGFVPDTSEVLQ 659

Query: 219 DVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREM 278
           ++EEE K+  L +H E+LA+ FG+IST  GT + ++KNL   R      K++SKI  RE+
Sbjct: 660 EMEEEWKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRVCRNCHEATKLISKIYKREI 719

Query: 279 IVRDNRRFCRHF 290
           I RD  RF  HF
Sbjct: 720 IARDRTRF-HHF 730

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g27610 OS=Arabidopsis thaliana GN=PCMP-H60 PE=2 SV=1

 Score =  106 bits (265), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 76/258 (29%), Positives = 115/258 (44%), Gaps = 80/258 (31%)

Query: 110 ITAGCGQNGPFDEGLKFFGQML--------------MAKIKARHAPFSRIMH-------- 147
           + A C   G  +EG K+F  M+              M  + +R     + M         
Sbjct: 602 VFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIENMPNP 661

Query: 148 AGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI---------------- 191
           AGST  +W T+L+ACRVH+  EL    A+ I+ ++P ++ AYV+                
Sbjct: 662 AGST--IWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQERAK 719

Query: 192 ---LINE------------------------------------ALKDLLERMEQEGYVPD 212
              L+NE                                     L+DL  R++  GY PD
Sbjct: 720 VRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLGYEPD 779

Query: 213 TKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSK 272
           T  VL D+++E K+ +L  H ERLA+ FG+I+TP G+ + +IKNL          K+++K
Sbjct: 780 TSYVLQDIDDEHKEAVLAQHSERLAIAFGLIATPKGSPLLIIKNLRVCGDCHLVIKLIAK 839

Query: 273 IVHREMIVRDNRRFCRHF 290
           I  RE++VRD+ RF  HF
Sbjct: 840 IEEREIVVRDSNRF-HHF 856

Arabidopsis thaliana (taxid: 3702)

>sp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H81 PE=2 SV=2

 Score =  105 bits (263), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 79/256 (30%), Positives = 108/256 (42%), Gaps = 76/256 (29%)

Query: 109 SITAGCGQNGPFDEGLKFFGQML---------------------MAKIKARHAPFSRIMH 147
           S+ A C  +G  DEGL+ F  M                        +IK  +   + +  
Sbjct: 623 SVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPR 682

Query: 148 AGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN------------- 194
             +    W +LL A R+H N+E+ E  A  ++ +EPN    YV+L N             
Sbjct: 683 DFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATE 742

Query: 195 --------------------------------------EALKDLLE----RMEQEGYVPD 212
                                                 E L   LE    RM +EGYVPD
Sbjct: 743 VRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPD 802

Query: 213 TKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSK 272
           T  VL +VEE++K+ +L  H E+LA+ FGI++T  GT IRV KNL          K +SK
Sbjct: 803 TSCVLHNVEEDEKEILLCGHSEKLAIAFGILNTSPGTIIRVAKNLRVCNDCHLATKFISK 862

Query: 273 IVHREMIVRDNRRFCR 288
           IV RE+I+RD RRF R
Sbjct: 863 IVDREIILRDVRRFHR 878

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WN60|PPR48_ARATH Pentatricopeptide repeat-containing protein At1g18485 OS=Arabidopsis thaliana GN=PCMP-H8 PE=2 SV=2

 Score =  104 bits (259), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 75/257 (29%), Positives = 109/257 (42%), Gaps = 77/257 (29%)

Query: 110 ITAGCGQNGPFDEGLKFFGQM-----LMAKIKARHAPFSRIMHAGSTEN----------- 153
           +   C  +G   EGL++  QM     L   +K        +  AG  +            
Sbjct: 704 VLTACNHSGLIHEGLRYLDQMKSSFGLKPNLKHYACVIDMLGRAGQLDKALRVVAEEMSE 763

Query: 154 -----VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN-------------- 194
                +W +LLS+CR+H+N+E+ EKVA  +  +EP     YV+L N              
Sbjct: 764 EADVGIWKSLLSSCRIHQNLEMGEKVAAKLFELEPEKPENYVLLSNLYAGLGKWEDVRKV 823

Query: 195 -------------------------------------EALKDLLERMEQE----GYVPDT 213
                                                E +K L   +E +    GY PDT
Sbjct: 824 RQRMNEMSLRKDAGCSWIELNRKVFSFVVGERFLDGFEEIKSLWSILEMKISKMGYRPDT 883

Query: 214 KEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKI 273
             V  D+ EE+K   L  H E+LAL +G+I T +GTTIRV KNL       +  K++SK+
Sbjct: 884 MSVQHDLSEEEKIEQLRGHSEKLALTYGLIKTSEGTTIRVYKNLRICVDCHNAAKLISKV 943

Query: 274 VHREMIVRDNRRFCRHF 290
           + RE++VRDN+RF  HF
Sbjct: 944 MEREIVVRDNKRF-HHF 959

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHF9|PP419_ARATH Pentatricopeptide repeat-containing protein At5g46460, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H49 PE=2 SV=1

 Score =  103 bits (256), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 63/192 (32%), Positives = 94/192 (48%), Gaps = 54/192 (28%)

Query: 152 ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN----------------- 194
           E VWL LLSACR+H +V+  EK A  I  ++  ++ AYV+L N                 
Sbjct: 496 EMVWLALLSACRMHSDVDRGEKAAAAIFNLDSKSSAAYVLLSNIYASAGRWSNVSKLRVK 555

Query: 195 ------------------------------------EALKDLLERMEQEGYVPDTKEVLL 218
                                               E L+ L E++++ GY PD +  L 
Sbjct: 556 MKKNGIMKKPGSSWVVIRGKKHEFFSGDQPHCSRIYEKLEFLREKLKELGYAPDYRSALH 615

Query: 219 DVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREM 278
           DVE+EQK+ +L+YH ERLA+ FG+I+T +G+ + V+KNL          K++S +V RE+
Sbjct: 616 DVEDEQKEEMLWYHSERLAIAFGLINTVEGSAVTVMKNLRVCEDCHTVIKLISGVVGREI 675

Query: 279 IVRDNRRFCRHF 290
           ++RD  RF  HF
Sbjct: 676 VLRDPIRF-HHF 686

Arabidopsis thaliana (taxid: 3702)

>sp|O23169|PP353_ARATH Pentatricopeptide repeat-containing protein At4g37170 OS=Arabidopsis thaliana GN=PCMP-H5 PE=3 SV=1

 Score =  102 bits (254), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 79/292 (27%), Positives = 110/292 (37%), Gaps = 110/292 (37%)

Query: 105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIM----HAGSTEN------- 153
           +S  S+  GC QNG  DE LK+F  +L +  K  H  F  ++    HAG  E        
Sbjct: 386 VSWTSLIGGCAQNGQPDEALKYFDLLLKSGTKPDHVTFVNVLSACTHAGLVEKGLEFFYS 445

Query: 154 --------------------------------------------VWLTLLSACRVHRNVE 169
                                                       +W ++L  C  + N++
Sbjct: 446 ITEKHRLSHTSDHYTCLVDLLARSGRFEQLKSVISEMPMKPSKFLWASVLGGCSTYGNID 505

Query: 170 LAEKVADMILMIEPNNTGAYVILIN--------EALKDLLERMEQ--------------- 206
           LAE+ A  +  IEP N   YV + N        E    + +RM++               
Sbjct: 506 LAEEAAQELFKIEPENPVTYVTMANIYAAAGKWEEEGKMRKRMQEIGVTKRPGSSWTEIK 565

Query: 207 --------------------------------EGYVPDTKEVLLDVEEEQKKNILYYHGE 234
                                           EGYVP T  VL DVE+EQK+  L YH E
Sbjct: 566 RKRHVFIAADTSHPMYNQIVEFLRELRKKMKEEGYVPATSLVLHDVEDEQKEENLVYHSE 625

Query: 235 RLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRF 286
           +LA+ F I+ST +GT I+V KNL S        K +S I  R++ VRD+ RF
Sbjct: 626 KLAVAFAILSTEEGTAIKVFKNLRSCVDCHGAIKFISNITKRKITVRDSTRF 677

Arabidopsis thaliana (taxid: 3702)

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

 Score =  101 bits (251), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 47/97 (48%), Positives = 68/97 (70%)

Query: 192 LINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTI 251
           LI   +KD++  ++QEGYVP+T   L+DVEEE+K+  LYYH E+LA+ FG++STP  T I
Sbjct: 882 LIYRKVKDMIRDIKQEGYVPETDFTLVDVEEEEKERALYYHSEKLAVAFGLLSTPPSTPI 941

Query: 252 RVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCR 288
           RVIKNL       +  K ++K+ +RE+++RD  RF R
Sbjct: 942 RVIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFHR 978

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LNU6|PPR53_ARATH Pentatricopeptide repeat-containing protein At1g20230 OS=Arabidopsis thaliana GN=PCMP-H21 PE=2 SV=2

 Score = 98.6 bits (244), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 75/261 (28%), Positives = 114/261 (43%), Gaps = 76/261 (29%)

Query: 105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAK-IKARHAPFSRIMH----AGSTEN------ 153
           IS  S+ + CGQ G  DEG K+F  M     IK R   +S +++    AG  +       
Sbjct: 490 ISFTSLLSACGQVGLTDEGWKYFKMMSEEYGIKPRLEHYSCMVNLLGRAGKLQEAYDLIK 549

Query: 154 ---------VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGA---------------- 188
                    VW  LL++CR+  NV+LAE  A+ +  +EP N G                 
Sbjct: 550 EMPFEPDSCVWGALLNSCRLQNNVDLAEIAAEKLFHLEPENPGTYVLLSNIYAAKGMWTE 609

Query: 189 ----------------------------YVIL-----------INEALKDLLERMEQEGY 209
                                       Y +L           I E + ++ + M + G+
Sbjct: 610 VDSIRNKMESLGLKKNPGCSWIQVKNRVYTLLAGDKSHPQIDQITEKMDEISKEMRKSGH 669

Query: 210 VPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKV 269
            P+    L DVEE++++ +L+ H E+LA+VFG+++TPDGT ++VIKNL          K 
Sbjct: 670 RPNLDFALHDVEEQEQEQMLWGHSEKLAVVFGLLNTPDGTPLQVIKNLRICGDCHAVIKF 729

Query: 270 VSKIVHREMIVRDNRRFCRHF 290
           +S    RE+ +RD  RF  HF
Sbjct: 730 ISSYAGREIFIRDTNRF-HHF 749

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	296
449433569	705	PREDICTED: putative pentatricopeptide re	0.611	0.256	0.377	7e-35
449508565	712	PREDICTED: LOW QUALITY PROTEIN: putative	0.611	0.254	0.377	2e-34
307136183	773	hypothetical protein [Cucumis melo subsp	0.611	0.234	0.381	4e-34
356511287	674	PREDICTED: putative pentatricopeptide re	0.672	0.295	0.348	7e-27
297743485	605	unnamed protein product [Vitis vinifera]	0.787	0.385	0.312	5e-26
296082479	590	unnamed protein product [Vitis vinifera]	0.672	0.337	0.323	2e-25
449496903	583	PREDICTED: pentatricopeptide repeat-cont	0.618	0.313	0.352	7e-25
296085848	644	unnamed protein product [Vitis vinifera]	0.358	0.164	0.607	1e-24
359481040	709	PREDICTED: putative pentatricopeptide re	0.358	0.149	0.607	1e-24
357521373	701	Pentatricopeptide repeat-containing prot	0.611	0.258	0.337	3e-24

>gi|449433569|ref|XP_004134570.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g23330-like [Cucumis sativus]

 Score =  153 bits (387), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 97/257 (37%), Positives = 126/257 (49%), Gaps = 76/257 (29%)

Query: 109 SITAGCGQNGPFDEGLKFFGQML----MAKIKARHAPFSRI----------------MHA 148
           ++   C   G  DE  K+F  M     +A     +A  S +                MH 
Sbjct: 439 AVLTACSHGGLVDEAWKYFNSMTRDFGIAPGVEHYAAVSDLLGRAGRLEEAYDFICGMHI 498

Query: 149 GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN-------------- 194
           G T ++W TLLSACRVH+N+++AEKVA+ IL ++PNNTGAY++L N              
Sbjct: 499 GPTGSIWATLLSACRVHKNIDMAEKVANRILEVDPNNTGAYILLANIYSAARRWKEAAKW 558

Query: 195 -------------------------------------EALKDLLE----RMEQEGYVPDT 213
                                                E +++ +E     ME+EGYVPDT
Sbjct: 559 RASMRRIGIRKTPACSWIEVKNKVYAFMAGDESHPCYEKIREAMEVLVELMEKEGYVPDT 618

Query: 214 KEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKI 273
            EV  DVEEEQKK ++  H ERLA+VFGII+TP G TIRV KNL          K +SKI
Sbjct: 619 SEVHHDVEEEQKKYLVCSHSERLAIVFGIINTPAGMTIRVTKNLRVCTDCHTATKFISKI 678

Query: 274 VHREMIVRDNRRFCRHF 290
           V RE++VRDN RF  HF
Sbjct: 679 VGREIVVRDNSRF-HHF 694

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449508565|ref|XP_004163348.1| PREDICTED: LOW QUALITY PROTEIN: putative pentatricopeptide repeat-containing protein At3g23330-like [Cucumis sativus]

 Score =  152 bits (384), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 97/257 (37%), Positives = 125/257 (48%), Gaps = 76/257 (29%)

Query: 109 SITAGCGQNGPFDEGLKFFGQML----MAKIKARHAPFSRI----------------MHA 148
           ++   C   G  DE  K+F  M     +A     +A  S +                MH 
Sbjct: 446 AVLTACSHGGLVDEAWKYFNSMTRDFGIAPGVEHYAAVSDLLGRAGRLEEAYDFICGMHI 505

Query: 149 GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN-------------- 194
           G T ++W TLLSACRVH N+++AEKVA+ IL ++PNNTGAY++L N              
Sbjct: 506 GPTGSIWATLLSACRVHXNIDMAEKVANRILEVDPNNTGAYILLANIYSAARRWKEAAKW 565

Query: 195 -------------------------------------EALKDLLE----RMEQEGYVPDT 213
                                                E +++ +E     ME+EGYVPDT
Sbjct: 566 RASMRRIGIRKTPACSWIEVKNKVYAFMAGDESHPCYEKIREAMEVLVELMEKEGYVPDT 625

Query: 214 KEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKI 273
            EV  DVEEEQKK ++  H ERLA+VFGII+TP G TIRV KNL          K +SKI
Sbjct: 626 SEVHHDVEEEQKKYLVCSHSERLAIVFGIINTPAGMTIRVTKNLRVCTDCHTATKFISKI 685

Query: 274 VHREMIVRDNRRFCRHF 290
           V RE++VRDN RF  HF
Sbjct: 686 VGREIVVRDNSRF-HHF 701

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136183|gb|ADN34022.1| hypothetical protein [Cucumis melo subsp. melo]

 Score =  151 bits (381), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 98/257 (38%), Positives = 125/257 (48%), Gaps = 76/257 (29%)

Query: 109 SITAGCGQNGPFDEGLKFFGQMLM----AKIKARHAPFSRI----------------MHA 148
           ++   C   G  DE  K+F  M +    A     +A  S +                M  
Sbjct: 507 AVLTACSHAGLVDEAWKYFNSMTLDFGIAPGVEHYAAVSDLLGRAGRLEEAYDFICGMPI 566

Query: 149 GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN-------------- 194
           G T +VW TLLSACRVH+NV++AEKVA+ IL ++P NTGAY++L N              
Sbjct: 567 GPTGSVWATLLSACRVHKNVDMAEKVANRILEVDPKNTGAYILLANIYSAARRWKEAAKW 626

Query: 195 -------------------------------------EALKDLLE----RMEQEGYVPDT 213
                                                E +++ +E     ME+EGYVPDT
Sbjct: 627 RASLRRTGIRKTPACSWIEVRNKVYAFMAGDESHPCYEKIREAMEVLMELMEKEGYVPDT 686

Query: 214 KEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKI 273
            EV  DVEEEQKK ++  H ERLA+VFGII+TP GTTIRV KNL          K +SKI
Sbjct: 687 SEVHHDVEEEQKKYLVCSHSERLAIVFGIINTPAGTTIRVTKNLRVCTDCHTATKFISKI 746

Query: 274 VHREMIVRDNRRFCRHF 290
           V RE++VRDN RF  HF
Sbjct: 747 VGREIVVRDNSRF-HHF 762

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511287|ref|XP_003524358.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g23330-like [Glycine max]

 Score =  127 bits (318), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 97/278 (34%), Positives = 129/278 (46%), Gaps = 79/278 (28%)

Query: 88  VFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQM----------------- 130
           +FE M V D ++ C  A    ++   C   G  DEG K+F  M                 
Sbjct: 390 LFEEMLV-DGVKPCYVAFM--AVLTACSHAGLVDEGWKYFNSMQRDFGVAPGLEHYAAVA 446

Query: 131 -LMAKIKARHAPFSRIMHAG--STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG 187
            L+ +       +  I + G   T +VW TLL+ACR H+N+ELAEKV + IL+++P N G
Sbjct: 447 DLLGRAGRLEEAYDFISNMGEEPTGSVWSTLLAACRAHKNIELAEKVVNKILLVDPGNMG 506

Query: 188 AYVILIN-----EALKD---LLERMEQEG------------------------------- 208
           A+VI+ N     +  +D   L  RM + G                               
Sbjct: 507 AHVIMSNIYSAAQRWRDAAKLRVRMRKTGLKKTPACSWIEVGNKVHTFLAGDKSHPYYDK 566

Query: 209 ----------------YVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIR 252
                           YV DT EVL DV+EE K+++L  H ERLA+ FGIIST  GTTIR
Sbjct: 567 INEALNILLEQMEKEGYVLDTNEVLHDVDEEHKRDLLRTHSERLAIAFGIISTTSGTTIR 626

Query: 253 VIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
           VIKN+          K ++KIV RE+IVRDN RF  HF
Sbjct: 627 VIKNIRVCVDCHTAIKFMAKIVGREIIVRDNSRF-HHF 663

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297743485|emb|CBI36352.3| unnamed protein product [Vitis vinifera]

 Score =  124 bits (311), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 96/307 (31%), Positives = 140/307 (45%), Gaps = 74/307 (24%)

Query: 41  AVSIGHY--ADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSVRKVFEIMAVRDFL 98
           A+ +G +  A +D    ++ S  G   +D++F+ G      +   ++R +F  M  RD  
Sbjct: 305 ALELGEWIKAYIDKNEIKIDSFVGNALIDMYFNCG------NVEKAIR-IFNAMPHRD-- 355

Query: 99  EYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTL 158
                 IS  ++  G   NG  +E L  F QML A I        + M       VW +L
Sbjct: 356 -----KISWTAVIFGLAINGYGEEALDMFSQMLKASITPDEV--IKNMPVKPNSIVWGSL 408

Query: 159 LSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN------------EALKDLLER--- 203
           L ACRVHR+ E+AE  A  IL +EP N   YV+L N            E  K +++R   
Sbjct: 409 LGACRVHRDEEMAEMAAQQILELEPENGAVYVLLCNIYAACNRWEKLHEVRKLMMDRGIK 468

Query: 204 ----------------------------------------MEQEGYVPDTKEVLLDVEEE 223
                                                   ++  GY PDT EV LD+ EE
Sbjct: 469 KTPGCSLIEMNGSVHEFVAGDQVHPQSKEIYSKLDEMSVDLKFAGYSPDTSEVFLDIGEE 528

Query: 224 QKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDN 283
           +K++ +Y H E+LA+ FG+IS+  G TIR++KNL       +  K+VSK+ +RE+IVRD 
Sbjct: 529 EKESAVYRHSEKLAIAFGLISSGPGVTIRIVKNLRMCVDCHYVAKLVSKVYNREVIVRDR 588

Query: 284 RRFCRHF 290
            RF  HF
Sbjct: 589 TRF-HHF 594

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082479|emb|CBI21484.3| unnamed protein product [Vitis vinifera]

 Score =  122 bits (305), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 87/269 (32%), Positives = 131/269 (48%), Gaps = 70/269 (26%)

Query: 80  SRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIK 136
           ++SGS+   R VF      + + +    I+  S+     Q+G  +E L  F +ML    +
Sbjct: 323 AKSGSINDARWVF------NLIHWKRDTITWTSMIIALAQHGLGEEALTLFERML----E 372

Query: 137 ARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN-- 194
             HA F   M        W +LL++C+VH+NVELAE  A+ +L+IEP N+GAY  L N  
Sbjct: 373 NAHA-FIENMPIEPDVIAWGSLLASCKVHKNVELAEVAAERLLLIEPENSGAYSALANVY 431

Query: 195 -------------------------------------------------EALKDLLERME 205
                                                            +A+ +++ ++ 
Sbjct: 432 SACGQWENAANIRKSMKDKGVKKDQGFSWVQIKNKVHIFGVDDGLHPQRDAIYEMMAKIW 491

Query: 206 QE----GYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLR 261
           +E    G+VPDT+ VL D+EEE K+ IL +H E+LA+ FG+I TP+ TT+R++KNL    
Sbjct: 492 KEIKKMGFVPDTESVLHDLEEELKEQILSHHSEKLAIAFGLICTPENTTLRIMKNLRVCN 551

Query: 262 GLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
                 K +SK+V RE+IVRD  RF  HF
Sbjct: 552 DCHSAIKFISKLVGREIIVRDATRF-HHF 579

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449496903|ref|XP_004160258.1| PREDICTED: pentatricopeptide repeat-containing protein At5g66520-like [Cucumis sativus]

 Score =  120 bits (301), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 79/224 (35%), Positives = 117/224 (52%), Gaps = 41/224 (18%)

Query: 104 AISRNSITAGCGQNGPFDEGLKFFGQM-----LMAKIKARHAP---FSR----------I 145
           A++   I   C   G  ++G K+F  M     ++ +I+        FSR          I
Sbjct: 346 AVTFIGILHACSHMGMVEKGRKYFASMTRDYGIVPRIEHYGCMVDLFSRAGLLQEAHEFI 405

Query: 146 MHAGSTEN--VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILIN--------- 194
           M+     N  VW  LL  C+VH+NV+LAE+    +  ++P N G YV+L N         
Sbjct: 406 MNMPIAPNGVVWGALLGGCKVHKNVKLAEEATRHLSKLDPLNDGYYVVLSNIYAEAGRWE 465

Query: 195 ------EALKD------LLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGI 242
                 + ++D      LL+RM+ +GYVP+T  VLLD+EE+QK+  LY H E+LA+VFG+
Sbjct: 466 DVARVRKLMRDRGTWEKLLQRMKLKGYVPNTSVVLLDMEEDQKEKFLYRHSEKLAVVFGL 525

Query: 243 ISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRF 286
           I T  GT IR++KNL          K++S +  RE++VRD  RF
Sbjct: 526 IKTTPGTVIRIMKNLRVCEDCHAALKIISVVSTREIVVRDRNRF 569

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296085848|emb|CBI31172.3| unnamed protein product [Vitis vinifera]

 Score =  119 bits (299), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 65/107 (60%), Positives = 75/107 (70%), Gaps = 1/107 (0%)

Query: 184 NNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGII 243
           + +  Y   INEALK LLE+ME+EGYV DT EVL DVEEEQK+ +L  H ERLA+ FGII
Sbjct: 528 DKSHPYYDRINEALKVLLEQMEREGYVLDTTEVLHDVEEEQKRYLLCSHSERLAITFGII 587

Query: 244 STPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
           STP GTTIRV KNL          K +SKIV RE++VRDN RF  HF
Sbjct: 588 STPAGTTIRVTKNLRVCVDCHTATKFISKIVGREIVVRDNSRF-HHF 633

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359481040|ref|XP_002266469.2| PREDICTED: putative pentatricopeptide repeat-containing protein At3g23330-like [Vitis vinifera]

 Score =  119 bits (299), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 65/107 (60%), Positives = 75/107 (70%), Gaps = 1/107 (0%)

Query: 184 NNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGII 243
           + +  Y   INEALK LLE+ME+EGYV DT EVL DVEEEQK+ +L  H ERLA+ FGII
Sbjct: 593 DKSHPYYDRINEALKVLLEQMEREGYVLDTTEVLHDVEEEQKRYLLCSHSERLAITFGII 652

Query: 244 STPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
           STP GTTIRV KNL          K +SKIV RE++VRDN RF  HF
Sbjct: 653 STPAGTTIRVTKNLRVCVDCHTATKFISKIVGREIVVRDNSRF-HHF 698

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357521373|ref|XP_003630975.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355524997|gb|AET05451.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  118 bits (296), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 87/258 (33%), Positives = 116/258 (44%), Gaps = 77/258 (29%)

Query: 109 SITAGCGQNGPFDEGLKFFGQM---------------------LMAKIKARHAPFSRIMH 147
           ++   C   G  DEG ++F  M                        +++  +   S +  
Sbjct: 434 AVLTACSHAGLVDEGWRYFNSMERDFGIAPGLEHYAAVADLLGRAGRLEEAYDFISNMRG 493

Query: 148 AGSTENVWLTLLSACRVHRNVELAEKVAD------------MILM--------------- 180
              T +VW  LL+ACR H++VELAEKV D             +LM               
Sbjct: 494 VQPTGSVWSILLAACRAHKSVELAEKVLDKLLSVDSENMGAYVLMSNIYSAAQRWKDAAR 553

Query: 181 ------------------IEPNN----------TGAYVILINEALKDLLERMEQEGYVPD 212
                             IE  N          +  Y   IN+AL  LLE+ME+EGYV D
Sbjct: 554 LRIHMRKKGLKKTPACSWIEVGNQVHTFMAGDKSHPYYDKINKALDVLLEQMEKEGYVID 613

Query: 213 TKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSK 272
           T +VL DV+EE K+ +L+ H ERLA+ +GIIST  GTTIRVIKN+          K ++K
Sbjct: 614 TNQVLHDVDEELKRELLHNHSERLAIAYGIISTTAGTTIRVIKNIRVCADCHTAIKFITK 673

Query: 273 IVHREMIVRDNRRFCRHF 290
           IV RE+ VRDN RF  HF
Sbjct: 674 IVGREITVRDNSRF-HHF 690

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	296
TAIR|locus:2154389	646	LPA66 "LOW PSII ACCUMULATION 6	0.327	0.150	0.428	8.1e-29
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.310	0.103	0.532	5.9e-28
TAIR|locus:2078653	825	AT3G02010 [Arabidopsis thalian	0.314	0.112	0.489	2.3e-27
TAIR|locus:2151501	697	AT5G46460 [Arabidopsis thalian	0.327	0.139	0.438	2.8e-26
TAIR|locus:2077878	685	AT3G08820 "AT3G08820" [Arabido	0.304	0.131	0.488	1.2e-25
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.398	0.119	0.413	1.5e-25
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.314	0.107	0.446	5e-25
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.314	0.113	0.478	6.6e-25
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.314	0.119	0.457	8.8e-25
TAIR|locus:2115130	691	AT4G37170 "AT4G37170" [Arabido	0.317	0.136	0.489	6.6e-24

TAIR|locus:2154389 LPA66 "LOW PSII ACCUMULATION 66" [Arabidopsis thaliana (taxid:3702)]

 Score = 219 (82.2 bits), Expect = 8.1e-29, Sum P(3) = 8.1e-29
 Identities = 42/98 (42%), Positives = 64/98 (65%)

Query:   193 INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIR 252
             IN  L ++ +++   GY P T +VLL++EEE K+N+L+YH E++A  FG+IST  G  IR
Sbjct:   539 INSMLVEISDKLRLAGYRPITTQVLLNLEEEDKENVLHYHSEKIATAFGLISTSPGKPIR 598

Query:   253 VIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
             ++KNL          K++SK+  R++ VRD +RF  HF
Sbjct:   599 IVKNLRICEDCHSSIKLISKVYKRKITVRDRKRF-HHF 635

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0007020 "microtubule nucleation" evidence=RCA

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 225 (84.3 bits), Expect = 5.9e-28, Sum P(3) = 5.9e-28
 Identities = 49/92 (53%), Positives = 63/92 (68%)

Query:   197 LKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKN 256
             L+ L ERM +EGYVPDT  VL +VEE++K+ +L  H E+LA+ FGI++T  GT IRV KN
Sbjct:   787 LETLWERMRKEGYVPDTSCVLHNVEEDEKEILLCGHSEKLAIAFGILNTSPGTIIRVAKN 846

Query:   257 LPSLRGLRHGNKVVSKIVHREMIVRDNRRFCR 288
             L          K +SKIV RE+I+RD RRF R
Sbjct:   847 LRVCNDCHLATKFISKIVDREIILRDVRRFHR 878

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2078653 AT3G02010 [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 2.3e-27, Sum P(3) = 2.3e-27
 Identities = 46/94 (48%), Positives = 61/94 (64%)

Query:   197 LKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKN 256
             + +L   +E+EGY PDT  V+ DV+E+ K   L YH ERLA+ F +ISTP+G  I V+KN
Sbjct:   722 INELTAEIEREGYKPDTSSVVQDVDEQMKIESLKYHSERLAVAFALISTPEGCPIVVMKN 781

Query:   257 LPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
             L + R      K++SKIV RE+ VRD  RF  HF
Sbjct:   782 LRACRDCHAAIKLISKIVKREITVRDTSRF-HHF 814

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151501 AT5G46460 [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 2.8e-26, Sum P(3) = 2.8e-26
 Identities = 43/98 (43%), Positives = 66/98 (67%)

Query:   193 INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIR 252
             I E L+ L E++++ GY PD +  L DVE+EQK+ +L+YH ERLA+ FG+I+T +G+ + 
Sbjct:   590 IYEKLEFLREKLKELGYAPDYRSALHDVEDEQKEEMLWYHSERLAIAFGLINTVEGSAVT 649

Query:   253 VIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
             V+KNL          K++S +V RE+++RD  RF  HF
Sbjct:   650 VMKNLRVCEDCHTVIKLISGVVGREIVLRDPIRF-HHF 686

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 215 (80.7 bits), Expect = 1.2e-25, Sum P(3) = 1.2e-25
 Identities = 44/90 (48%), Positives = 58/90 (64%)

Query:   197 LKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKN 256
             L+DL   M   G+VP T+ V  DVEEE+K+ +L YH E+LA+  G+IST  G  IRV+KN
Sbjct:   582 LEDLGNEMRLMGFVPTTEFVFFDVEEEEKERVLGYHSEKLAVALGLISTDHGQVIRVVKN 641

Query:   257 LPSLRGLRHGNKVVSKIVHREMIVRDNRRF 286
             L          K++SKI  RE++VRDN RF
Sbjct:   642 LRVCGDCHEVMKLISKITRREIVVRDNNRF 671

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 248 (92.4 bits), Expect = 1.5e-25, Sum P(2) = 1.5e-25
 Identities = 50/121 (41%), Positives = 79/121 (65%)

Query:   168 VELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKN 227
             +E+  K+   I +++ + +     LI   +KD++  ++QEGYVP+T   L+DVEEE+K+ 
Sbjct:   861 IEVKNKIH--IFVVD-DRSNRQTELIYRKVKDMIRDIKQEGYVPETDFTLVDVEEEEKER 917

Query:   228 ILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFC 287
              LYYH E+LA+ FG++STP  T IRVIKNL       +  K ++K+ +RE+++RD  RF 
Sbjct:   918 ALYYHSEKLAVAFGLLSTPPSTPIRVIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFH 977

Query:   288 R 288
             R
Sbjct:   978 R 978

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 5.0e-25, Sum P(3) = 5.0e-25
 Identities = 42/94 (44%), Positives = 62/94 (65%)

Query:   197 LKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKN 256
             L+DL  R++  GY PDT  VL D+++E K+ +L  H ERLA+ FG+I+TP G+ + +IKN
Sbjct:   764 LEDLSTRLKDLGYEPDTSYVLQDIDDEHKEAVLAQHSERLAIAFGLIATPKGSPLLIIKN 823

Query:   257 LPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
             L          K+++KI  RE++VRD+ RF  HF
Sbjct:   824 LRVCGDCHLVIKLIAKIEEREIVVRDSNRF-HHF 856

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2118964 EMB2758 "embryo defective 2758" [Arabidopsis thaliana (taxid:3702)]

 Score = 210 (79.0 bits), Expect = 6.6e-25, Sum P(3) = 6.6e-25
 Identities = 45/94 (47%), Positives = 61/94 (64%)

Query:   197 LKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKN 256
             L  L  +++  GYVPD + VL DVE+++K++IL  H ERLA+ F +I+TP  TTIR+ KN
Sbjct:   720 LTALQAKLKMIGYVPDHRFVLQDVEDDEKEHILMSHSERLAIAFALIATPAKTTIRIFKN 779

Query:   257 LPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
             L          K +SKI  RE+IVRD+ RF  HF
Sbjct:   780 LRVCGDCHSVTKFISKITEREIIVRDSNRF-HHF 812

GO:0005739 "mitochondrion" evidence=ISM

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

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

 Score = 195 (73.7 bits), Expect = 8.8e-25, Sum P(3) = 8.8e-25
 Identities = 43/94 (45%), Positives = 60/94 (63%)

Query:   197 LKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKN 256
             L++L  RM++ GYV  T  VL DVEEE+K+ ++ YH ERLA+ +GI+    G  IRVIKN
Sbjct:   678 LEELDLRMKKAGYVSKTSVVLHDVEEEEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKN 737

Query:   257 LPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
             L       +  K +++I  R +I+RDN RF  HF
Sbjct:   738 LRVCEDCHNAIKYMARITGRLIILRDNNRF-HHF 770

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2115130 AT4G37170 "AT4G37170" [Arabidopsis thaliana (taxid:3702)]

 Score = 218 (81.8 bits), Expect = 6.6e-24, Sum P(2) = 6.6e-24
 Identities = 46/94 (48%), Positives = 63/94 (67%)

Query:   193 INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIR 252
             I E L++L ++M++EGYVP T  VL DVE+EQK+  L YH E+LA+ F I+ST +GT I+
Sbjct:   584 IVEFLRELRKKMKEEGYVPATSLVLHDVEDEQKEENLVYHSEKLAVAFAILSTEEGTAIK 643

Query:   253 VIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRF 286
             V KNL S        K +S I  R++ VRD+ RF
Sbjct:   644 VFKNLRSCVDCHGAIKFISNITKRKITVRDSTRF 677

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: GSVIVG00023962001 SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (628 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	296
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-26
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-18
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	1e-08

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

 Score =  108 bits (271), Expect = 2e-26
 Identities = 59/231 (25%), Positives = 97/231 (41%), Gaps = 72/231 (31%)

Query: 115 GQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKV 174
           G+ G  DE               R APF        T N+W  LL+ACR+H+N+EL    
Sbjct: 473 GREGLLDEAYAMI----------RRAPFK------PTVNMWAALLTACRIHKNLELGRLA 516

Query: 175 ADMILMIEPNNTGAYVILIN---------------EALK--------------------- 198
           A+ +  + P     YV+L+N               E LK                     
Sbjct: 517 AEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHS 576

Query: 199 -------------------DLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALV 239
                              +L++ + + GYV +  E+L DV+E+++K    YH E+LA+ 
Sbjct: 577 FFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIA 636

Query: 240 FGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
           FG+I+T + T +++ ++    +      K ++ +  RE++VRD  RF  HF
Sbjct: 637 FGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRF-HHF 686

Length = 697

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

 Score = 83.4 bits (206), Expect = 7e-18
 Identities = 78/273 (28%), Positives = 105/273 (38%), Gaps = 86/273 (31%)

Query: 80  SRSGSVRK---VFEIMAVRDFLEYCDYAISRNSITAGC-----GQNGPFDEGLKFFGQML 131
           SRSG V +    F  M          Y+I+ N     C     G+ G   E   F  +M 
Sbjct: 600 SRSGMVTQGLEYFHSMEE-------KYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM- 651

Query: 132 MAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI 191
              I    A             VW  LL+ACR+HR+VEL E  A  I  ++PN+ G Y++
Sbjct: 652 --PITPDPA-------------VWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYIL 696

Query: 192 LIN--------EALKDLLERMEQEG------------------------YVPDTKE---V 216
           L N        + +  + + M + G                          P  KE   V
Sbjct: 697 LCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTV 756

Query: 217 L-------------------LDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNL 257
           L                   +D  E  K +I   H ERLA+ FG+I+T  G  I V KNL
Sbjct: 757 LEGFYEKMKASGLAGSESSSMDEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNL 816

Query: 258 PSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHF 290
                  +  K +SKIV RE+ VRD  +F  HF
Sbjct: 817 YMCENCHNTVKFISKIVRREISVRDTEQF-HHF 848

Length = 857

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

 Score = 51.6 bits (124), Expect = 1e-08
 Identities = 38/103 (36%), Positives = 59/103 (57%), Gaps = 14/103 (13%)

Query: 195 EALKDLLERMEQEGYVPDTKEVLLDVE-EEQKKNI-----LYYHGERLALVFGIISTPDG 248
            + ++L +R++ EG VP+TKE+  DV+ EE + N      L  H E+ AL +G+++T   
Sbjct: 20  TSKEELFQRIKVEGVVPETKEIGHDVDAEEFRDNGIKGKLLASHAEKQALAYGLLTT--- 76

Query: 249 TTIRVIKNLPSLRGLRHG-NKVVSKIVHREMIVRDNRRFCRHF 290
              R+IK L  + G  H   + ++K   RE+IVRD  RF  HF
Sbjct: 77  ---RIIKVLKRMCGDCHEFFRYIAKYTGREIIVRDPSRF-HHF 115

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	296
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
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
PF13041	50	PPR_2: PPR repeat family	99.6
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.17
PF12854	34	PPR_1: PPR repeat	99.16
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.12
PF13041	50	PPR_2: PPR repeat family	99.1
PF12854	34	PPR_1: PPR repeat	98.95
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	98.78
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.69
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.67
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.65
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	98.63
KOG4422	625	consensus Uncharacterized conserved protein [Funct	98.49
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.31
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.17
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.14
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	97.38
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	96.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	96.86
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	96.79
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.77
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	96.69
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	96.68
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	96.58
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	96.49
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	96.41
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.4
PRK15359	144	type III secretion system chaperone protein SscB;	96.26
KOG1126	638	consensus DNA-binding cell division cycle control	96.22
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.21
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.17
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	96.1
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	96.04
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	95.97
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	95.8
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	95.52
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	95.42
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.4
TIGR02552	135	LcrH_SycD type III secretion low calcium response	95.37
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	95.33
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	95.29
PRK15359	144	type III secretion system chaperone protein SscB;	95.22
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	95.11
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.02
PRK10370	198	formate-dependent nitrite reductase complex subuni	94.83
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	94.63
PF13428	44	TPR_14: Tetratricopeptide repeat	94.39
PRK11189	296	lipoprotein NlpI; Provisional	94.29
PRK12370	553	invasion protein regulator; Provisional	94.26
KOG1126	638	consensus DNA-binding cell division cycle control	94.18
PRK14574	822	hmsH outer membrane protein; Provisional	94.0
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	93.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	93.79
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	93.67
PF13371	73	TPR_9: Tetratricopeptide repeat	93.49
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	93.37
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	93.2
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	93.18
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	93.11
PRK12370	553	invasion protein regulator; Provisional	93.01
TIGR02552	135	LcrH_SycD type III secretion low calcium response	92.89
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	92.72
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	92.5
PRK11189	296	lipoprotein NlpI; Provisional	92.42
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	92.31
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	92.3
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	92.24
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	92.15
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	92.09
PRK14574	822	hmsH outer membrane protein; Provisional	91.92
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	91.83
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	91.33
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	91.11
PF03704	146	BTAD: Bacterial transcriptional activator domain;	90.87
PRK10370	198	formate-dependent nitrite reductase complex subuni	90.86
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	90.51
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	90.32
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	90.28
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	89.48
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	89.06
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	88.76
KOG2003	840	consensus TPR repeat-containing protein [General f	88.57
PF03704	146	BTAD: Bacterial transcriptional activator domain;	88.47
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	88.04
PRK10803	263	tol-pal system protein YbgF; Provisional	87.98
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	87.82
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	87.73
KOG1128	777	consensus Uncharacterized conserved protein, conta	87.63
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	87.41
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	87.36
COG4783	484	Putative Zn-dependent protease, contains TPR repea	87.2
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	87.13
KOG3941	406	consensus Intermediate in Toll signal transduction	86.59
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	86.11
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	86.09
PF13371	73	TPR_9: Tetratricopeptide repeat	86.07
KOG3941	406	consensus Intermediate in Toll signal transduction	85.86
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	85.54
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	85.42
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	84.97
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	84.73
KOG1129	478	consensus TPR repeat-containing protein [General f	84.37
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	84.34
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	84.28
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	84.0
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	83.93
KOG3616	1636	consensus Selective LIM binding factor [Transcript	83.66
PF12688	120	TPR_5: Tetratrico peptide repeat	83.28
COG4783	484	Putative Zn-dependent protease, contains TPR repea	82.45
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	82.32
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	82.11
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	82.1
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	81.98
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	81.47
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	81.12
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	80.87
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	80.4

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

Probab=100.00  E-value=1.5e-45  Score=364.03  Aligned_cols=282  Identities=27%  Similarity=0.443  Sum_probs=223.9

Q ss_pred             ccCCCCeeehHHHHHhh---cccHHHHHHHHHHhHhcccCCCc--cccHHHHHhcCCCccCCceehhh----------hh
Q 044945            7 ILERNENVELSNGLAGC---NEFMDKANGITDRFEERAVSIGH--YADLDGISDQLPSSSGGRQVDIH----------FD   71 (296)
Q Consensus         7 ~~~~pd~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~~g~--~~~~~~~~~~m~~~~~~~~~~~~----------~~   71 (296)
                      .++.||++|||+++..+   |+ .++|.++|++|.+.|+.++.  +......+...+.++.+.++|..          ..
T Consensus       284 ~m~~~~~vt~n~li~~y~~~g~-~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~  362 (697)
T PLN03081        284 GMPEKTTVAWNSMLAGYALHGY-SEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVA  362 (697)
T ss_pred             hCCCCChhHHHHHHHHHHhCCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeee
Confidence            35678999999977766   65 99999999999988876443  23334445555555555555544          34


Q ss_pred             cccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           72 GGVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        72 ~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      ++.++++|+|+|++   .++|++|.++|+       +|||+||.||+++|+.++|+++|++|.+.|++||.+||+++|.+
T Consensus       363 ~~~Li~~y~k~G~~~~A~~vf~~m~~~d~-------~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  435 (697)
T PLN03081        363 NTALVDLYSKWGRMEDARNVFDRMPRKNL-------ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA  435 (697)
T ss_pred             hHHHHHHHHHCCCHHHHHHHHHhCCCCCe-------eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            57788999999999   999999988877       99999999999999999999999999999999999999999987


Q ss_pred             -------------------------------------------------------CCCHHHHHHHHHHHHhcCCHHHHHH
Q 044945          149 -------------------------------------------------------GSTENVWLTLLSACRVHRNVELAEK  173 (296)
Q Consensus       149 -------------------------------------------------------~p~~~~~~~Li~~~~~~g~~~~A~~  173 (296)
                                                                             .||..+|++||++|+++|+++.|+.
T Consensus       436 ~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~  515 (697)
T PLN03081        436 CRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRL  515 (697)
T ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHH
Confidence                                                                   4555555555555555555555555


Q ss_pred             HHHHHHhcCCCCcchhHHh--------hHHHHHHHHHH------------------------------------------
Q 044945          174 VADMILMIEPNNTGAYVIL--------INEALKDLLER------------------------------------------  203 (296)
Q Consensus       174 ~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~------------------------------------------  203 (296)
                      +++++.+.+|.+..+|+.|        ++++|.+++++                                          
T Consensus       516 ~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~  595 (697)
T PLN03081        516 AAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLD  595 (697)
T ss_pred             HHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHH
Confidence            5555555556666677776        34444444444                                          


Q ss_pred             -----HHhCCCcCCCccceeecchhhhhhhhhhhhHHHHHHHHhhcCCCCCeEEEEecccCccchhhHHHHHhhhhcceE
Q 044945          204 -----MEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREM  278 (296)
Q Consensus       204 -----M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~~~~k~g~~~~A~~~f~~m~~r~~  278 (296)
                           |++.|+.||+...+++++..+++..+..|+++++++||++..+.+++++|++++..|||||.|.|+++.+..|.|
T Consensus       596 ~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i  675 (697)
T PLN03081        596 ELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREI  675 (697)
T ss_pred             HHHHHHHHcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEE
Confidence                 455555555555556666677778889999999999999999999999999999999999999999999999999


Q ss_pred             EEecCCccchhccccccC
Q 044945          279 IVRDNRRFCRHFLLFRAC  296 (296)
Q Consensus       279 ~~~~~~~~~~~~~~~~~c  296 (296)
                      |+||.+|||||-++-++|
T Consensus       676 ~~rd~~rfh~f~~g~csc  693 (697)
T PLN03081        676 VVRDASRFHHFKLGKCSC  693 (697)
T ss_pred             EEecCCccccCCCCcccc
Confidence            999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.6e-42  Score=349.59  Aligned_cols=287  Identities=21%  Similarity=0.233  Sum_probs=218.8

Q ss_pred             ccCCCCeeehHHHHHhh---cccHHHHHHHHHHhHhcccCCCcc--ccHHHHHhcCCCccCCceehhh----------hh
Q 044945            7 ILERNENVELSNGLAGC---NEFMDKANGITDRFEERAVSIGHY--ADLDGISDQLPSSSGGRQVDIH----------FD   71 (296)
Q Consensus         7 ~~~~pd~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~~g~~--~~~~~~~~~m~~~~~~~~~~~~----------~~   71 (296)
                      .|+.||++|||+++..+   |+ .++|.++|++|.+.|+.++..  ..+...+...+..+.+.++|..          ..
T Consensus       348 ~m~~~d~~s~n~li~~~~~~g~-~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~  426 (857)
T PLN03077        348 RMETKDAVSWTAMISGYEKNGL-PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVV  426 (857)
T ss_pred             hCCCCCeeeHHHHHHHHHhCCC-HHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHH
Confidence            35678999999877766   55 899999999999888753321  2222333333333333333332          23


Q ss_pred             cccccccccccCCH---HHHHhhcccCCcccC------------------------------------------------
Q 044945           72 GGVDGLRPSRSGSV---RKVFEIMAVRDFLEY------------------------------------------------  100 (296)
Q Consensus        72 ~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~------------------------------------------------  100 (296)
                      ++.++++|+|+|++   .++|++|.++|.++|                                                
T Consensus       427 ~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~  506 (857)
T PLN03077        427 ANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALM  506 (857)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHH
Confidence            45556666666666   666666666655443                                                


Q ss_pred             --------------------------------------------CCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCc
Q 044945          101 --------------------------------------------CDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIK  136 (296)
Q Consensus       101 --------------------------------------------~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~  136 (296)
                                                                  .||.++||+||.+|+++|+.++|+++|++|.+.|++
T Consensus       507 ~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~  586 (857)
T PLN03077        507 CGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN  586 (857)
T ss_pred             HhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Confidence                                                        345688999999999999999999999999999999


Q ss_pred             cChhhhhhhhcc-----------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh-
Q 044945          137 ARHAPFSRIMHA-----------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL-  192 (296)
Q Consensus       137 pd~~ty~~li~~-----------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l-  192 (296)
                      ||.+||+++|.+                       .||..+|++++++|++.|++++|++++++|.  -.||..+|++| 
T Consensus       587 Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~--~~pd~~~~~aLl  664 (857)
T PLN03077        587 PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP--ITPDPAVWGALL  664 (857)
T ss_pred             CCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC--CCCCHHHHHHHH
Confidence            999999999988                       6888888888888888888888888888873  12355555554 


Q ss_pred             -----------------------------------------hHHHHHHHHHHHHhCCCcCCCcccee-------------
Q 044945          193 -----------------------------------------INEALKDLLERMEQEGYVPDTKEVLL-------------  218 (296)
Q Consensus       193 -----------------------------------------~~~~a~~l~~~M~~~g~~p~~~t~~~-------------  218 (296)
                                                               +|++|.++.++|++.|+.+++...++             
T Consensus       665 ~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d  744 (857)
T PLN03077        665 NACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDD  744 (857)
T ss_pred             HHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCC
Confidence                                                     56777777777777777666443322             


Q ss_pred             ---------------------------------ecchhhhhhhhhhhhHHHHHHHHhhcCCCCCeEEEEecccCccchhh
Q 044945          219 ---------------------------------DVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRH  265 (296)
Q Consensus       219 ---------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~~~~k~g~~~~  265 (296)
                                                       +....+++..+..|+|+++++||+++++.+++++|++++..|||||.
T Consensus       745 ~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~~~~~~~k~~~~~~hse~la~a~~l~~~~~~~~i~i~knlr~c~dch~  824 (857)
T PLN03077        745 ESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHN  824 (857)
T ss_pred             CCCcchHHHHHHHHHHHHHHHhCCcCCCcchhccccHHHHHHHHHhccHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHH
Confidence                                             12334556678889999999999999999999999999999999999


Q ss_pred             HHHHHhhhhcceEEEecCCccchhccccccC
Q 044945          266 GNKVVSKIVHREMIVRDNRRFCRHFLLFRAC  296 (296)
Q Consensus       266 A~~~f~~m~~r~~~~~~~~~~~~~~~~~~~c  296 (296)
                      |.|+++.+..|.||+||.+|||||-++.++|
T Consensus       825 ~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc  855 (857)
T PLN03077        825 TVKFISKIVRREISVRDTEQFHHFKDGECSC  855 (857)
T ss_pred             HHHHHHHHhCeEEEEecCCcceeCCCCcccC
Confidence            9999999999999999999999999999999

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

Probab=100.00  E-value=1.9e-37  Score=306.37  Aligned_cols=271  Identities=16%  Similarity=0.111  Sum_probs=214.5

Q ss_pred             ccCCCCeeehHHHHHhh---cccHHHHHHHHHHhHhcccCCCc--cccHHHHHhcCCCccCCceehhh----------hh
Q 044945            7 ILERNENVELSNGLAGC---NEFMDKANGITDRFEERAVSIGH--YADLDGISDQLPSSSGGRQVDIH----------FD   71 (296)
Q Consensus         7 ~~~~pd~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~~g~--~~~~~~~~~~m~~~~~~~~~~~~----------~~   71 (296)
                      .+++||++|||+++..+   |+ +++|.++|++|.+.|+.++.  +......+........+.++|..          ..
T Consensus       183 ~m~~~~~~t~n~li~~~~~~g~-~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~  261 (697)
T PLN03081        183 EMPERNLASWGTIIGGLVDAGN-YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFV  261 (697)
T ss_pred             cCCCCCeeeHHHHHHHHHHCcC-HHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCcccee
Confidence            35679999999987666   66 99999999999998775443  23344455556655556666554          24


Q ss_pred             cccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           72 GGVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        72 ~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      ++.++++|+|+|++   .++|++|+++|.       ++||+||.+|+++|+.++|+++|++|.+.|+.||.+||++++.+
T Consensus       262 ~n~Li~~y~k~g~~~~A~~vf~~m~~~~~-------vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a  334 (697)
T PLN03081        262 SCALIDMYSKCGDIEDARCVFDGMPEKTT-------VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI  334 (697)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCCCCCh-------hHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            57789999999999   999999998888       99999999999999999999999999999999999999999998


Q ss_pred             ----------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHH
Q 044945          149 ----------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALK  198 (296)
Q Consensus       149 ----------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~  198 (296)
                                            .||..+||+||++|+++|++++|+++|++|.+   +|.++||+|        ..++|.
T Consensus       335 ~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~---~d~~t~n~lI~~y~~~G~~~~A~  411 (697)
T PLN03081        335 FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR---KNLISWNALIAGYGNHGRGTKAV  411 (697)
T ss_pred             HHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC---CCeeeHHHHHHHHHHcCCHHHHH
Confidence                                  89999999999999999999999999999975   599999999        689999


Q ss_pred             HHHHHHHhCCCcCCCccceeecchhhhhhhhhhhhHHHHH---HHHhhcCCCCCeEEEEecccCccchhhHHHHHhhhhc
Q 044945          199 DLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLAL---VFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVH  275 (296)
Q Consensus       199 ~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ii~~~~k~g~~~~A~~~f~~m~~  275 (296)
                      ++|++|.+.|+.||..||...+.++...+.+....+.+..   ..+. .+...+...+|+.|+++|++++|.++|++|+.
T Consensus       412 ~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~-~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~  490 (697)
T PLN03081        412 EMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRI-KPRAMHYACMIELLGREGLLDEAYAMIRRAPF  490 (697)
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC-CCCccchHhHHHHHHhcCCHHHHHHHHHHCCC
Confidence            9999999999999999998777665554433322221111   1222 23323333459999999999999999998863


Q ss_pred             ceEEEecCCccchhcccc
Q 044945          276 REMIVRDNRRFCRHFLLF  293 (296)
Q Consensus       276 r~~~~~~~~~~~~~~~~~  293 (296)
                          .|+...|..+++.+
T Consensus       491 ----~p~~~~~~~Ll~a~  504 (697)
T PLN03081        491 ----KPTVNMWAALLTAC  504 (697)
T ss_pred             ----CCCHHHHHHHHHHH
Confidence                23444454444433

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.8e-36  Score=303.41  Aligned_cols=259  Identities=19%  Similarity=0.187  Sum_probs=211.6

Q ss_pred             ccCCCCeeehHHHHHhh---cccHHHHHHHHHHhHhcccCCCc--cccHHHHHhcCCCccCCceehhh----------hh
Q 044945            7 ILERNENVELSNGLAGC---NEFMDKANGITDRFEERAVSIGH--YADLDGISDQLPSSSGGRQVDIH----------FD   71 (296)
Q Consensus         7 ~~~~pd~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~~g~--~~~~~~~~~~m~~~~~~~~~~~~----------~~   71 (296)
                      +++.||+++||+++..+   |+ +++|.++|++|...|+.++.  +..+...|...+....+.++|..          ..
T Consensus       146 ~m~~~d~~~~n~li~~~~~~g~-~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~  224 (857)
T PLN03077        146 KMPERDLFSWNVLVGGYAKAGY-FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDV  224 (857)
T ss_pred             cCCCCCeeEHHHHHHHHHhCCC-HHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccch
Confidence            46789999999987766   65 99999999999998876543  34445556666666666777654          34


Q ss_pred             cccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           72 GGVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        72 ~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      ++.++++|+|+|++   .++|++|+++|.       +|||+||.+|++.|+.++|+++|++|.+.|+.||.+||+++|.+
T Consensus       225 ~n~Li~~y~k~g~~~~A~~lf~~m~~~d~-------~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a  297 (857)
T PLN03077        225 VNALITMYVKCGDVVSARLVFDRMPRRDC-------ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISA  297 (857)
T ss_pred             HhHHHHHHhcCCCHHHHHHHHhcCCCCCc-------chhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Confidence            67889999999999   999999998888       99999999999999999999999999999999999999999987


Q ss_pred             ----------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHH
Q 044945          149 ----------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALK  198 (296)
Q Consensus       149 ----------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~  198 (296)
                                            .||..+||+||++|++.|++++|.++|++|.+   +|.++|+++        ..++|.
T Consensus       298 ~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~---~d~~s~n~li~~~~~~g~~~~A~  374 (857)
T PLN03077        298 CELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET---KDAVSWTAMISGYEKNGLPDKAL  374 (857)
T ss_pred             HHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCeeeHHHHHHHHHhCCCHHHHH
Confidence                                  79999999999999999999999999999964   589999999        689999


Q ss_pred             HHHHHHHhCCCcCCCccceeecchhhhhhhhh----hhhHHHHHHHHhh-cCCCCCeEEEEecccCccchhhHHHHHhhh
Q 044945          199 DLLERMEQEGYVPDTKEVLLDVEEEQKKNILY----YHGERLALVFGII-STPDGTTIRVIKNLPSLRGLRHGNKVVSKI  273 (296)
Q Consensus       199 ~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~----~~~~~~~~~~~~~-~~~~~~~~~ii~~~~k~g~~~~A~~~f~~m  273 (296)
                      ++|++|.+.|+.||..|+...+..+...+.+.    .|..  ....|.. .....+.+  |++|+|+|++++|.++|++|
T Consensus       375 ~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~--~~~~g~~~~~~~~n~L--i~~y~k~g~~~~A~~vf~~m  450 (857)
T PLN03077        375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHEL--AERKGLISYVVVANAL--IEMYSKCKCIDKALEVFHNI  450 (857)
T ss_pred             HHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHH--HHHhCCCcchHHHHHH--HHHHHHcCCHHHHHHHHHhC
Confidence            99999999999999999977665544333222    2222  1122221 11122334  89999999999999999999


Q ss_pred             hcceEEE
Q 044945          274 VHREMIV  280 (296)
Q Consensus       274 ~~r~~~~  280 (296)
                      .+++++.
T Consensus       451 ~~~d~vs  457 (857)
T PLN03077        451 PEKDVIS  457 (857)
T ss_pred             CCCCeee
Confidence            9887653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.9e-36  Score=305.54  Aligned_cols=279  Identities=14%  Similarity=0.142  Sum_probs=209.6

Q ss_pred             cCCCCeeehHHHHHhh---cccHHHHHHHHHHhHhcccC---------------CCccccHHHHHhcCCCccCCceehhh
Q 044945            8 LERNENVELSNGLAGC---NEFMDKANGITDRFEERAVS---------------IGHYADLDGISDQLPSSSGGRQVDIH   69 (296)
Q Consensus         8 ~~~pd~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~---------------~g~~~~~~~~~~~m~~~~~~~~~~~~   69 (296)
                      ++.||.+|||+++..|   |+ +++|.++|++|.+.|+.               .|.+..|..++..|...+..+   +.
T Consensus       432 M~~pd~~Tyn~LL~a~~k~g~-~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~P---dv  507 (1060)
T PLN03218        432 IRNPTLSTFNMLMSVCASSQD-IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEA---NV  507 (1060)
T ss_pred             cCCCCHHHHHHHHHHHHhCcC-HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCC---CH
Confidence            4458999999877776   55 89999999999988875               556677777888877655544   45


Q ss_pred             hhcccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHH--cCCccChhhhhh
Q 044945           70 FDGGVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLM--AKIKARHAPFSR  144 (296)
Q Consensus        70 ~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~--~g~~pd~~ty~~  144 (296)
                      ++++.+|++|++.|++   .++|++|.+.++   .||.+|||+||.+|++.|++++|+++|++|.+  .|+.||.+||++
T Consensus       508 vTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv---~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTyna  584 (1060)
T PLN03218        508 HTFGALIDGCARAGQVAKAFGAYGIMRSKNV---KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGA  584 (1060)
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHH
Confidence            6788888888888888   888888888888   88888888888888888888888888888876  678888888888


Q ss_pred             hhcc----------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCcchhHHh--------h
Q 044945          145 IMHA----------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIE-PNNTGAYVIL--------I  193 (296)
Q Consensus       145 li~~----------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~y~~l--------~  193 (296)
                      ||.+                      .|+..+||+||++|++.|++++|.++|++|.+.+ .||..+|+.+        .
T Consensus       585 LI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~  664 (1060)
T PLN03218        585 LMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD  664 (1060)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            8877                      7788888888888888888888888888888776 4688888888        5


Q ss_pred             HHHHHHHHHHHHhCCCcCCCccceeecchhhhhhhhhhhhHHHHHHHHh-hcCCCCCeEEEEecccCccchhhHHHHHhh
Q 044945          194 NEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGI-ISTPDGTTIRVIKNLPSLRGLRHGNKVVSK  272 (296)
Q Consensus       194 ~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ii~~~~k~g~~~~A~~~f~~  272 (296)
                      .++|.++|++|.+.|+.||..++...+..+.+.+.+......+...... ..+...+...+|++|++.|++++|.++|++
T Consensus       665 ~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~e  744 (1060)
T PLN03218        665 LDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSE  744 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            7888888888888888888888877666655544333222211111110 122222222348888888888888888888


Q ss_pred             hhcceEEEecCCccchhccccc
Q 044945          273 IVHREMIVRDNRRFCRHFLLFR  294 (296)
Q Consensus       273 m~~r~~~~~~~~~~~~~~~~~~  294 (296)
                      |.+.|+. ||..+|...++.+.
T Consensus       745 M~~~Gi~-Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        745 MKRLGLC-PNTITYSILLVASE  765 (1060)
T ss_pred             HHHcCCC-CCHHHHHHHHHHHH
Confidence            8877765 46677776666554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.5e-35  Score=297.53  Aligned_cols=278  Identities=13%  Similarity=0.101  Sum_probs=213.7

Q ss_pred             CCCeeehHHHHHhh---cccHHHHHHHHHHhHhcccC----------------CCccccHHHHHhcCCC-----------
Q 044945           10 RNENVELSNGLAGC---NEFMDKANGITDRFEERAVS----------------IGHYADLDGISDQLPS-----------   59 (296)
Q Consensus        10 ~pd~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~----------------~g~~~~~~~~~~~m~~-----------   59 (296)
                      .+|.-.|..+|.++   |+ +++|.++|++|.++|+.                .|...+|..++..|..           
T Consensus       367 ~~~~~~~~~~y~~l~r~G~-l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGR-IKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcC-HHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34566677766666   66 88888888888888753                2334444444444433           


Q ss_pred             --------------------ccCCceehhhhhcccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhc
Q 044945           60 --------------------SSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQ  116 (296)
Q Consensus        60 --------------------~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~  116 (296)
                                          .+..+   +.+.++.+|++|+|+|++   .++|++|.+.++   .||.+|||+||.+|++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~p---D~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv---~PdvvTynaLI~gy~k  519 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKA---DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGV---EANVHTFGALIDGCAR  519 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHH
Confidence                                22211   334677888999999999   889999999988   9999999999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCccChhhhhhhhcc------------------------CCCHHHHHHHHHHHHhcCCHHHHH
Q 044945          117 NGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA------------------------GSTENVWLTLLSACRVHRNVELAE  172 (296)
Q Consensus       117 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~------------------------~p~~~~~~~Li~~~~~~g~~~~A~  172 (296)
                      .|++++|+++|++|.+.|+.||.+||++||.+                        .||.++||+||++|++.|++++|.
T Consensus       520 ~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~  599 (1060)
T PLN03218        520 AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK  599 (1060)
T ss_pred             CcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999999999999999999988                        689999999999999999999999


Q ss_pred             HHHHHHHhcC-CCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecchhhhhhhhhhhhHHHHHHHHh-
Q 044945          173 KVADMILMIE-PNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGI-  242 (296)
Q Consensus       173 ~~~~~m~~~~-~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~-  242 (296)
                      ++|++|.+.+ +++..+|+.+        ..++|.++|++|.+.|+.||..||...+..+.+.+.+....+.+...... 
T Consensus       600 elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G  679 (1060)
T PLN03218        600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG  679 (1060)
T ss_pred             HHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            9999999887 4688999999        68999999999999999999999977776655544333222211111111 


Q ss_pred             hcCCCCCeEEEEecccCccchhhHHHHHhhhhcceEEEecCCccchhcccccc
Q 044945          243 ISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFLLFRA  295 (296)
Q Consensus       243 ~~~~~~~~~~ii~~~~k~g~~~~A~~~f~~m~~r~~~~~~~~~~~~~~~~~~~  295 (296)
                      ..+...+...+|++|+++|++++|.++|++|.+.|+. ||...|+.++.+|.+
T Consensus       680 ~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~-PdvvtyN~LI~gy~k  731 (1060)
T PLN03218        680 IKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLR-PTVSTMNALITALCE  731 (1060)
T ss_pred             CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHH
Confidence            1122222223499999999999999999999988855 688888888887754

>PF13041 PPR_2: PPR repeat family

Probab=99.60  E-value=8.9e-16  Score=99.68  Aligned_cols=46  Identities=24%  Similarity=0.465  Sum_probs=40.6

Q ss_pred             CceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhc
Q 044945          102 DYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMH  147 (296)
Q Consensus       102 p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  147 (296)
                      ||+++||+||++|++.|++++|+++|++|.+.|++||..||++||+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~   46 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILIN   46 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            8889999999999999999999999999999999766655555554

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.17  E-value=5.3e-11  Score=90.89  Aligned_cols=85  Identities=52%  Similarity=0.798  Sum_probs=72.9

Q ss_pred             HHHHHHHhCCCcCCCccceeecchhh--------hhhhhhhhhHHHHHHHHhhcCCCCCeEEEEecc-cCccchhhHHHH
Q 044945          199 DLLERMEQEGYVPDTKEVLLDVEEEQ--------KKNILYYHGERLALVFGIISTPDGTTIRVIKNL-PSLRGLRHGNKV  269 (296)
Q Consensus       199 ~l~~~M~~~g~~p~~~t~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~~~-~k~g~~~~A~~~  269 (296)
                      .+..+|...|+.|+.....+.+....        ++..+..|+|++++++|++..      ++++++ ..|+||+.+.|+
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAiafgli~~------~vvkn~~RvC~DCH~~~K~   95 (116)
T PF14432_consen   22 ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAIAFGLINT------RVVKNLKRVCGDCHSFIKF   95 (116)
T ss_pred             HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHHHhcccce------eEEecCCccchHHHHHHHH
Confidence            56778888999998777766554433        356778899999999999765      568888 999999999999


Q ss_pred             HhhhhcceEEEecCCccchh
Q 044945          270 VSKIVHREMIVRDNRRFCRH  289 (296)
Q Consensus       270 f~~m~~r~~~~~~~~~~~~~  289 (296)
                      ++.+..|.|++||+++||+|
T Consensus        96 iS~~~~ReIiVRD~~rfHhF  115 (116)
T PF14432_consen   96 ISKITGREIIVRDSNRFHHF  115 (116)
T ss_pred             HHHHHCeEEEEeCCCeeeeC
Confidence            99999999999999999998

>PF12854 PPR_1: PPR repeat

Probab=99.16  E-value=2.3e-11  Score=71.93  Aligned_cols=31  Identities=23%  Similarity=0.428  Sum_probs=30.2

Q ss_pred             CCceeeHHHHHHHHhccCChhHHHHHHHHHH
Q 044945          101 CDYAISRNSITAGCGQNGPFDEGLKFFGQML  131 (296)
Q Consensus       101 ~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~  131 (296)
                      .||.+|||+||++||+.|++++|+++|++|+
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            9999999999999999999999999999994

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.12  E-value=1.1e-09  Score=98.67  Aligned_cols=184  Identities=17%  Similarity=0.148  Sum_probs=125.3

Q ss_pred             eeehHHHHHhh-cccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhh----h---hcccccccccccCC
Q 044945           13 NVELSNGLAGC-NEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIH----F---DGGVDGLRPSRSGS   84 (296)
Q Consensus        13 ~vs~n~~~~~~-~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~----~---~~~~~i~~y~k~g~   84 (296)
                      +++=|+++.-. .+.+.+|.-+|+.|+..|+..... --.+++....-......+...    +   .++-....--|.|.
T Consensus       116 V~~E~nL~kmIS~~EvKDs~ilY~~m~~e~~~vS~k-vq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKMISSREVKDSCILYERMRSENVDVSEK-VQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHHHhhcccchhHHHHHHHHhcCCCCCHH-HHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            56677765444 233999999999999998752111 001111111111000000000    0   00000112235666


Q ss_pred             H-HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc---------------
Q 044945           85 V-RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA---------------  148 (296)
Q Consensus        85 ~-~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~---------------  148 (296)
                      + .-+|+..++.+        -||.+||.|+|+--..+.|.+++++-.+...+.+..+||.+|.+               
T Consensus       195 vAdL~~E~~PKT~--------et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMis  266 (625)
T KOG4422|consen  195 VADLLFETLPKTD--------ETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMIS  266 (625)
T ss_pred             HHHHHHhhcCCCc--------hhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHH
Confidence            6 54454444433        79999999999999999999999999999999999999999998               


Q ss_pred             ---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHhhHHHHHHHHHHHHhCCCcCCCccceeecchhhh
Q 044945          149 ---GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTKEVLLDVEEEQK  225 (296)
Q Consensus       149 ---~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~  225 (296)
                         .||..|+|+++.+.++.|+++.|.+.+-                      +++.+|++-|+.|...+|.+.+...++
T Consensus       267 qkm~Pnl~TfNalL~c~akfg~F~~ar~aal----------------------qil~EmKeiGVePsLsSyh~iik~f~r  324 (625)
T KOG4422|consen  267 QKMTPNLFTFNALLSCAAKFGKFEDARKAAL----------------------QILGEMKEIGVEPSLSSYHLIIKNFKR  324 (625)
T ss_pred             hhcCCchHhHHHHHHHHHHhcchHHHHHHHH----------------------HHHHHHHHhCCCcchhhHHHHHHHhcc
Confidence               8999999999999999999999987544                      567899999999998888666554444


Q ss_pred             hh
Q 044945          226 KN  227 (296)
Q Consensus       226 ~~  227 (296)
                      +.
T Consensus       325 e~  326 (625)
T KOG4422|consen  325 ES  326 (625)
T ss_pred             cC
Confidence            43

>PF13041 PPR_2: PPR repeat family

Probab=99.10  E-value=1.6e-10  Score=74.73  Aligned_cols=43  Identities=21%  Similarity=0.110  Sum_probs=39.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCcchhHHh
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIE-PNNTGAYVIL  192 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~y~~l  192 (296)
                      ||+++||+||++|++.|++++|.++|++|.+.+ .||..||+++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~l   44 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNIL   44 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            899999999999999999999999999998877 4688888876

>PF12854 PPR_1: PPR repeat

Probab=98.95  E-value=8.1e-10  Score=65.22  Aligned_cols=31  Identities=16%  Similarity=0.073  Sum_probs=29.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044945          149 GSTENVWLTLLSACRVHRNVELAEKVADMIL  179 (296)
Q Consensus       149 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  179 (296)
                      .||.+|||+||++||+.|++++|.++|++|+
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            5899999999999999999999999999984

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.93  E-value=1.4e-09  Score=64.21  Aligned_cols=35  Identities=26%  Similarity=0.472  Sum_probs=33.4

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccCh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARH  139 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~  139 (296)
                      +|||+||++|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            58999999999999999999999999999999984

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

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.91  E-value=9e-09  Score=94.92  Aligned_cols=249  Identities=10%  Similarity=-0.012  Sum_probs=149.4

Q ss_pred             cccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---H
Q 044945           24 NEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---R   86 (296)
Q Consensus        24 ~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~   86 (296)
                      |. +++|.+.|.++.+.+..              .|.++.+..++..+..............+..+...|.+.|+.   .
T Consensus        49 ~~-~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~  127 (389)
T PRK11788         49 EQ-PDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAE  127 (389)
T ss_pred             CC-hHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            44 88888888888876532              445556666555443321110000011233446788899999   8


Q ss_pred             HHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccCh---h-hhhhhhcc--------------
Q 044945           87 KVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARH---A-PFSRIMHA--------------  148 (296)
Q Consensus        87 ~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~---~-ty~~li~~--------------  148 (296)
                      .+|+++.+.+    .++..+++.++..|.+.|+.++|.+.|+.+.+.+-.++.   . .|..+...              
T Consensus       128 ~~~~~~l~~~----~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  203 (389)
T PRK11788        128 ELFLQLVDEG----DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALL  203 (389)
T ss_pred             HHHHHHHcCC----cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            8899887643    234578999999999999999999999999886643322   1 22222211              


Q ss_pred             ------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-cchhHHh--------hHHHHHHHHHHHHhCCCcCC
Q 044945          149 ------GS-TENVWLTLLSACRVHRNVELAEKVADMILMIEPNN-TGAYVIL--------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       149 ------~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~y~~l--------~~~~a~~l~~~M~~~g~~p~  212 (296)
                            .| +...+..+...|.+.|++++|.+.|+++.+..|.+ ..++..+        ..++|...++++.+.  .|+
T Consensus       204 ~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~  281 (389)
T PRK11788        204 KKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPG  281 (389)
T ss_pred             HHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence                  34 45678888899999999999999999998766543 2334444        678999999998876  466


Q ss_pred             CccceeecchhhhhhhhhhhhHHHHHHHHhhcCCCCCeEEEEecccC---ccchhhHHHHHhhhhcceEEE
Q 044945          213 TKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPS---LRGLRHGNKVVSKIVHREMIV  280 (296)
Q Consensus       213 ~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~~~~k---~g~~~~A~~~f~~m~~r~~~~  280 (296)
                      ...+..........+........+...... .+...+...++..+..   .|+..+|..+|++|.++++.+
T Consensus       282 ~~~~~~la~~~~~~g~~~~A~~~l~~~l~~-~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~  351 (389)
T PRK11788        282 ADLLLALAQLLEEQEGPEAAQALLREQLRR-HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKR  351 (389)
T ss_pred             chHHHHHHHHHHHhCCHHHHHHHHHHHHHh-CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhC
Confidence            433321111111111111111111111111 1111111111333333   568999999999999777654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=98.78  E-value=5.1e-08  Score=89.91  Aligned_cols=62  Identities=16%  Similarity=0.111  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccce
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVL  217 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~  217 (296)
                      .+++.+..+|++.|++++|...++++.+..|.+ ..+..+        ..++|..+++++.+.  .|+..++.
T Consensus       250 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~-~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~  319 (389)
T PRK11788        250 EVLPKLMECYQALGDEAEGLEFLRRALEEYPGA-DLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFH  319 (389)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc-hHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHH
Confidence            456667777777777777777777776655432 223333        456677777666554  46654443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.69  E-value=2.2e-08  Score=58.86  Aligned_cols=33  Identities=24%  Similarity=0.467  Sum_probs=32.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKA  137 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~p  137 (296)
                      .|||++|.+|++.|+++.|+++|++|++.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            799999999999999999999999999999998

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

Probab=98.67  E-value=2.4e-08  Score=57.30  Aligned_cols=31  Identities=32%  Similarity=0.562  Sum_probs=29.7

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKI  135 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~  135 (296)
                      +|||+||++|++.|++++|.++|++|++.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            6899999999999999999999999999886

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

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

Probab=98.65  E-value=1.9e-07  Score=93.93  Aligned_cols=176  Identities=11%  Similarity=-0.038  Sum_probs=89.6

Q ss_pred             hhcccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH--
Q 044945           22 GCNEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV--   85 (296)
Q Consensus        22 ~~~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~--   85 (296)
                      +.|+ .++|.++|+++.+....              .|.++.+...+..+......    ....+..+...|.+.|+.  
T Consensus       579 ~~~~-~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~  653 (899)
T TIGR02917       579 GKGQ-LKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD----SALALLLLADAYAVMKNYAK  653 (899)
T ss_pred             HCCC-HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC----ChHHHHHHHHHHHHcCCHHH
Confidence            3354 77777777766554321              34444455444433221110    001112233555566666  


Q ss_pred             -HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc----------------
Q 044945           86 -RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA----------------  148 (296)
Q Consensus        86 -~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~----------------  148 (296)
                       ...|+++.+.+-    .+..+|+.+...+.+.|+.++|.++++.+.+.+. ++..++..+...                
T Consensus       654 A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~  728 (899)
T TIGR02917       654 AITSLKRALELKP----DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRK  728 (899)
T ss_pred             HHHHHHHHHhcCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence             555555443221    1235566666666666666666666666655432 233333322221                


Q ss_pred             ----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          149 ----GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       149 ----~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                          .|+..++..+...|.+.|++++|...++.+.+..|.+...+..+        ..++|...|+++.+.
T Consensus       729 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       729 ALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence                45555556666666666666666666666666555555444444        456666666666554

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

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

Probab=98.63  E-value=2.8e-07  Score=92.72  Aligned_cols=128  Identities=11%  Similarity=0.063  Sum_probs=83.2

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc----
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA----  148 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~----  148 (296)
                      ...|.+.|+.   ..+++++.+..    ..+..+|..+...|.+.|+.++|.+.|+++.+.. +.+...+..+...    
T Consensus       574 ~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  648 (899)
T TIGR02917       574 AQYYLGKGQLKKALAILNEAADAA----PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVM  648 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcC----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHc
Confidence            3566667777   66666665432    2334677777888888888888888888776643 1123333333222    


Q ss_pred             -----------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHH
Q 044945          149 -----------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLER  203 (296)
Q Consensus       149 -----------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~  203 (296)
                                       +.+..+|..+...+.+.|++++|..+++.+.+..|.+...+..+        .+++|.+.+.+
T Consensus       649 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  728 (899)
T TIGR02917       649 KNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRK  728 (899)
T ss_pred             CCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                             33567777788888888888888888888777666555555544        57778788877


Q ss_pred             HHhCC
Q 044945          204 MEQEG  208 (296)
Q Consensus       204 M~~~g  208 (296)
                      +...+
T Consensus       729 ~~~~~  733 (899)
T TIGR02917       729 ALKRA  733 (899)
T ss_pred             HHhhC
Confidence            77654

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

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.49  E-value=1.1e-06  Score=79.63  Aligned_cols=107  Identities=11%  Similarity=0.137  Sum_probs=78.5

Q ss_pred             CeeehHHHH---HhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhccccc--ccccccCCHH
Q 044945           12 ENVELSNGL---AGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDG--LRPSRSGSVR   86 (296)
Q Consensus        12 d~vs~n~~~---~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i--~~y~k~g~~~   86 (296)
                      ..-||.++|   ||+.. .+.|.+++.+-+++-.   .+. ..                   .+|-+|  ..|.+-   .
T Consensus       206 T~et~s~mI~Gl~K~~~-~ERA~~L~kE~~~~k~---kv~-~~-------------------aFN~lI~~~S~~~~---K  258 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSS-LERARELYKEHRAAKG---KVY-RE-------------------AFNGLIGASSYSVG---K  258 (625)
T ss_pred             CchhHHHHHHHHHHHHh-HHHHHHHHHHHHHhhh---eee-HH-------------------hhhhhhhHHHhhcc---H
Confidence            345677765   45565 8899999988776432   110 00                   111111  222222   6


Q ss_pred             HHHhhcccCCcccCCCceeeHHHHHHHHhccCChhH----HHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           87 KVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDE----GLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        87 ~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~----A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      ++..+|....+   +||..|+|+++.+.++.|+++.    |++++.||++-|++|...+|--+|..
T Consensus       259 ~Lv~EMisqkm---~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~  321 (625)
T KOG4422|consen  259 KLVAEMISQKM---TPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKN  321 (625)
T ss_pred             HHHHHHHHhhc---CCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHH
Confidence            88899999999   9999999999999999998874    57888999999999999999998877

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

Probab=98.31  E-value=2.7e-06  Score=83.00  Aligned_cols=127  Identities=13%  Similarity=0.189  Sum_probs=97.3

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-----------------
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-----------------  148 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-----------------  148 (296)
                      ..++-.|...|+   .||-+||-.+|.-||..|+++-|- +|.-|+.+....+...|+.++.+                 
T Consensus        10 tnfla~~e~~gi---~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDt   85 (1088)
T KOG4318|consen   10 TNFLALHEISGI---LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADT   85 (1088)
T ss_pred             chHHHHHHHhcC---CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhH
Confidence            567777888888   898899999999999999998888 88888765555555555555544                 


Q ss_pred             --------------------------------------------------------------------------------
Q 044945          149 --------------------------------------------------------------------------------  148 (296)
Q Consensus       149 --------------------------------------------------------------------------------  148 (296)
                                                                                                      
T Consensus        86 yt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   86 YTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhC
Confidence                                                                                            


Q ss_pred             -----------------------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CcchhHHh
Q 044945          149 -----------------------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN-NTGAYVIL  192 (296)
Q Consensus       149 -----------------------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~-~~~~y~~l  192 (296)
                                                         .|++.+|.++++.-.-.|+++.|..++.+|.+.+-+ +...|.-|
T Consensus       166 Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpL  245 (1088)
T KOG4318|consen  166 PVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPL  245 (1088)
T ss_pred             CcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhh
Confidence                                               488889999999989999999999999999888743 44443333


Q ss_pred             -----hHHHHHHHHHHHHhCCCcCCCccc
Q 044945          193 -----INEALKDLLERMEQEGYVPDTKEV  216 (296)
Q Consensus       193 -----~~~~a~~l~~~M~~~g~~p~~~t~  216 (296)
                           ...-++.++.-|++.|+.|+..|+
T Consensus       246 l~g~~~~q~~e~vlrgmqe~gv~p~seT~  274 (1088)
T KOG4318|consen  246 LLGINAAQVFEFVLRGMQEKGVQPGSETQ  274 (1088)
T ss_pred             hhcCccchHHHHHHHHHHHhcCCCCcchh
Confidence                 345556677888999999998877

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

Probab=98.17  E-value=1.7e-06  Score=49.40  Aligned_cols=30  Identities=20%  Similarity=0.052  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +|||+||++|++.|++++|.++|++|.+.+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            489999999999999999999999998753

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

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.14  E-value=3.7e-06  Score=49.17  Aligned_cols=30  Identities=20%  Similarity=0.076  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      ++||++|++|++.|++++|.++|++|.+.+
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g   30 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERG   30 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            379999999999999999999988887654

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=97.89  E-value=2.3e-05  Score=45.64  Aligned_cols=31  Identities=19%  Similarity=0.212  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          152 ENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       152 ~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +.+||++|++|++.|+++.|..+|++|.+.+
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~g   31 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQG   31 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            3689999999999999999999999988754

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=97.38  E-value=0.0013  Score=65.37  Aligned_cols=178  Identities=12%  Similarity=-0.029  Sum_probs=97.8

Q ss_pred             cccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---H
Q 044945           24 NEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---R   86 (296)
Q Consensus        24 ~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~   86 (296)
                      |+ .++|.+.|+++.+....              .|..+.|...+...-......    .-.+..+...|...|+.   .
T Consensus        90 g~-~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~----~~a~~~la~~l~~~g~~~eA~  164 (656)
T PRK15174         90 SQ-PDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGN----SQIFALHLRTLVLMDKELQAI  164 (656)
T ss_pred             CC-HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCc----HHHHHHHHHHHHHCCChHHHH
Confidence            55 88888888887765432              334444444443332221110    00111223556666776   5


Q ss_pred             HHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhc----c--------------
Q 044945           87 KVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMH----A--------------  148 (296)
Q Consensus        87 ~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~----~--------------  148 (296)
                      ..++.+...+-   .+. ..|..+ ..+.+.|+.++|.+.++.+.+..-.++..++..+..    .              
T Consensus       165 ~~~~~~~~~~P---~~~-~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al  239 (656)
T PRK15174        165 SLARTQAQEVP---PRG-DMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESAL  239 (656)
T ss_pred             HHHHHHHHhCC---CCH-HHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555433221   111 122222 336677777777777777665432222222221111    1              


Q ss_pred             ---CCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          149 ---GSTENVWLTLLSACRVHRNVEL----AEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       149 ---~p~~~~~~~Li~~~~~~g~~~~----A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                         +.+...+..|-..|...|+.++    |...|++..+..|.+...+..+        ..++|...+++..+.  .|+.
T Consensus       240 ~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~  317 (656)
T PRK15174        240 ARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDL  317 (656)
T ss_pred             hcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCC
Confidence               3356677777788888888875    7888888887777666666555        567888887776654  4553

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

Probab=96.87  E-value=0.0016  Score=57.42  Aligned_cols=153  Identities=13%  Similarity=0.141  Sum_probs=72.1

Q ss_pred             CceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          102 DYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       102 p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                      ++...+..++..|-+.|+.+++.+++++.....-.            .++...|..+-..+.+.|+.++|.+.+++..+.
T Consensus       108 ~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~  175 (280)
T PF13429_consen  108 GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAA------------PDSARFWLALAEIYEQLGDPDKALRDYRKALEL  175 (280)
T ss_dssp             ----------H-HHHTT-HHHHHHHHHHHHH-T---------------T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_pred             cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCC------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            34466788899999999999999999997652211            357788888888999999999999999999998


Q ss_pred             CCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecch-----hhhhhhhhhhhHHHHHHHHhhcCCCC
Q 044945          182 EPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEE-----EQKKNILYYHGERLALVFGIISTPDG  248 (296)
Q Consensus       182 ~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (296)
                      .|.|......+        ..+++..++....+..  |+...++..++.     +...+.+......    ... .+.+.
T Consensus       176 ~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~~~----~~~-~p~d~  248 (280)
T PF13429_consen  176 DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLEKA----LKL-NPDDP  248 (280)
T ss_dssp             -TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHH----HHH-STT-H
T ss_pred             CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cCHHHHHHHHHHHhcccccccccccccccc----ccc-ccccc
Confidence            88776555544        5677777777776654  443333322211     1111111111111    000 11111


Q ss_pred             Ce-EEEEecccCccchhhHHHHHhhh
Q 044945          249 TT-IRVIKNLPSLRGLRHGNKVVSKI  273 (296)
Q Consensus       249 ~~-~~ii~~~~k~g~~~~A~~~f~~m  273 (296)
                      .. ...-+.|.+.|+.++|..+..+.
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHHT---------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            10 01145588899999998887654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=96.86  E-value=0.04  Score=54.76  Aligned_cols=55  Identities=13%  Similarity=0.010  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          152 ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       152 ~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      ...+..+-..+.+.|++++|...+++..+..|.+...+..+        .+++|...++++.+
T Consensus       284 ~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~  346 (656)
T PRK15174        284 VRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAR  346 (656)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34555555555555555555555555555444443333333        34455555544443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=96.79  E-value=0.056  Score=44.83  Aligned_cols=143  Identities=16%  Similarity=0.143  Sum_probs=95.9

Q ss_pred             cccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCcccC
Q 044945           24 NEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDFLEY  100 (296)
Q Consensus        24 ~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~  100 (296)
                      |+ .++|.+.|++..+....  ..                      ..+..+...|.+.|+.   .+.|++..+.+-   
T Consensus        45 ~~-~~~A~~~~~~~l~~~p~--~~----------------------~~~~~la~~~~~~~~~~~A~~~~~~al~~~~---   96 (234)
T TIGR02521        45 GD-LEVAKENLDKALEHDPD--DY----------------------LAYLALALYYQQLGELEKAEDSFRRALTLNP---   96 (234)
T ss_pred             CC-HHHHHHHHHHHHHhCcc--cH----------------------HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC---
Confidence            55 88898888887653211  00                      0111123456677777   566665544321   


Q ss_pred             CCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          101 CDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       101 ~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                       .+...|..+...|.+.|+.++|.+.|.+.......            ..+...+..+-..|.+.|++++|...+++..+
T Consensus        97 -~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  163 (234)
T TIGR02521        97 -NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLY------------PQPARSLENAGLCALKAGDFDKAEKYLTRALQ  163 (234)
T ss_pred             -CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccc------------ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             22356778888899999999999999998764211            12334566677788899999999999999887


Q ss_pred             cCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          181 IEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       181 ~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      ..|.+...|..+        ..++|...+++..+.
T Consensus       164 ~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  198 (234)
T TIGR02521       164 IDPQRPESLLELAELYYLRGQYKDARAYLERYQQT  198 (234)
T ss_pred             hCcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            766665555555        678888888887766

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.

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

Probab=96.77  E-value=0.0053  Score=46.14  Aligned_cols=41  Identities=7%  Similarity=0.157  Sum_probs=25.3

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHcCC-ccChhhhhhhhcc
Q 044945          108 NSITAGCGQNGPFDEGLKFFGQMLMAKI-KARHAPFSRIMHA  148 (296)
Q Consensus       108 n~li~~~~~~g~~~~A~~l~~~M~~~g~-~pd~~ty~~li~~  148 (296)
                      ...|..+...|+......+|+..++.|+ .|+..+|+.++.+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~S   70 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKS   70 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            3455555556666666666666666666 5555555555555

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 [, , ].

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

Probab=96.69  E-value=0.022  Score=56.11  Aligned_cols=113  Identities=7%  Similarity=-0.102  Sum_probs=74.7

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|...|+.   ...|++..+.+-    .+...|..+-..|...|+.++|.+.|++-.+..              +.+..
T Consensus       373 ~~~~~~g~~~eA~~~~~~al~~~p----~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~--------------P~~~~  434 (615)
T TIGR00990       373 SMNLELGDPDKAEEDFDKALKLNS----EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD--------------PDFIF  434 (615)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--------------ccCHH
Confidence            345556666   555554433211    122556666677777777777777777665532              23456


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .|..+-..|.+.|+.++|...|++..+..|.+...|+.+        .+++|.+.|++-.+.
T Consensus       435 ~~~~la~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       435 SHIQLGVTQYKEGSIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            677777888889999999999998887777666666665        678888888776554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=96.68  E-value=0.015  Score=48.38  Aligned_cols=89  Identities=17%  Similarity=0.150  Sum_probs=68.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+...|.+.|+.++|.+.|++..+..  |            .+...+..+-..|...|++++|...+++..+..|.
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p------------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~   97 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD--P------------DDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN   97 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--c------------ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            567888899999999999999999987642  2            24567777788888888888888888888777665


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...+..+        ..++|.+.+.+..+.
T Consensus        98 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  128 (234)
T TIGR02521        98 NGDVLNNYGTFLCQQGKYEQAMQQFEQAIED  128 (234)
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            55444444        578888888877764

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=96.58  E-value=0.01  Score=52.31  Aligned_cols=122  Identities=16%  Similarity=0.081  Sum_probs=82.8

Q ss_pred             ccccccccCCH---HHHHhhccc-CCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCC
Q 044945           75 DGLRPSRSGSV---RKVFEIMAV-RDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGS  150 (296)
Q Consensus        75 ~i~~y~k~g~~---~~~f~~M~~-~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p  150 (296)
                      .+..|-+.|+.   .+++++... ...   .++...|..+-..+-+.|+.++|++.+++-.+..               |
T Consensus       116 ~l~~~~~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~---------------P  177 (280)
T PF13429_consen  116 ALQLYYRLGDYDEAEELLEKLEELPAA---PDSARFWLALAEIYEQLGDPDKALRDYRKALELD---------------P  177 (280)
T ss_dssp             --H-HHHTT-HHHHHHHHHHHHH-T------T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----------------T
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHhccCC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---------------C
Confidence            34567777887   777777553 223   4566788889999999999999999999987753               4


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccc
Q 044945          151 -TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEV  216 (296)
Q Consensus       151 -~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~  216 (296)
                       |....+.++..+...|+.+++..+++...+..+.|...|..+        ..++|...+++...  ..|+..++
T Consensus       178 ~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~--~~p~d~~~  250 (280)
T PF13429_consen  178 DDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALK--LNPDDPLW  250 (280)
T ss_dssp             T-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH--HSTT-HHH
T ss_pred             CCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccc--cccccccc
Confidence             467788888888888888888888888877655555555544        67888888887654  34543333

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=96.49  E-value=0.082  Score=53.56  Aligned_cols=176  Identities=8%  Similarity=-0.059  Sum_probs=107.1

Q ss_pred             hhcccHHHHHHHHHHhHhccc--C-------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH-
Q 044945           22 GCNEFMDKANGITDRFEERAV--S-------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV-   85 (296)
Q Consensus        22 ~~~~~~~~A~~~f~~M~~~~~--~-------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~-   85 (296)
                      ..++ .++|+..|+++.+.+-  +             .|..+.|...+..+.................+..+|.+.|+. 
T Consensus       249 ~~g~-~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~  327 (765)
T PRK10049        249 ARDR-YKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYP  327 (765)
T ss_pred             Hhhh-HHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHH
Confidence            3365 8999999999988652  1             334455555544432211100000000011112355677777 


Q ss_pred             --HHHHhhcccCC--------cccCCCce---eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           86 --RKVFEIMAVRD--------FLEYCDYA---ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        86 --~~~f~~M~~~~--------~~~~~p~~---~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                        ..+++.+.+..        ...-.|+.   -.+..+...+...|+.++|+++++++....              +.+.
T Consensus       328 eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~--------------P~n~  393 (765)
T PRK10049        328 GALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA--------------PGNQ  393 (765)
T ss_pred             HHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------CCCH
Confidence              56666665432        10112332   134456667778888888888888876642              2456


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCc
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~  214 (296)
                      ..+..+...+.+.|+.++|+..+++..+..|.+...+...        .+++|+.+++++.+.  .|+..
T Consensus       394 ~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~  461 (765)
T PRK10049        394 GLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR--EPQDP  461 (765)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCH
Confidence            7888889999999999999999999988887764433333        788888888888763  55533

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

Probab=96.41  E-value=0.0031  Score=62.38  Aligned_cols=67  Identities=7%  Similarity=0.008  Sum_probs=54.7

Q ss_pred             CCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-------------------CCCHHHHHHHHHH
Q 044945          101 CDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-------------------GSTENVWLTLLSA  161 (296)
Q Consensus       101 ~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-------------------~p~~~~~~~Li~~  161 (296)
                      .||..+|.++++.=.-+|+++-|..++.+|+++|++.+..-|..|+-+                   .|+..|+.--+-.
T Consensus       201 ~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g~~~~q~~e~vlrgmqe~gv~p~seT~adyvip  280 (1088)
T KOG4318|consen  201 APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLGINAAQVFEFVLRGMQEKGVQPGSETQADYVIP  280 (1088)
T ss_pred             CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhcCccchHHHHHHHHHHHhcCCCCcchhHHHHHh
Confidence            388899999999999999999999999999999998888877777666                   6777777665555


Q ss_pred             HHhcCC
Q 044945          162 CRVHRN  167 (296)
Q Consensus       162 ~~~~g~  167 (296)
                      +.+.|.
T Consensus       281 ~l~N~~  286 (1088)
T KOG4318|consen  281 QLSNGQ  286 (1088)
T ss_pred             hhcchh
Confidence            555443

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

Probab=96.40  E-value=0.015  Score=54.27  Aligned_cols=75  Identities=20%  Similarity=0.213  Sum_probs=64.7

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP-  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~-  183 (296)
                      -|..++|..|-+.|..++++++++.=...|+             .||..|+|.||+.+.+.|++..|.+++..|...+. 
T Consensus       104 ~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGi-------------F~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~  170 (429)
T PF10037_consen  104 STHHALVRQCLELGAEDELLELLKNRLQYGI-------------FPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEF  170 (429)
T ss_pred             ccHHHHHHHHHhcCCHHHHHHHHhChhhccc-------------CCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhcc
Confidence            4556999999999999999999999999999             78999999999999999999999999999987653 


Q ss_pred             CCcchhHHh
Q 044945          184 NNTGAYVIL  192 (296)
Q Consensus       184 ~~~~~y~~l  192 (296)
                      .+..|+.+.
T Consensus       171 ~~~~t~~L~  179 (429)
T PF10037_consen  171 DNPSTQALA  179 (429)
T ss_pred             CCchHHHHH
Confidence            455555443

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

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.26  E-value=0.081  Score=41.81  Aligned_cols=105  Identities=9%  Similarity=0.045  Sum_probs=75.0

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhc
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVH  165 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~  165 (296)
                      +.+|++-.+.     .|+  .+..+-..+.+.|++++|.+.|+......              +.+...|..+=..+.+.
T Consensus        13 ~~~~~~al~~-----~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~--------------P~~~~a~~~lg~~~~~~   71 (144)
T PRK15359         13 EDILKQLLSV-----DPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQ--------------PWSWRAHIALAGTWMML   71 (144)
T ss_pred             HHHHHHHHHc-----CHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC--------------CCcHHHHHHHHHHHHHH
Confidence            5555554443     343  25556777888999999999998876542              25677788888888888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          166 RNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       166 g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      |++++|...|+...+..|.+...+..+        ..++|...|.+-.+.  .|+.
T Consensus        72 g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~--~p~~  125 (144)
T PRK15359         72 KEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM--SYAD  125 (144)
T ss_pred             hhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            999999999998888877777666655        667787777765543  4543

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

Probab=96.22  E-value=0.0088  Score=57.36  Aligned_cols=92  Identities=12%  Similarity=0.153  Sum_probs=74.5

Q ss_pred             HHHHhccCChhHHHHHHHHHHHcC--CccChhhhhhhhcc------------------CCCHHHHHHHHHHHHhcCCHHH
Q 044945          111 TAGCGQNGPFDEGLKFFGQMLMAK--IKARHAPFSRIMHA------------------GSTENVWLTLLSACRVHRNVEL  170 (296)
Q Consensus       111 i~~~~~~g~~~~A~~l~~~M~~~g--~~pd~~ty~~li~~------------------~p~~~~~~~Li~~~~~~g~~~~  170 (296)
                      =.+|...++.++|+++|+...+..  ..-+..+|++.+=-                  +-...+|.++=+.|+-.++.+.
T Consensus       360 GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~  439 (638)
T KOG1126|consen  360 GRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHDT  439 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHH
Confidence            367888888999999999987732  22366778877644                  4456899999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHH
Q 044945          171 AEKVADMILMIEPNNTGAYVIL--------INEALKDLLE  202 (296)
Q Consensus       171 A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~  202 (296)
                      |.+.|++-...+|..+.+|+++        .+|.|.+-|+
T Consensus       440 Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr  479 (638)
T KOG1126|consen  440 AIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFR  479 (638)
T ss_pred             HHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHH
Confidence            9999999999999999999999        4566666554

>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=96.21  E-value=0.012  Score=39.74  Aligned_cols=58  Identities=19%  Similarity=0.331  Sum_probs=47.9

Q ss_pred             hccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          115 GQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       115 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      .+.|++++|+++|++.....              +-|...+-.+...|.+.|++++|..+++.+....|.+.
T Consensus         2 l~~~~~~~A~~~~~~~l~~~--------------p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~   59 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN--------------PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNP   59 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT--------------TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHH
T ss_pred             hhccCHHHHHHHHHHHHHHC--------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHH
Confidence            46799999999999997753              23777888899999999999999999999988776543

...

>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=96.17  E-value=0.11  Score=35.71  Aligned_cols=86  Identities=20%  Similarity=0.239  Sum_probs=63.4

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          107 RNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       107 ~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      |..+...+.+.|+.++|.+.|++..+..  |            .+...+..+-..|...|++++|...|+...+..+.+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~   68 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD--P------------DNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNA   68 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC--C------------ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcch
Confidence            5567778888999999999999987642  2            2336677788888899999999999999887766655


Q ss_pred             chhHHh--------hHHHHHHHHHHHHh
Q 044945          187 GAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       187 ~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .++..+        ..++|...+.+..+
T Consensus        69 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          69 KAYYNLGLAYYKLGKYEEALEAYEKALE   96 (100)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence            444444        45666666655543

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

Probab=96.10  E-value=0.15  Score=47.43  Aligned_cols=100  Identities=10%  Similarity=0.076  Sum_probs=64.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc---------------------CCCHHHHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA---------------------GSTENVWLTLLSACR  163 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~---------------------~p~~~~~~~Li~~~~  163 (296)
                      ..|+.|=+-|..-.....|.+-++.-++-. +-|--.|-.|=.+                     +-|...|.+|=+.|.
T Consensus       365 ~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~  443 (559)
T KOG1155|consen  365 SAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYE  443 (559)
T ss_pred             HHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Confidence            456666666666666666666666554311 1132222222222                     558899999999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHH
Q 044945          164 VHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERME  205 (296)
Q Consensus       164 ~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~  205 (296)
                      +-+++++|.+.|......+-.+...|.-|        ..++|.+.++.-.
T Consensus       444 kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v  493 (559)
T KOG1155|consen  444 KLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYV  493 (559)
T ss_pred             HhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            99999999999999877654444556655        4566656555443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=96.04  E-value=0.097  Score=48.75  Aligned_cols=235  Identities=9%  Similarity=0.004  Sum_probs=131.5

Q ss_pred             cHHHHHHHHHHhHhcc-cC-------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHH
Q 044945           26 FMDKANGITDRFEERA-VS-------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKV   88 (296)
Q Consensus        26 ~~~~A~~~f~~M~~~~-~~-------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~   88 (296)
                      ++++|.+....-.+.. .+             .|....+..++..+........+...+   ..-..+...|+.   ...
T Consensus        99 d~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l---~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         99 DYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEI---TRVRIQLARNENHAARHG  175 (398)
T ss_pred             CHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHH---HHHHHHHHCCCHHHHHHH
Confidence            4777777776655532 11             444555555555443322211111000   112456677888   777


Q ss_pred             HhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccCh-------hhhhhhhcc------------
Q 044945           89 FEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARH-------APFSRIMHA------------  148 (296)
Q Consensus        89 f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~-------~ty~~li~~------------  148 (296)
                      ++++.+.+     | +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++..            
T Consensus       176 l~~~~~~~-----P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        176 VDKLLEVA-----PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHhcC-----CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            77776542     3 2356888899999999999999999999987765322       233222221            


Q ss_pred             ---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc---hhHHh---hHHHHHHHHHHHHhCCCcCCC
Q 044945          149 ---------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG---AYVIL---INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       149 ---------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~---~y~~l---~~~~a~~l~~~M~~~g~~p~~  213 (296)
                               +.+.....++...+.+.|+.++|.+++++..+. +++..   .|.-+   ..+++.+..+...+.  .||.
T Consensus       251 ~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~-~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~--~P~~  327 (398)
T PRK10747        251 WWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR-QYDERLVLLIPRLKTNNPEQLEKVLRQQIKQ--HGDT  327 (398)
T ss_pred             HHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-CCCHHHHHHHhhccCCChHHHHHHHHHHHhh--CCCC
Confidence                     346778888999999999999999999988874 33432   23333   556666767666643  5665


Q ss_pred             ccceeecchhhhhhh-hhhhhHHHHHHHHhhcCCCCCeEEEEecccCccchhhHHHHHhh
Q 044945          214 KEVLLDVEEEQKKNI-LYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSK  272 (296)
Q Consensus       214 ~t~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ii~~~~k~g~~~~A~~~f~~  272 (296)
                      .......+....... .....+.+...... .+.....+.+-..+.+.|+.++|...+++
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~-~P~~~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQ-RPDAYDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            544322222111111 11111111111111 11111111224557788888888777763

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

Probab=95.97  E-value=0.012  Score=44.22  Aligned_cols=69  Identities=7%  Similarity=0.108  Sum_probs=54.0

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCC--------hhHHHHHHHHHHHcCCccChhhhhhh
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGP--------FDEGLKFFGQMLMAKIKARHAPFSRI  145 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~--------~~~A~~l~~~M~~~g~~pd~~ty~~l  145 (296)
                      .-+...+++   -.+|+..++.|+.  .|++.+||.++.+-++...        +-+.+.++++|...+++|+..||+++
T Consensus        33 ~~~~~~~d~N~I~~lYqslkRN~i~--lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   33 NSCFENEDYNIINPLYQSLKRNGIT--LPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHhhcchHHHHHHHHHHHhcCCC--CCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            334444777   8899999988862  5888999999999887654        34778999999999998877777777


Q ss_pred             hc
Q 044945          146 MH  147 (296)
Q Consensus       146 i~  147 (296)
                      +.
T Consensus       111 l~  112 (120)
T PF08579_consen  111 LG  112 (120)
T ss_pred             HH
Confidence            64

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 [, , ].

>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=95.80  E-value=0.039  Score=46.45  Aligned_cols=74  Identities=20%  Similarity=0.279  Sum_probs=56.2

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhcCC-CCcchhHHh------------------------hHHHHH
Q 044945          149 GSTENVWLTLLSACRVH-----RNVELAEKVADMILMIEP-NNTGAYVIL------------------------INEALK  198 (296)
Q Consensus       149 ~p~~~~~~~Li~~~~~~-----g~~~~A~~~~~~m~~~~~-~~~~~y~~l------------------------~~~~a~  198 (296)
                      ..|..+|..+|+.|.+.     |.++=-...+..|.+-+. .|..+|+.|                        ..+.|.
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            45666777777777644     677777777788877774 577888877                        568899


Q ss_pred             HHHHHHHhCCCcCCCccceeecch
Q 044945          199 DLLERMEQEGYVPDTKEVLLDVEE  222 (296)
Q Consensus       199 ~l~~~M~~~g~~p~~~t~~~~~~~  222 (296)
                      +++++|...|+.||..|....+..
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~i  147 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNI  147 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999999999998888655433

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

>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=95.52  E-value=0.07  Score=44.96  Aligned_cols=100  Identities=12%  Similarity=0.011  Sum_probs=64.3

Q ss_pred             HHHHhhc--ccCCcccCCCceeeHHHHHHHHhcc-----CChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHH
Q 044945           86 RKVFEIM--AVRDFLEYCDYAISRNSITAGCGQN-----GPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLT  157 (296)
Q Consensus        86 ~~~f~~M--~~~~~~~~~p~~~t~n~li~~~~~~-----g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~  157 (296)
                      ++.|+.-  ..++-       .+|..+|+.|.+.     |.++=....++.|.+-|+.-|..+|+.||+..|. ..+=..
T Consensus        34 ~~~f~~~~~~~k~K-------~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n  106 (228)
T PF06239_consen   34 EELFERAPGQAKDK-------ATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRN  106 (228)
T ss_pred             HHHHHHHhhccccH-------HHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCccccc
Confidence            6667665  45555       7777788777654     6777777788888888888888888888888332 111112


Q ss_pred             HHHHHH--hcCCHHHHHHHHHHHHhcCC-CCcchhHHh
Q 044945          158 LLSACR--VHRNVELAEKVADMILMIEP-NNTGAYVIL  192 (296)
Q Consensus       158 Li~~~~--~~g~~~~A~~~~~~m~~~~~-~~~~~y~~l  192 (296)
                      ++.+-.  ...+-+-|.+++++|...+. ||..++..+
T Consensus       107 ~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~l  144 (228)
T PF06239_consen  107 FFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQML  144 (228)
T ss_pred             HHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            222211  12245667777788777663 677777776

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=95.42  E-value=0.43  Score=50.73  Aligned_cols=88  Identities=9%  Similarity=0.088  Sum_probs=56.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..+..+-..|.+.|+.++|++.|++..+..  |            .+...+..+...|...|+.++|...++...+..|.
T Consensus       604 ~~~~~La~~~~~~g~~~~A~~~y~~al~~~--P------------~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~  669 (1157)
T PRK11447        604 RIDLTLADWAQQRGDYAAARAAYQRVLTRE--P------------GNADARLGLIEVDIAQGDLAAARAQLAKLPATAND  669 (1157)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC
Confidence            456667777778888888888887776632  2            34556666667777777777777777766655444


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHh
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +...+..+        ..++|.+++++...
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            44333333        45666666666554

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

Probab=95.40  E-value=0.079  Score=35.30  Aligned_cols=61  Identities=21%  Similarity=0.299  Sum_probs=49.1

Q ss_pred             HHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          111 TAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       111 i~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      -..+.+.|++++|.+.|++..+..  |            -+...|..+=..+...|++++|...|++..+..|.|
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~--P------------~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD--P------------DNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS--T------------THHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--C------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            356788999999999999988764  2            266778888889999999999999999998877654

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

Probab=95.37  E-value=0.28  Score=37.66  Aligned_cols=88  Identities=19%  Similarity=0.304  Sum_probs=70.3

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      ....+...+.+.|+.++|.+.|+.....+              +.+...|..+-..|.+.|++++|...++...+..|.+
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--------------p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~   84 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAYD--------------PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDD   84 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhC--------------CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            35566688889999999999999987753              2466788888889999999999999999988877777


Q ss_pred             cchhHHh--------hHHHHHHHHHHHHhC
Q 044945          186 TGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       186 ~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      ...|..+        ..++|.+.+++..+.
T Consensus        85 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        85 PRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6665555        678888888776664

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=95.33  E-value=0.32  Score=50.59  Aligned_cols=91  Identities=10%  Similarity=-0.062  Sum_probs=49.9

Q ss_pred             CCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHH
Q 044945           83 GSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLL  159 (296)
Q Consensus        83 g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li  159 (296)
                      |+.   ...|++-.+.     .|+...|..+-..+.+.|+.++|++.|++-.+.  .|+            +...++.+-
T Consensus       590 Gr~~eAl~~~~~AL~l-----~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd------------~~~a~~nLG  650 (987)
T PRK09782        590 GQPELALNDLTRSLNI-----APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPN------------NSNYQAALG  650 (987)
T ss_pred             CCHHHHHHHHHHHHHh-----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCC------------CHHHHHHHH
Confidence            666   4444444332     344466777777777777777777777776553  233            333444444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          160 SACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       160 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      ..+...|+.++|...+++..+..|.+...+..+
T Consensus       651 ~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nL  683 (987)
T PRK09782        651 YALWDSGDIAQSREMLERAHKGLPDDPALIRQL  683 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            455555555555555555555444444333333

>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=95.29  E-value=0.31  Score=48.01  Aligned_cols=49  Identities=20%  Similarity=0.246  Sum_probs=36.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          159 LSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       159 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      ...+...|++++|..++++..+..|.+...+..+        ..++|.++|++-.+.
T Consensus       515 ~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       515 LALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            3344557999999999999888777676666666        678888888776543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=95.22  E-value=0.17  Score=39.94  Aligned_cols=97  Identities=11%  Similarity=0.056  Sum_probs=77.4

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENV  154 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~  154 (296)
                      .+...|++   ...|+.....+-    .+...|..+-..+.+.|+.++|...|++..+..  |            .+...
T Consensus        33 ~~~~~g~~~~A~~~~~~al~~~P----~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~--p------------~~~~a   94 (144)
T PRK15359         33 ASWQEGDYSRAVIDFSWLVMAQP----WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD--A------------SHPEP   94 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCC----CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--C------------CCcHH
Confidence            45667777   666776554432    244788999999999999999999999998743  2            47778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          155 WLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       155 ~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      |..+=.++.+.|+.++|...|+...+..|.+...|...
T Consensus        95 ~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~  132 (144)
T PRK15359         95 VYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIR  132 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            88888899999999999999999999888887777554

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=95.11  E-value=0.49  Score=48.00  Aligned_cols=61  Identities=18%  Similarity=0.150  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCcc
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKE  215 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t  215 (296)
                      ..+..+...+...|++++|+.+++++.+..|.+...+..+        ..++|++.+++-..  ..||...
T Consensus       360 ~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~  428 (765)
T PRK10049        360 QGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNIN  428 (765)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChH
Confidence            3556778889999999999999999998888787666665        67888888886655  3587543

>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=95.02  E-value=0.12  Score=39.94  Aligned_cols=77  Identities=12%  Similarity=0.079  Sum_probs=59.6

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhh-hhcc---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSR-IMHA---GSTENVWLTLLSACRVHRNVELAEKVADMI  178 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~-li~~---~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  178 (296)
                      |..++.++|-++++.|+++...++.+..-  |+.++...=.. +...   .|+..+-.|++.+|+..|++..|.++.+..
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~f   78 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFF   78 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            34678999999999999999999987553  44433311110 1111   699999999999999999999999999998


Q ss_pred             Hhc
Q 044945          179 LMI  181 (296)
Q Consensus       179 ~~~  181 (296)
                      .+.
T Consensus        79 s~~   81 (126)
T PF12921_consen   79 SRK   81 (126)
T ss_pred             HHH
Confidence            875

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

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

Probab=94.83  E-value=0.45  Score=39.80  Aligned_cols=91  Identities=12%  Similarity=0.138  Sum_probs=64.7

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHH-HHhcCC--HHHHHHHHHHHH
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSA-CRVHRN--VELAEKVADMIL  179 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~-~~~~g~--~~~A~~~~~~m~  179 (296)
                      |...|..|-..|...|+.++|...|++-.+..  |            -|...+..+-.+ |...|+  .++|..++++..
T Consensus        72 ~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~--P------------~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al  137 (198)
T PRK10370         72 NSEQWALLGEYYLWRNDYDNALLAYRQALQLR--G------------ENAELYAALATVLYYQAGQHMTPQTREMIDKAL  137 (198)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            34678888888889999999999998776643  2            355556665554 356666  478888888887


Q ss_pred             hcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          180 MIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       180 ~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +..|.+..++..+        .+++|...++++.+.
T Consensus       138 ~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        138 ALDANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7777776666666        577777777777654

>TIGR00540 hemY_coli hemY protein

Probab=94.63  E-value=0.61  Score=43.56  Aligned_cols=130  Identities=11%  Similarity=0.024  Sum_probs=90.4

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccCh-h------hhhhhh
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARH-A------PFSRIM  146 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~-~------ty~~li  146 (296)
                      .+...|+.   .+.++++.+..     | +...+-.+...|.+.|++++|.+++....+.+..+.. .      .+..++
T Consensus       162 l~l~~~~~~~Al~~l~~l~~~~-----P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l  236 (409)
T TIGR00540       162 ILLAQNELHAARHGVDKLLEMA-----PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLL  236 (409)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-----CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            44557777   77788887652     3 2246888999999999999999999999998764322 2      122222


Q ss_pred             cc----------------CC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc----hhHHh------hHH
Q 044945          147 HA----------------GS-----TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG----AYVIL------INE  195 (296)
Q Consensus       147 ~~----------------~p-----~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~----~y~~l------~~~  195 (296)
                      ..                .|     +...+-++...+...|+.++|.+++++..++.|.+..    .+...      ..+
T Consensus       237 ~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~  316 (409)
T TIGR00540       237 DEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNE  316 (409)
T ss_pred             HHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChH
Confidence            11                44     8889999999999999999999999999988775542    22211      345


Q ss_pred             HHHHHHHHHHhCCCcCCCc
Q 044945          196 ALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       196 ~a~~l~~~M~~~g~~p~~~  214 (296)
                      .+.+.++...+.  .|+..
T Consensus       317 ~~~~~~e~~lk~--~p~~~  333 (409)
T TIGR00540       317 KLEKLIEKQAKN--VDDKP  333 (409)
T ss_pred             HHHHHHHHHHHh--CCCCh
Confidence            555666554433  56655

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.39  E-value=0.12  Score=31.68  Aligned_cols=39  Identities=26%  Similarity=0.446  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      .+|..+-..|...|++++|+++|++..+..|.|...|..
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~   40 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHH
Confidence            357788899999999999999999999998888776654

>PRK11189 lipoprotein NlpI; Provisional

Probab=94.29  E-value=1.5  Score=38.93  Aligned_cols=109  Identities=19%  Similarity=0.121  Sum_probs=80.0

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      .|.+.|+.   ...|++..+.     .| +...|+.+-..|.+.|+.++|.+.|++..+.  .|            -+..
T Consensus        73 ~~~~~g~~~~A~~~~~~Al~l-----~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P------------~~~~  133 (296)
T PRK11189         73 LYDSLGLRALARNDFSQALAL-----RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DP------------TYNY  133 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHc-----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CC------------CCHH
Confidence            56677777   5555555443     33 3468999999999999999999999988763  23            2456


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc--chhHHh-----hHHHHHHHHHHHH
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNT--GAYVIL-----INEALKDLLERME  205 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~--~~y~~l-----~~~~a~~l~~~M~  205 (296)
                      +|.-+-..|...|++++|...|+...+..|.+.  ..|..+     ..++|...|.+..
T Consensus       134 a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        134 AYLNRGIALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            777788888899999999999999988877664  233322     4788888886644

>PRK12370 invasion protein regulator; Provisional

Probab=94.26  E-value=1.1  Score=43.66  Aligned_cols=28  Identities=14%  Similarity=0.082  Sum_probs=17.7

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHc
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMA  133 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~  133 (296)
                      .|..+-..|...|+.++|.+.+++..+.
T Consensus       374 a~~~lg~~l~~~G~~~eAi~~~~~Al~l  401 (553)
T PRK12370        374 IKYYYGWNLFMAGQLEEALQTINECLKL  401 (553)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            4555556666666666666666666553

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

Probab=94.18  E-value=0.12  Score=49.91  Aligned_cols=98  Identities=14%  Similarity=0.175  Sum_probs=69.7

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCcc-Chhhhhhhhcc------------------CCCHHHHHHHH---HHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKA-RHAPFSRIMHA------------------GSTENVWLTLL---SAC  162 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~p-d~~ty~~li~~------------------~p~~~~~~~Li---~~~  162 (296)
                      .||.++=++|.-.++.+.|++.|++-.+  +.| ..++|+-+=+-                  ..|...||+.-   ..|
T Consensus       422 esWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy  499 (638)
T KOG1126|consen  422 ESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVY  499 (638)
T ss_pred             HHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhhe
Confidence            6899999999999999999999987655  445 56677654333                  66777777643   457


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHH
Q 044945          163 RVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       163 ~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M  204 (296)
                      .|.++++.|+--|++..+..|.|.+.-..+        ..|+|.+++++-
T Consensus       500 ~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A  549 (638)
T KOG1126|consen  500 LKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKA  549 (638)
T ss_pred             eccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHH
Confidence            788999999999998888877765433333        445555555443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=94.00  E-value=1.8  Score=44.15  Aligned_cols=135  Identities=9%  Similarity=0.021  Sum_probs=85.8

Q ss_pred             cccccccCCH---HHHHhhcccCCccc-CCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccC-hhhhhhhhcc-
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLE-YCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKAR-HAPFSRIMHA-  148 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~-~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~-  148 (296)
                      -++|...++.   ..++.+.-...-.+ ..| +......|..+|...+++++|..+++++.+.  .|- ..-|+.-... 
T Consensus       334 adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~p  411 (822)
T PRK14574        334 ASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQ--TPYQVGVYGLPGKEP  411 (822)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCcEEeccCCCCCCC
Confidence            4788888888   77777764322100 022 3334678999999999999999999999873  341 1112211111 


Q ss_pred             CCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCc
Q 044945          149 GSTENV-WLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       149 ~p~~~~-~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~  214 (296)
                      .||-.. +..+...+...|++.+|++.++++....|.|......+        ...+|++.++.....  .|+..
T Consensus       412 n~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~  484 (822)
T PRK14574        412 NDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSL  484 (822)
T ss_pred             CccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccH
Confidence            344433 34455667788888888888888887777777666665        557777766443332  56543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=93.91  E-value=1.3  Score=32.55  Aligned_cols=92  Identities=15%  Similarity=0.096  Sum_probs=65.3

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      ++-.+...+.+.|+.++|.+.|.+..+..  |+.         ......+..+-..+.+.|++++|...|+...+..|.+
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~---------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~   72 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKS---------TYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKS   72 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCc---------cccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCC
Confidence            45566777889999999999999997642  211         0123455668888999999999999999998765543


Q ss_pred             ---cchhHHh--------hHHHHHHHHHHHHhCC
Q 044945          186 ---TGAYVIL--------INEALKDLLERMEQEG  208 (296)
Q Consensus       186 ---~~~y~~l--------~~~~a~~l~~~M~~~g  208 (296)
                         ..++..+        ..++|.+.+++..+..
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        73 PKAPDALLKLGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             CcccHHHHHHHHHHHHhCChHHHHHHHHHHHHHC
Confidence               2223322        5678888888887763

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=93.79  E-value=0.99  Score=47.04  Aligned_cols=125  Identities=14%  Similarity=0.130  Sum_probs=77.2

Q ss_pred             cccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChh-hhhhhhc-----c--
Q 044945           80 SRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHA-PFSRIMH-----A--  148 (296)
Q Consensus        80 ~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~-ty~~li~-----~--  148 (296)
                      .+.|+.   ...|+++...     .|+...+..+...+.+.|+.++|.+.|++-.+..  |+.. .+..+..     +  
T Consensus       520 ~~~Gr~eeAi~~~rka~~~-----~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~  592 (987)
T PRK09782        520 YQVEDYATALAAWQKISLH-----DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQP  592 (987)
T ss_pred             HHCCCHHHHHHHHHHHhcc-----CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCH
Confidence            356666   5556554332     2333446666667777788888888887776654  3222 1211111     1  


Q ss_pred             -------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          149 -------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       149 -------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                                   .|+...|..+-..+.+.|+.++|...+++..+..|.+...++.+        ..++|...+++-.+.
T Consensus       593 ~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        593 ELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                         56777777777788888888888888888877777666666555        567777766665543


Q ss_pred             CCcCCC
Q 044945          208 GYVPDT  213 (296)
Q Consensus       208 g~~p~~  213 (296)
                        .|+.
T Consensus       673 --~P~~  676 (987)
T PRK09782        673 --LPDD  676 (987)
T ss_pred             --CCCC
Confidence              4543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=93.67  E-value=1.3  Score=41.32  Aligned_cols=95  Identities=14%  Similarity=0.029  Sum_probs=64.6

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +.....++...+.+.|+.++|.+++.+-.+.               .||...  .++.+....|+.+++.+..+...+..
T Consensus       262 ~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---------------~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~  324 (398)
T PRK10747        262 QVALQVAMAEHLIECDDHDTAQQIILDGLKR---------------QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH  324 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---------------CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC
Confidence            3356777888889999999999999887663               233311  23344445678888888888877777


Q ss_pred             CCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccc
Q 044945          183 PNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEV  216 (296)
Q Consensus       183 ~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~  216 (296)
                      |.|...+.++        .+++|.+.|+...+.  .|+..++
T Consensus       325 P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~  364 (398)
T PRK10747        325 GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDY  364 (398)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH
Confidence            7666655555        678888888777764  4665553

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=93.49  E-value=0.55  Score=31.79  Aligned_cols=61  Identities=16%  Similarity=0.198  Sum_probs=49.7

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      ..|.+.+++++|++.++.+...+  |            .+...|...=..|.+.|++++|...|+...+..|.+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~--p------------~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~   63 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD--P------------DDPELWLQRARCLFQLGRYEEALEDLERALELSPDDP   63 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--c------------ccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcH
Confidence            46788999999999999998853  2            3566677777788999999999999999988777544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=93.37  E-value=1  Score=33.26  Aligned_cols=101  Identities=11%  Similarity=0.076  Sum_probs=69.5

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENV  154 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~  154 (296)
                      .+.+.|+.   .+.|+...+.+-. .......+..+-..+.+.|+.++|.+.|++.....  |+.         .....+
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~---------~~~~~~   78 (119)
T TIGR02795        11 LVLKAGDYADAIQAFQAFLKKYPK-STYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKS---------PKAPDA   78 (119)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-ccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCC---------CcccHH
Confidence            45566777   6677766543210 01112356668899999999999999999987642  211         112445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          155 WLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       155 ~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      +..+-..+.+.|+.++|...+++..+..|.+..+..
T Consensus        79 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        79 LLKLGMSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            667777888999999999999999988776665443

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.

>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=93.20  E-value=0.5  Score=32.19  Aligned_cols=87  Identities=17%  Similarity=0.117  Sum_probs=63.8

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENV  154 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~  154 (296)
                      .|.+.|++   ...|++..+..-    .+...|..+-..|...|+.++|.+.|.+.....              ..+..+
T Consensus         9 ~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--------------~~~~~~   70 (100)
T cd00189           9 LYYKLGDYDEALEYYEKALELDP----DNADAYYNLAAAYYKLGKYEEALEDYEKALELD--------------PDNAKA   70 (100)
T ss_pred             HHHHHhcHHHHHHHHHHHHhcCC----ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--------------CcchhH
Confidence            34455666   566666544321    122668888899999999999999999877643              134467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          155 WLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       155 ~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +..+...+...|+.++|...++...+..
T Consensus        71 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~   98 (100)
T cd00189          71 YYNLGLAYYKLGKYEEALEAYEKALELD   98 (100)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHccC
Confidence            8888889999999999999999887643

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

Probab=93.18  E-value=0.42  Score=42.56  Aligned_cols=109  Identities=9%  Similarity=-0.099  Sum_probs=60.2

Q ss_pred             ccccccCCHHHHHhhccc-CCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHH
Q 044945           77 LRPSRSGSVRKVFEIMAV-RDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVW  155 (296)
Q Consensus        77 ~~y~k~g~~~~~f~~M~~-~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~  155 (296)
                      ..|...|++.+-++-..+ .++       -.....|..|.+.++++.|.+.++.|.+..  .|.....          ..
T Consensus       110 ~i~~~~~~~~~AL~~l~~~~~l-------E~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~l~q----------La  170 (290)
T PF04733_consen  110 TILFHEGDYEEALKLLHKGGSL-------ELLALAVQILLKMNRPDLAEKELKNMQQID--EDSILTQ----------LA  170 (290)
T ss_dssp             HHHCCCCHHHHHHCCCTTTTCH-------HHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHHHHH----------HH
T ss_pred             HHHHHcCCHHHHHHHHHccCcc-------cHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHH----------HH
Confidence            456677777433333332 233       556678889999999999999999997642  2322111          12


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHH
Q 044945          156 LTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       156 ~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M  204 (296)
                      .+.++.+.-.+++.+|..+|+++.++-++++...+.+        .+++|++++.+-
T Consensus       171 ~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~a  227 (290)
T PF04733_consen  171 EAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEA  227 (290)
T ss_dssp             HHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            2334333333456677777777655433344333333        566666666553

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.

>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=93.11  E-value=1  Score=41.87  Aligned_cols=107  Identities=13%  Similarity=0.025  Sum_probs=71.4

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..+...+++   ..+|+++.+++-       -.+-.|...|...++..+|.+++++.....  |            -|..
T Consensus       177 ~~l~~t~~~~~ai~lle~L~~~~p-------ev~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p------------~d~~  235 (395)
T PF09295_consen  177 KYLSLTQRYDEAIELLEKLRERDP-------EVAVLLARVYLLMNEEVEAIRLLNEALKEN--P------------QDSE  235 (395)
T ss_pred             HHHhhcccHHHHHHHHHHHHhcCC-------cHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--C------------CCHH
Confidence            334445555   888888887765       445567788878888889988888877532  1            2444


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHH
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M  204 (296)
                      ..+.-...|.+.|+.+.|..+.++..+..|.+..+|..|        .++.|...++.+
T Consensus       236 LL~~Qa~fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  236 LLNLQAEFLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            555555566677777777777777777666666666666        556666555554

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

>PRK12370 invasion protein regulator; Provisional

Probab=93.01  E-value=1  Score=43.89  Aligned_cols=103  Identities=9%  Similarity=-0.029  Sum_probs=66.9

Q ss_pred             HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHh
Q 044945           86 RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRV  164 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~  164 (296)
                      ...+++..+.     .| +...|..+-..+...|+.++|.+.|++..+..  |            .+...|..+-..|..
T Consensus       324 ~~~~~~Al~l-----dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~--P------------~~~~a~~~lg~~l~~  384 (553)
T PRK12370        324 KEHAIKATEL-----DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS--P------------ISADIKYYYGWNLFM  384 (553)
T ss_pred             HHHHHHHHhc-----CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHH
Confidence            5555554433     23 33577788788889999999999999988753  3            234456666666777


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          165 HRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       165 ~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .|++++|...+++..+..|.+...+..+        ..++|...+++..+.
T Consensus       385 ~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~  435 (553)
T PRK12370        385 AGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQ  435 (553)
T ss_pred             CCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            7777777777777777666544332221        456676666665543

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

Probab=92.89  E-value=0.88  Score=34.81  Aligned_cols=92  Identities=15%  Similarity=0.157  Sum_probs=69.8

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|+.   .+.|+.....+-    .+...|..+-..|.+.|+.++|...|++....+  |            .+..
T Consensus        25 ~~~~~~~~~~~A~~~~~~~~~~~p----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--p------------~~~~   86 (135)
T TIGR02552        25 YNLYQQGRYDEALKLFQLLAAYDP----YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD--P------------DDPR   86 (135)
T ss_pred             HHHHHcccHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--C------------CChH
Confidence            456677777   666666554322    244778888899999999999999999876643  2            4566


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      +|..+=..|...|+.++|...|+...+..|.+.
T Consensus        87 ~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  119 (135)
T TIGR02552        87 PYFHAAECLLALGEPESALKALDLAIEICGENP  119 (135)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence            666677789999999999999999988776554

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

>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=92.72  E-value=0.49  Score=31.66  Aligned_cols=65  Identities=15%  Similarity=0.203  Sum_probs=50.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHR-NVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g-~~~~A~~~~~~m~~~~~  183 (296)
                      .+|..+=..+.+.|++++|+..|.+-.+..  |            -+...|..+=.+|.+.| ++++|...+++..+..|
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p------------~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELD--P------------NNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--T------------THHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--C------------CCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            567777788889999999999999887753  2            35567777777888888 69999999888776543

...

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

Probab=92.50  E-value=0.26  Score=34.78  Aligned_cols=74  Identities=18%  Similarity=0.288  Sum_probs=48.8

Q ss_pred             cCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh----
Q 044945          117 NGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL----  192 (296)
Q Consensus       117 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l----  192 (296)
                      .|+.++|+.+|+++.+..-.            .|+...|-.+-.+|.+.|+.++|..+++. .+..+.+......+    
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~------------~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~   68 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPT------------NPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCL   68 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCG------------THHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCC------------ChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHH
Confidence            68899999999999875311            12444555588899999999999999988 44333332222222    


Q ss_pred             ----hHHHHHHHHHH
Q 044945          193 ----INEALKDLLER  203 (296)
Q Consensus       193 ----~~~~a~~l~~~  203 (296)
                          .+++|.+.+++
T Consensus        69 ~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   69 LKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHTT-HHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHhc
Confidence                67788777653

>PRK11189 lipoprotein NlpI; Provisional

Probab=92.42  E-value=2.3  Score=37.81  Aligned_cols=89  Identities=18%  Similarity=0.063  Sum_probs=73.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|.-+=..|.+.|+.++|...|.+..+..  |            .+...|+.+=..|...|++++|...|+...+..|.
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~--P------------~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~  130 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALR--P------------DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT  130 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--C------------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            457777778899999999999999887742  2            35788999999999999999999999999998888


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +..+|..+        ..++|.+.|++-.+.
T Consensus       131 ~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~  161 (296)
T PRK11189        131 YNYAYLNRGIALYYGGRYELAQDDLLAFYQD  161 (296)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            77777665        678888888776653

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

Probab=92.31  E-value=1.5  Score=40.13  Aligned_cols=80  Identities=15%  Similarity=0.127  Sum_probs=48.1

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      ..+...|++++|+++|++..+..  |+            +...|..+-.+|.+.|++++|...+++..+..|.+...|..
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~--P~------------~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~   75 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD--PN------------NAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLR   75 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--CC------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHH
Confidence            44567899999999999988743  32            33445555555556666666666666665555544444444


Q ss_pred             h--------hHHHHHHHHHHHH
Q 044945          192 L--------INEALKDLLERME  205 (296)
Q Consensus       192 l--------~~~~a~~l~~~M~  205 (296)
                      +        .+++|...|++..
T Consensus        76 lg~~~~~lg~~~eA~~~~~~al   97 (356)
T PLN03088         76 KGTACMKLEEYQTAKAALEKGA   97 (356)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHH
Confidence            4        3455555554444

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

Probab=92.30  E-value=2.3  Score=36.78  Aligned_cols=90  Identities=17%  Similarity=0.072  Sum_probs=71.4

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      .-+..+....++|++.+|...|++-..-.              ++|...||.+=-+|-+.|+.++|..-+.+..+..+.+
T Consensus       102 ll~~~gk~~~~~g~~~~A~~~~rkA~~l~--------------p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~  167 (257)
T COG5010         102 LLAAQGKNQIRNGNFGEAVSVLRKAARLA--------------PTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNE  167 (257)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHhccC--------------CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccCC
Confidence            44557888899999999999999986632              4899999999999999999999999999998876654


Q ss_pred             cchhHHh--------hHHHHHHHHHHHHhCCC
Q 044945          186 TGAYVIL--------INEALKDLLERMEQEGY  209 (296)
Q Consensus       186 ~~~y~~l--------~~~~a~~l~~~M~~~g~  209 (296)
                      ...++-+        ..+.|..++..-...+-
T Consensus       168 p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~  199 (257)
T COG5010         168 PSIANNLGMSLLLRGDLEDAETLLLPAYLSPA  199 (257)
T ss_pred             chhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            4444443        67888888876665544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=92.24  E-value=1.9  Score=45.91  Aligned_cols=65  Identities=20%  Similarity=0.169  Sum_probs=51.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCcc
Q 044945          149 GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKE  215 (296)
Q Consensus       149 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t  215 (296)
                      +++...+..|-..|.+.|+.++|...+++..+..|.+...+..+        ..++|.+.++...+  ..|+...
T Consensus       600 p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~--~~p~~~~  672 (1157)
T PRK11447        600 PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPA--TANDSLN  672 (1157)
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc--cCCCChH
Confidence            34556777888899999999999999999999888887776666        68999998886654  3555433

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

Probab=92.15  E-value=1.7  Score=38.91  Aligned_cols=43  Identities=14%  Similarity=0.173  Sum_probs=20.3

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHH
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLM  132 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~  132 (296)
                      -++|-+|.+.+-+|+    -+--+|=+-|-+.|.+|+|+.+...+.+
T Consensus        55 vdlF~e~l~~d~~t~----e~~ltLGnLfRsRGEvDRAIRiHQ~L~~   97 (389)
T COG2956          55 VDLFLEMLQEDPETF----EAHLTLGNLFRSRGEVDRAIRIHQTLLE   97 (389)
T ss_pred             HHHHHHHHhcCchhh----HHHHHHHHHHHhcchHHHHHHHHHHHhc
Confidence            455555554443111    2222333444555666666666555544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=92.09  E-value=2.5  Score=34.10  Aligned_cols=76  Identities=11%  Similarity=0.106  Sum_probs=59.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ..|..+-..|.+.|+.++|...|++..+.+-.|            ++ ...|..+-..|.+.|++++|...+++..+..|
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  103 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDP------------NDRSYILYNMGIIYASNGEHDKALEYYHQALELNP  103 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcc------------chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            457778888899999999999999987643221            22 35788888899999999999999999988777


Q ss_pred             CCcchhHHh
Q 044945          184 NNTGAYVIL  192 (296)
Q Consensus       184 ~~~~~y~~l  192 (296)
                      .+...+..+
T Consensus       104 ~~~~~~~~l  112 (172)
T PRK02603        104 KQPSALNNI  112 (172)
T ss_pred             ccHHHHHHH
Confidence            665555433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=91.92  E-value=3  Score=42.66  Aligned_cols=43  Identities=14%  Similarity=0.066  Sum_probs=28.9

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          149 GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       149 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      .|+...+-.++..+...++..+|...++++.+..|.+...+..
T Consensus       166 dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~  208 (822)
T PRK14574        166 DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKN  208 (822)
T ss_pred             CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            5666666555555555666666999999998888766644433

>TIGR00540 hemY_coli hemY protein

Probab=91.83  E-value=2.5  Score=39.49  Aligned_cols=102  Identities=10%  Similarity=-0.064  Sum_probs=63.9

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +...+-.+...+.+.|+.++|.+++++..+..  ||...          ........-.....++.+.+.+.++...+..
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~----------~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~  329 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRA----------ISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV  329 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCccc----------chhHHHHHhhhcCCCChHHHHHHHHHHHHhC
Confidence            33788889999999999999999999988753  32210          0001122222233466777788887777766


Q ss_pred             CCCc--chhHHh--------hHHHHHHHHHHHHhCCCcCCCccc
Q 044945          183 PNNT--GAYVIL--------INEALKDLLERMEQEGYVPDTKEV  216 (296)
Q Consensus       183 ~~~~--~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~  216 (296)
                      |.|.  ....++        .+++|.+.|+.-......||....
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~  373 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDL  373 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHH
Confidence            6555  333333        678888888743343445665443

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.

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

Probab=91.33  E-value=3.1  Score=44.12  Aligned_cols=130  Identities=14%  Similarity=0.058  Sum_probs=87.5

Q ss_pred             cccccccCCHHHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHc-CCccChhhhhhhhcc------
Q 044945           76 GLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMA-KIKARHAPFSRIMHA------  148 (296)
Q Consensus        76 i~~y~k~g~~~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~-g~~pd~~ty~~li~~------  148 (296)
                      -++|+-.-.+.++|++-..- +..|    ..|..|..-|.+.+..++|-++|++|.+. |  -....|......      
T Consensus      1507 En~yG~eesl~kVFeRAcqy-cd~~----~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne 1579 (1710)
T KOG1070|consen 1507 ENAYGTEESLKKVFERACQY-CDAY----TVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNE 1579 (1710)
T ss_pred             HHhhCcHHHHHHHHHHHHHh-cchH----HHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccH
Confidence            45666433347788776542 1001    45888888888888888888888888773 3  122222222222      


Q ss_pred             --------------CC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHH
Q 044945          149 --------------GS---TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLER  203 (296)
Q Consensus       149 --------------~p---~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~  203 (296)
                                    -|   .+..-.-....=.++|+.+.+..+|+......|.....|+..        ..+.+.++|++
T Consensus      1580 ~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeR 1659 (1710)
T KOG1070|consen 1580 AEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFER 1659 (1710)
T ss_pred             HHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHH
Confidence                          22   233344445566788999999999999988777778888887        34778899999


Q ss_pred             HHhCCCcCC
Q 044945          204 MEQEGYVPD  212 (296)
Q Consensus       204 M~~~g~~p~  212 (296)
                      ....++.|-
T Consensus      1660 vi~l~l~~k 1668 (1710)
T KOG1070|consen 1660 VIELKLSIK 1668 (1710)
T ss_pred             HHhcCCChh
Confidence            999988886

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

Probab=91.11  E-value=0.53  Score=31.18  Aligned_cols=48  Identities=19%  Similarity=0.180  Sum_probs=39.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          159 LSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       159 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      -..+.+.|++++|...|+...+..|.+...|..+        ..++|...|++..+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3467889999999999999999888777777666        78899899988764

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

Probab=90.87  E-value=1.6  Score=34.13  Aligned_cols=62  Identities=15%  Similarity=0.165  Sum_probs=51.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      -....++..+...|+.++|.++........              +-|...|-.||.+|...|+..+|.++|+.+.+
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d--------------P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALD--------------PYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS--------------TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC--------------CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            557778888999999999999999987743              35788999999999999999999999999864

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

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

Probab=90.86  E-value=5.6  Score=33.13  Aligned_cols=98  Identities=9%  Similarity=0.007  Sum_probs=73.3

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHH-HhccCC--hhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAG-CGQNGP--FDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~-~~~~g~--~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      -..|...|+.   ...|++-.+.     .| |...|..+-.. |.+.|+  .++|.+++++-.+..              
T Consensus        80 g~~~~~~g~~~~A~~a~~~Al~l-----~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d--------------  140 (198)
T PRK10370         80 GEYYLWRNDYDNALLAYRQALQL-----RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALD--------------  140 (198)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC--------------
Confidence            3567788888   5566554432     23 33567777666 467777  599999999998864              


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          149 GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       149 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      +-+..++..|=..+.+.|++++|...|+++.+..|++..-+.++
T Consensus       141 P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~~~r~~~i  184 (198)
T PRK10370        141 ANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPRVNRTQLV  184 (198)
T ss_pred             CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCccHHHHH
Confidence            23667888888899999999999999999999888777666655

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=90.51  E-value=5.4  Score=31.97  Aligned_cols=77  Identities=9%  Similarity=-0.026  Sum_probs=58.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+...+-..|++++|+..|++-....  |+.         .....+|..+=..|.+.|+.++|...++...+..|.
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~--~~~---------~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~  104 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLE--IDP---------YDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF  104 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcc--ccc---------hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC
Confidence            567888888889999999999999987642  211         012347788888999999999999999998877665


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      ...++..+
T Consensus       105 ~~~~~~~l  112 (168)
T CHL00033        105 LPQALNNM  112 (168)
T ss_pred             cHHHHHHH
Confidence            55544444

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

Probab=90.32  E-value=4.4  Score=34.64  Aligned_cols=154  Identities=16%  Similarity=0.063  Sum_probs=98.1

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          107 RNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       107 ~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      .--|--+|-+.|+...|.+-+++-.+..              +-+.-+|.++-..|-+.|..+.|.+-|++-.+..|.|-
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D--------------Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~G  103 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD--------------PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNG  103 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--------------cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCcc
Confidence            4556679999999999999999987742              23567899999999999999999999999988777554


Q ss_pred             chhHHh--------hHHHHHHHHHHHHhCCC---cCCCccceeec--chhhhhhhhhhhhHHHHHHHHhhcCCCCCeEEE
Q 044945          187 GAYVIL--------INEALKDLLERMEQEGY---VPDTKEVLLDV--EEEQKKNILYYHGERLALVFGIISTPDGTTIRV  253 (296)
Q Consensus       187 ~~y~~l--------~~~~a~~l~~~M~~~g~---~p~~~t~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  253 (296)
                      ..-|--        ..++|...|++=...-.   .+++..-...|  ..+....    ..+.+..+..+....+.+.+.+
T Consensus       104 dVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~----A~~~l~raL~~dp~~~~~~l~~  179 (250)
T COG3063         104 DVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQ----AEEYLKRALELDPQFPPALLEL  179 (250)
T ss_pred             chhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchh----HHHHHHHHHHhCcCCChHHHHH
Confidence            332222        78999988887665422   22222111111  1111111    1111112222211112222233


Q ss_pred             EecccCccchhhHHHHHhhhhcceE
Q 044945          254 IKNLPSLRGLRHGNKVVSKIVHREM  278 (296)
Q Consensus       254 i~~~~k~g~~~~A~~~f~~m~~r~~  278 (296)
                      -+..-+.|+.-.|..+++....++.
T Consensus       180 a~~~~~~~~y~~Ar~~~~~~~~~~~  204 (250)
T COG3063         180 ARLHYKAGDYAPARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHhcccchHHHHHHHHHHhccc
Confidence            5667789999999999988777664

>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=90.28  E-value=1.3  Score=30.34  Aligned_cols=68  Identities=16%  Similarity=0.118  Sum_probs=51.7

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      .+|+.+-..|.+.|+.++|++.|++-.+. .+       .+-...|+ ..+++-+=..|...|+.++|.+.+++-.+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~-~~-------~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDI-EE-------QLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH-HH-------HTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HH-------HHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            46888999999999999999999998753 11       00000344 56788888999999999999999997653

...

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

Probab=89.48  E-value=0.55  Score=43.98  Aligned_cols=72  Identities=10%  Similarity=0.053  Sum_probs=56.2

Q ss_pred             cccccccccCCHHHHHhhccc---CCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           74 VDGLRPSRSGSVRKVFEIMAV---RDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        74 ~~i~~y~k~g~~~~~f~~M~~---~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      +.|..|-+.|...++++-...   .|+   -||..|+|.||+.+.+.|++..|.++..+|...+...+..|+.--+.+
T Consensus       108 a~vR~~l~~~~~~~~l~~L~n~~~yGi---F~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~  182 (429)
T PF10037_consen  108 ALVRQCLELGAEDELLELLKNRLQYGI---FPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYS  182 (429)
T ss_pred             HHHHHHHhcCCHHHHHHHHhChhhccc---CCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHH
Confidence            456777788877555555544   577   999999999999999999999999999999988876666665544443

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 [].

>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=89.06  E-value=2.2  Score=39.67  Aligned_cols=111  Identities=10%  Similarity=0.095  Sum_probs=72.5

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcch
Q 044945          109 SITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGA  188 (296)
Q Consensus       109 ~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  188 (296)
                      +|+..+...++.+.|.++|+++.+..               |++  +..|...|...++-.+|.+++++..+..|.+   
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~---------------pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d---  233 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD---------------PEV--AVLLARVYLLMNEEVEAIRLLNEALKENPQD---  233 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC---------------CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCC---
Confidence            45556666789999999999988753               443  3346777777888889999988888665545   


Q ss_pred             hHHh-----------hHHHHHHHHHHHHhCCCcCCCccceeecchhhhhhhhhhhhHHHHHHHHhhcCCCCCeEEEEecc
Q 044945          189 YVIL-----------INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNL  257 (296)
Q Consensus       189 y~~l-----------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~~~  257 (296)
                      +.+|           ..+.|.++.++..+.  .|+....+.                                 .+...|
T Consensus       234 ~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~---------------------------------~La~~Y  278 (395)
T PF09295_consen  234 SELLNLQAEFLLSKKKYELALEIAKKAVEL--SPSEFETWY---------------------------------QLAECY  278 (395)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHH---------------------------------HHHHHH
Confidence            3333           345565555555432  444321110                                 114567


Q ss_pred             cCccchhhHHHHHhhhh
Q 044945          258 PSLRGLRHGNKVVSKIV  274 (296)
Q Consensus       258 ~k~g~~~~A~~~f~~m~  274 (296)
                      .+.|+.+.|...++.++
T Consensus       279 i~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  279 IQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHhcCc
Confidence            78888888888888877

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

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

Probab=88.76  E-value=3.3  Score=37.95  Aligned_cols=96  Identities=11%  Similarity=0.066  Sum_probs=72.0

Q ss_pred             ccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHH
Q 044945           79 PSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVW  155 (296)
Q Consensus        79 y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~  155 (296)
                      +.+.|++   .+.|++..+.+-    -+...|..+-.+|.+.|++++|+..+++..+..  |            .+...|
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~P----~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~--P------------~~~~a~   73 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLDP----NNAELYADRAQANIKLGNFTEAVADANKAIELD--P------------SLAKAY   73 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--c------------CCHHHH
Confidence            3445666   556666554321    123578888889999999999999999987743  2            356678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          156 LTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       156 ~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      ..+-.+|...|++++|...|++..+..|.+......+
T Consensus        74 ~~lg~~~~~lg~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         74 LRKGTACMKLEEYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            8888899999999999999999999888776555444

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

Probab=88.57  E-value=2.8  Score=39.32  Aligned_cols=44  Identities=16%  Similarity=0.237  Sum_probs=37.1

Q ss_pred             CCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          149 GSTENVWLTLLSACR-VHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       149 ~p~~~~~~~Li~~~~-~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      .|+.+-|-.+|..|. +.|++..|..+++....+-|.|......|
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkfl  700 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFL  700 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHH
Confidence            899999999987765 67999999999999988777777666555

>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=88.47  E-value=2.6  Score=32.92  Aligned_cols=102  Identities=16%  Similarity=0.186  Sum_probs=65.0

Q ss_pred             HhccCChhHHHHHHHHHHH--cC-CccChhh--hhhhhcc---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          114 CGQNGPFDEGLKFFGQMLM--AK-IKARHAP--FSRIMHA---GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       114 ~~~~g~~~~A~~l~~~M~~--~g-~~pd~~t--y~~li~~---~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      ....|+.+.+.+.+.+...  .| +-|+...  |..-...   .--......++..+...|++++|..+.+.+....|.|
T Consensus        16 ~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~~~W~~~~r~~l~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~   95 (146)
T PF03704_consen   16 AARAGDPEEAIELLEEALALYRGDFLPDLDDEEWVEPERERLRELYLDALERLAEALLEAGDYEEALRLLQRALALDPYD   95 (146)
T ss_dssp             HHHTT-HHHHHHHHHHHHTT--SSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHCCCHHHHHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCC
Confidence            4567889999999999876  23 3333222  1111111   2234567778888889999999999999999999988


Q ss_pred             cchhHHh--------hHHHHHHHHHHHH-----hCCCcCCCcc
Q 044945          186 TGAYVIL--------INEALKDLLERME-----QEGYVPDTKE  215 (296)
Q Consensus       186 ~~~y~~l--------~~~~a~~l~~~M~-----~~g~~p~~~t  215 (296)
                      ...|..+        ...+|.+.++++.     +.|+.|+..+
T Consensus        96 E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   96 EEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            8888777        5677777776653     4699888544

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

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

Probab=88.04  E-value=15  Score=33.90  Aligned_cols=233  Identities=11%  Similarity=0.072  Sum_probs=129.0

Q ss_pred             HHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHH
Q 044945           27 MDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVF   89 (296)
Q Consensus        27 ~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f   89 (296)
                      +.+|.++..+=.+.+-.              -|....+..+..+........+.+..++.   -......|+.   +.-.
T Consensus       100 ~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltr---arlll~~~d~~aA~~~v  176 (400)
T COG3071         100 FQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTR---ARLLLNRRDYPAARENV  176 (400)
T ss_pred             HHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHH---HHHHHhCCCchhHHHHH
Confidence            77777777665554421              33444455555554444333333333211   1223344544   2222


Q ss_pred             ---hhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccC-------hhhhhhhhcc-----------
Q 044945           90 ---EIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKAR-------HAPFSRIMHA-----------  148 (296)
Q Consensus        90 ---~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd-------~~ty~~li~~-----------  148 (296)
                         .+|..+..       ..-......|.+.|.......++..|.+.|.--|       ..+|..++.-           
T Consensus       177 ~~ll~~~pr~~-------~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~  249 (400)
T COG3071         177 DQLLEMTPRHP-------EVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLK  249 (400)
T ss_pred             HHHHHhCcCCh-------HHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHH
Confidence               23444444       6788899999999999999999999999887544       3466666655           


Q ss_pred             ----------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh---hH---HHHHHH-HHHHHhCCCcC
Q 044945          149 ----------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL---IN---EALKDL-LERMEQEGYVP  211 (296)
Q Consensus       149 ----------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l---~~---~~a~~l-~~~M~~~g~~p  211 (296)
                                +.+...-.+++.-+..+|+-++|.++.++-.++.- |..-+..+   ..   +.-.+. -......+-.|
T Consensus       250 ~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~-D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p  328 (400)
T COG3071         250 TWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQW-DPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP  328 (400)
T ss_pred             HHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhcc-ChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCCh
Confidence                      44566666788899999999999999888776542 22122222   11   222222 22345566666


Q ss_pred             CCccceeecchhhhhhhhh-hhhHHHHHHHHhhcCCCCCeEEEEecccCccchhhHHHHHhhhh
Q 044945          212 DTKEVLLDVEEEQKKNILY-YHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIV  274 (296)
Q Consensus       212 ~~~t~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ii~~~~k~g~~~~A~~~f~~m~  274 (296)
                      +....   ++.....+..+ ..++.+..+... .+...+....-+.|.+.|+.++|..++.+-.
T Consensus       329 ~L~~t---LG~L~~k~~~w~kA~~~leaAl~~-~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         329 LLLST---LGRLALKNKLWGKASEALEAALKL-RPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             hHHHH---HHHHHHHhhHHHHHHHHHHHHHhc-CCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            43222   23322222211 122222222211 2222222222567889999999998887644

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=87.98  E-value=8.7  Score=33.66  Aligned_cols=92  Identities=10%  Similarity=0.017  Sum_probs=62.7

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|+.-+.-+.+.|+.++|...|+...+.-  |+.. |      .|+  .+--|=..|...|++++|...|+.+.+.-|.
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~-~------a~~--A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~  212 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDST-Y------QPN--ANYWLGQLNYNKGKKDDAAYYFASVVKNYPK  212 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCc-c------hHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            347776666667799999999999988752  3210 0      122  3345566888999999999999999887654


Q ss_pred             CcchhHHh-----------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL-----------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l-----------~~~~a~~l~~~M~~~  207 (296)
                      +......+           ..++|.+.+++..+.
T Consensus       213 s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        213 SPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             CcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            43333322           567888888777654

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

Probab=87.82  E-value=2.8  Score=37.03  Aligned_cols=104  Identities=16%  Similarity=0.137  Sum_probs=62.4

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhc
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVH  165 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~  165 (296)
                      +.+|.+-++.+-.  ..++....+++.- ...++.+.|.++|+...+. +             ..+...|...|+.+.+.
T Consensus        21 R~vF~~a~~~~~~--~~~vy~~~A~~E~-~~~~d~~~A~~Ife~glk~-f-------------~~~~~~~~~Y~~~l~~~   83 (280)
T PF05843_consen   21 RKVFKRARKDKRC--TYHVYVAYALMEY-YCNKDPKRARKIFERGLKK-F-------------PSDPDFWLEYLDFLIKL   83 (280)
T ss_dssp             HHHHHHHHCCCCS---THHHHHHHHHHH-HTCS-HHHHHHHHHHHHHH-H-------------TT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCC--CHHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHH-C-------------CCCHHHHHHHHHHHHHh
Confidence            6777776654431  2333333344332 2245555677777776653 1             35778899999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCc---chhHHh--------hHHHHHHHHHHHHh
Q 044945          166 RNVELAEKVADMILMIEPNNT---GAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       166 g~~~~A~~~~~~m~~~~~~~~---~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      |+.+.|..+|++..+.-+.+.   ..|...        ..+.+.++..++.+
T Consensus        84 ~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   84 NDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             T-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999876533222   234433        35556666666655

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.

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

Probab=87.73  E-value=14  Score=36.38  Aligned_cols=177  Identities=12%  Similarity=0.040  Sum_probs=92.3

Q ss_pred             CCC-eeehHHHHHhh---cccHHHHHHHHHHhHhcccC-CCccccHHHHHhcCCCccCCce---------ehhhhhcccc
Q 044945           10 RNE-NVELSNGLAGC---NEFMDKANGITDRFEERAVS-IGHYADLDGISDQLPSSSGGRQ---------VDIHFDGGVD   75 (296)
Q Consensus        10 ~pd-~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~-~g~~~~~~~~~~~m~~~~~~~~---------~~~~~~~~~~   75 (296)
                      +|. .|.|+++=+.+   |. +-.|++-|++-..-+.. ...+-+.-.+..+++....+-.         ....+.++-+
T Consensus       214 qp~fAiawsnLg~~f~~~Ge-i~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNl  292 (966)
T KOG4626|consen  214 QPCFAIAWSNLGCVFNAQGE-IWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNL  292 (966)
T ss_pred             CCceeeeehhcchHHhhcch-HHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccce
Confidence            443 67777654433   54 77777777776554321 1111111222333333221110         0111333444


Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCc-eeeHHHHHHHHhccCChhHHHHHHHHHHHcC-----------------
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDY-AISRNSITAGCGQNGPFDEGLKFFGQMLMAK-----------------  134 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~-~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g-----------------  134 (296)
                      -..|-..|.+   -+.+++-.+.     .|+ ...||-|-.++-..|++.+|++.+..-....                 
T Consensus       293 a~iYyeqG~ldlAI~~Ykral~~-----~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~  367 (966)
T KOG4626|consen  293 ACIYYEQGLLDLAIDTYKRALEL-----QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQ  367 (966)
T ss_pred             EEEEeccccHHHHHHHHHHHHhc-----CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Confidence            5678888888   4445544332     332 3579999999999999999999998765421                 


Q ss_pred             --CccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          135 --IKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       135 --~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                        +.+-..-|-.-+...|+ ...+|-|-..|-..|++++|...+++..+..|.-..+|+-+
T Consensus       368 ~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~Nm  428 (966)
T KOG4626|consen  368 GKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNM  428 (966)
T ss_pred             ccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhc
Confidence              11222222222222333 23455555566666666666666666655555444455544

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

Probab=87.63  E-value=3.6  Score=40.67  Aligned_cols=100  Identities=11%  Similarity=0.032  Sum_probs=66.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc------------------------------------
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA------------------------------------  148 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~------------------------------------  148 (296)
                      ..|--+|.+|+..|+..+|..+..+-.+  -+||..-|..+-+.                                    
T Consensus       425 emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs  502 (777)
T KOG1128|consen  425 EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFS  502 (777)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHH
Confidence            4466677777777777777777777666  45677777777666                                    


Q ss_pred             ----------------------------------------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          149 ----------------------------------------------GS-TENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       149 ----------------------------------------------~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                                                                    .| +...||.|=.+|.+.|.-.+|...+.+-.+.
T Consensus       503 ~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKc  582 (777)
T KOG1128|consen  503 EADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKC  582 (777)
T ss_pred             HHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhc
Confidence                                                          44 4567888888888888888888888777664


Q ss_pred             CCCCc---chhHHh-----hHHHHHHHHHHHHh
Q 044945          182 EPNNT---GAYVIL-----INEALKDLLERMEQ  206 (296)
Q Consensus       182 ~~~~~---~~y~~l-----~~~~a~~l~~~M~~  206 (296)
                      .-.+.   --|..+     .+++|.+...+|..
T Consensus       583 n~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  583 NYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             CCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            32121   122222     56777777766654

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

Probab=87.41  E-value=1.9  Score=40.39  Aligned_cols=79  Identities=11%  Similarity=0.160  Sum_probs=65.0

Q ss_pred             HhccCChhHHHHHHHHHHHcC-Cc-cChhhhhhhhcc------------------CCCHHHHHHHHHHHHhcCCHHHHHH
Q 044945          114 CGQNGPFDEGLKFFGQMLMAK-IK-ARHAPFSRIMHA------------------GSTENVWLTLLSACRVHRNVELAEK  173 (296)
Q Consensus       114 ~~~~g~~~~A~~l~~~M~~~g-~~-pd~~ty~~li~~------------------~p~~~~~~~Li~~~~~~g~~~~A~~  173 (296)
                      +-...++|+|+.+|++..+.. .+ -|.-||+-++-.                  +--..|+.++=+-|+-.+.-|.|..
T Consensus       272 ~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~  351 (559)
T KOG1155|consen  272 SYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVM  351 (559)
T ss_pred             HhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHH
Confidence            345689999999999998862 11 277888887766                  3345688888899999999999999


Q ss_pred             HHHHHHhcCCCCcchhHHh
Q 044945          174 VADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       174 ~~~~m~~~~~~~~~~y~~l  192 (296)
                      .|+.-.+.+|.-...|+++
T Consensus       352 YFkRALkLNp~~~~aWTLm  370 (559)
T KOG1155|consen  352 YFKRALKLNPKYLSAWTLM  370 (559)
T ss_pred             HHHHHHhcCcchhHHHHHh
Confidence            9999999988888999999

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

Probab=87.36  E-value=3.8  Score=39.55  Aligned_cols=65  Identities=18%  Similarity=0.083  Sum_probs=44.6

Q ss_pred             HHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          113 GCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN-VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       113 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~-~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      .+...|+.++|++.+.+=...               .+|.. ..-..-..|.+.|+.++|+.++..+.+++|.|...|..
T Consensus        13 il~e~g~~~~AL~~L~~~~~~---------------I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~   77 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKNEKQ---------------ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRG   77 (517)
T ss_pred             HHHHCCCHHHHHHHHHhhhhh---------------CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            346789999999998663222               23433 33445556677788888888888888877777766666


Q ss_pred             h
Q 044945          192 L  192 (296)
Q Consensus       192 l  192 (296)
                      +
T Consensus        78 L   78 (517)
T PF12569_consen   78 L   78 (517)
T ss_pred             H
Confidence            6

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=87.20  E-value=7.3  Score=36.75  Aligned_cols=68  Identities=13%  Similarity=0.107  Sum_probs=47.2

Q ss_pred             HHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcch
Q 044945          110 ITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGA  188 (296)
Q Consensus       110 li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  188 (296)
                      ...-+.+.++..+|.+.++.+...               .|+ ...+-.+=.+|.+.|+..+|.++++.-....|.|...
T Consensus       346 ~~~i~~~~nk~~~A~e~~~kal~l---------------~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~  410 (484)
T COG4783         346 AGDILLEANKAKEAIERLKKALAL---------------DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNG  410 (484)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHhc---------------CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchH
Confidence            345555666666666666655543               455 4555566677888888888888888887777888888


Q ss_pred             hHHh
Q 044945          189 YVIL  192 (296)
Q Consensus       189 y~~l  192 (296)
                      |..|
T Consensus       411 w~~L  414 (484)
T COG4783         411 WDLL  414 (484)
T ss_pred             HHHH
Confidence            8888

>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=87.13  E-value=0.87  Score=30.27  Aligned_cols=45  Identities=22%  Similarity=0.331  Sum_probs=36.2

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          163 RVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       163 ~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .+.|++++|..+|+...+..|.|...+..+        .+++|.+++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            467999999999999999888777666555        789998888877654

...

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

Probab=86.59  E-value=2  Score=37.86  Aligned_cols=44  Identities=7%  Similarity=-0.065  Sum_probs=22.4

Q ss_pred             eeHHHHHHHHhcc-----CChhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945          105 ISRNSITAGCGQN-----GPFDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus       105 ~t~n~li~~~~~~-----g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      .+|-+.+.-+...     +.++-....++.|.+.|++-|..+|+.||+.
T Consensus        68 ~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~Llnv  116 (406)
T KOG3941|consen   68 DSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNV  116 (406)
T ss_pred             HHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHh
Confidence            4444444444332     3444444455555555555555555555555

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

Probab=86.11  E-value=12  Score=38.28  Aligned_cols=123  Identities=15%  Similarity=0.168  Sum_probs=93.3

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENV  154 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~  154 (296)
                      .++.+|++   ..||.+.++...    -+.-+|--+-++|...|++..|.++|+.-.+.-.+            .-++.+
T Consensus       655 VLA~kg~~~~A~dIFsqVrEa~~----~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~------------~~~~~v  718 (1018)
T KOG2002|consen  655 VLAEKGRFSEARDIFSQVREATS----DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYK------------KNRSEV  718 (1018)
T ss_pred             hhhhccCchHHHHHHHHHHHHHh----hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcc------------cCCHHH
Confidence            45677777   899998886321    12267888899999999999999999886654332            457778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-cchhHHh--------------------------hHHHHHHHHHHHHhC
Q 044945          155 WLTLLSACRVHRNVELAEKVADMILMIEPNN-TGAYVIL--------------------------INEALKDLLERMEQE  207 (296)
Q Consensus       155 ~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~y~~l--------------------------~~~~a~~l~~~M~~~  207 (296)
                      -+.|=.++-++|.+.+|...+..-....|.| ++-+|..                          ..+.|.++|.+|...
T Consensus       719 l~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~  798 (1018)
T KOG2002|consen  719 LHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKN  798 (1018)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8888999999999999999888877766654 4556655                          568899999999988


Q ss_pred             CCcCCCccc
Q 044945          208 GYVPDTKEV  216 (296)
Q Consensus       208 g~~p~~~t~  216 (296)
                      +-.+-..+.
T Consensus       799 ~d~r~~~~~  807 (1018)
T KOG2002|consen  799 GDKRISKTV  807 (1018)
T ss_pred             CCCCCCHHH
Confidence            776544443

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

Probab=86.09  E-value=14  Score=34.05  Aligned_cols=99  Identities=13%  Similarity=0.070  Sum_probs=74.3

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-----------------CCCHHHHHHHHHHHHhcCCH
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-----------------GSTENVWLTLLSACRVHRNV  168 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-----------------~p~~~~~~~Li~~~~~~g~~  168 (296)
                      .=-+++.=+.+.|+.++|.++..+-.+++..|...++-.=+..                 +-+...+.+|=..|.+++.|
T Consensus       265 l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w  344 (400)
T COG3071         265 LVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLW  344 (400)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHH
Confidence            3456777889999999999999999999998886666555544                 33456778888888999999


Q ss_pred             HHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHH
Q 044945          169 ELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERME  205 (296)
Q Consensus       169 ~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~  205 (296)
                      .+|...|+.-.+..+ +..+|+.+        ..++|.+.+++=.
T Consensus       345 ~kA~~~leaAl~~~~-s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         345 GKASEALEAALKLRP-SASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHHHHhcCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            999999997665443 66677777        4566666655544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=86.07  E-value=2.8  Score=28.19  Aligned_cols=49  Identities=18%  Similarity=0.169  Sum_probs=40.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCC
Q 044945          160 SACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEG  208 (296)
Q Consensus       160 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g  208 (296)
                      ..|.+.+++++|.++++.+.+..|.+...|...        .+++|...|++..+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            578899999999999999999888777666555        7788888888877543

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

Probab=85.86  E-value=3.4  Score=36.50  Aligned_cols=26  Identities=27%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             hHHHHHHHHHHHHhCCCcCCCcccee
Q 044945          193 INEALKDLLERMEQEGYVPDTKEVLL  218 (296)
Q Consensus       193 ~~~~a~~l~~~M~~~g~~p~~~t~~~  218 (296)
                      .-+.+.+++++|...|+.||..+-..
T Consensus       138 QQ~C~I~vLeqME~hGVmPdkE~e~~  163 (406)
T KOG3941|consen  138 QQNCAIKVLEQMEWHGVMPDKEIEDI  163 (406)
T ss_pred             hhhHHHHHHHHHHHcCCCCchHHHHH
Confidence            34678899999999999999655433

>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=85.54  E-value=4.4  Score=26.86  Aligned_cols=53  Identities=23%  Similarity=0.277  Sum_probs=41.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh---------hHHHHHHHHHH
Q 044945          151 TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL---------INEALKDLLER  203 (296)
Q Consensus       151 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l---------~~~~a~~l~~~  203 (296)
                      +..+|..+=..+...|++++|...|++..+..|.+...|..+         ..++|.+.+++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            456788888899999999999999999999888777666665         24566555544

...

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

Probab=85.42  E-value=9.9  Score=34.18  Aligned_cols=86  Identities=8%  Similarity=-0.024  Sum_probs=61.9

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          107 RNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       107 ~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      ...+-..+...|+.++|.+.+++..+..  |            .+...+..+-..|...|++++|...+++..+..+.+.
T Consensus       117 ~~~~a~~~~~~G~~~~A~~~~~~al~~~--p------------~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~  182 (355)
T cd05804         117 LGMLAFGLEEAGQYDRAEEAARRALELN--P------------DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSS  182 (355)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC--C------------CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCc
Confidence            3445567888999999999999988753  2            3456677888888999999999999998876544221


Q ss_pred             c----hhHHh--------hHHHHHHHHHHHHh
Q 044945          187 G----AYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       187 ~----~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .    .|..+        ..++|..++++...
T Consensus       183 ~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         183 MLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             chhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            1    12222        67888888888753

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.

>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=84.97  E-value=16  Score=32.45  Aligned_cols=113  Identities=18%  Similarity=0.157  Sum_probs=70.4

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCceee---HHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccC
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYAIS---RNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAG  149 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t---~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  149 (296)
                      +..|.+-+++   .+.++.|++.+     .|.+.   ..++|+-+.-.....+|.-+|+++.+. +             .
T Consensus       138 Vqi~L~~~R~dlA~k~l~~~~~~~-----eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~-------------~  198 (290)
T PF04733_consen  138 VQILLKMNRPDLAEKELKNMQQID-----EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-F-------------G  198 (290)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHCCS-----CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-----CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-c-------------C
Confidence            4566777777   88888887543     22222   333444443345688999999997653 2             2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh---------hHHHHHHHHHHHHhC
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL---------INEALKDLLERMEQE  207 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l---------~~~~a~~l~~~M~~~  207 (296)
                      +++.+.|.+.-++...|++++|+.++++..+..|.|..+..-+         ..+.+.+++.+++..
T Consensus       199 ~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  199 STPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             -SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            5677788888888889999999999888777666544332222         124566777777653

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.

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

Probab=84.73  E-value=17  Score=35.12  Aligned_cols=100  Identities=7%  Similarity=-0.042  Sum_probs=52.2

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhh-hhccCCCHHHH--HHHHHHH
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSR-IMHAGSTENVW--LTLLSAC  162 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~-li~~~p~~~~~--~~Li~~~  162 (296)
                      ......+..+|+    |  .+|+.|-.-|....+.+-..+++.+.....-......... --.-.|....|  ..|-.-|
T Consensus       131 ~~yl~~~l~Kgv----P--slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhy  204 (517)
T PF12569_consen  131 DEYLRPQLRKGV----P--SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHY  204 (517)
T ss_pred             HHHHHHHHhcCC----c--hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHH
Confidence            344444556777    1  3578888888877777777777777654311000000000 00003444344  3334445


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          163 RVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       163 ~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      -..|+.++|....++-.+..|..+..|.+
T Consensus       205 d~~g~~~~Al~~Id~aI~htPt~~ely~~  233 (517)
T PF12569_consen  205 DYLGDYEKALEYIDKAIEHTPTLVELYMT  233 (517)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCcHHHHHH
Confidence            56677777777777666655544444433

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 [], [].

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

Probab=84.37  E-value=1.3  Score=39.79  Aligned_cols=109  Identities=10%  Similarity=-0.037  Sum_probs=72.2

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-----
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-----  148 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-----  148 (296)
                      .+|.+-|..   ++-|+.-.++     .|-+.||--|-..|-+-.+++.|+.+|.+=.+  ..|-.+||-+=+.-     
T Consensus       231 kCylrLgm~r~AekqlqssL~q-----~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  231 KCYLRLGMPRRAEKQLQSSLTQ-----FPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHhcChhhhHHHHHHHhhc-----CCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHHH
Confidence            677777877   5555543322     34447898999999999999999999988654  34666666543322     


Q ss_pred             -----------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          149 -----------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       149 -----------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                                       ..|+..-..+-.+|.-.|+.|.|.+.++++.+.+..+..-|+-+
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~Ni  364 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNI  364 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhH
Confidence                             33444444455567777778888888877777665454444444

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

Probab=84.34  E-value=3.9  Score=35.71  Aligned_cols=118  Identities=14%  Similarity=0.055  Sum_probs=67.8

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc---------------CC
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA---------------GS  150 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~---------------~p  150 (296)
                      .++.+.+..+..   .-|.+.-..-..-|++.|++++|++....  -.+++.-...-.++++.               ..
T Consensus        93 ~~l~E~~a~~~~---~sn~i~~l~aa~i~~~~~~~deAl~~~~~--~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id  167 (299)
T KOG3081|consen   93 ASLYELVADSTD---GSNLIDLLLAAIIYMHDGDFDEALKALHL--GENLEAAALNVQILLKMHRFDLAEKELKKMQQID  167 (299)
T ss_pred             HHHHHHHHhhcc---chhHHHHHHhhHHhhcCCChHHHHHHHhc--cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence            444555544433   22222222333568888888888888776  22333333333344443               22


Q ss_pred             CHHHHH----HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCC
Q 044945          151 TENVWL----TLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEG  208 (296)
Q Consensus       151 ~~~~~~----~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g  208 (296)
                      +-.|-+    +.|....-.+.+.+|.-+|++|.++-+++..+-+-.        ++++|+.++++-..+.
T Consensus       168 ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  168 EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            333333    445555556679999999999988655544333322        7899998888876653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=84.28  E-value=10  Score=38.03  Aligned_cols=92  Identities=12%  Similarity=0.017  Sum_probs=61.0

Q ss_pred             CCcee-eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044945          101 CDYAI-SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMIL  179 (296)
Q Consensus       101 ~p~~~-t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  179 (296)
                      .||.+ .+-.+...+.+.+++++|+..+++.....              +-+....+.+=.++.+.|+.++|..+|++..
T Consensus       116 ~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--------------p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~  181 (694)
T PRK15179        116 FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--------------SSSAREILLEAKSWDEIGQSEQADACFERLS  181 (694)
T ss_pred             CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--------------CCCHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            56544 35556677777777777777777765543              1244556666667778888888888888888


Q ss_pred             hcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          180 MIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       180 ~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      ...|.+..++...        ..++|...|++-.+
T Consensus       182 ~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        182 RQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             hcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7555555555554        56777777766543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=84.00  E-value=21  Score=30.06  Aligned_cols=91  Identities=16%  Similarity=0.183  Sum_probs=66.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ..+-.+...|.+.|+.++|...|++.....  |+.          |. ...|..+-..|.+.|++++|...+++..+..|
T Consensus        34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~----------~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p  101 (235)
T TIGR03302        34 EELYEEAKEALDSGDYTEAIKYFEALESRY--PFS----------PYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHP  101 (235)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCc----------hhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCc
Confidence            467777788999999999999999987642  211          11 24667778899999999999999999998877


Q ss_pred             CCcc---hhHHh----------------hHHHHHHHHHHHHhC
Q 044945          184 NNTG---AYVIL----------------INEALKDLLERMEQE  207 (296)
Q Consensus       184 ~~~~---~y~~l----------------~~~~a~~l~~~M~~~  207 (296)
                      .+..   ++..+                ..++|.+.++...+.
T Consensus       102 ~~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  144 (235)
T TIGR03302       102 NHPDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR  144 (235)
T ss_pred             CCCchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH
Confidence            5543   22222                246677778777654

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).

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

Probab=83.93  E-value=19  Score=35.40  Aligned_cols=165  Identities=8%  Similarity=0.029  Sum_probs=87.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccC-hhhhhhhhcc--------------------CCCHHHHHHHHHH-H
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKAR-HAPFSRIMHA--------------------GSTENVWLTLLSA-C  162 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~--------------------~p~~~~~~~Li~~-~  162 (296)
                      .+|.-+-+.+-..|++++|+.+++.|.+.  +|+ ...|.-+-.+                    .|+..-..+-+.- .
T Consensus       117 e~ysn~aN~~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLl  194 (966)
T KOG4626|consen  117 EAYSNLANILKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLL  194 (966)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHH
Confidence            57888888888889999999999988773  231 1222221111                    5555443333332 3


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecchhhhhhhhhhhhH
Q 044945          163 RVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGE  234 (296)
Q Consensus       163 ~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~  234 (296)
                      ...|++++|...+.+-.+..|.-.+.|+-|        ....|.+-|++-.  .+.|+----.+.++..-++-.......
T Consensus       195 ka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAv--kldP~f~dAYiNLGnV~ke~~~~d~Av  272 (966)
T KOG4626|consen  195 KAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAV--KLDPNFLDAYINLGNVYKEARIFDRAV  272 (966)
T ss_pred             HhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhh--cCCCcchHHHhhHHHHHHHHhcchHHH
Confidence            347888888888888887777677778777        3444555554433  234442222222222222211111000


Q ss_pred             H-HHHHHHhhcCCC---CCeEEEEecccCccchhhHHHHHhhhhcc
Q 044945          235 R-LALVFGIISTPD---GTTIRVIKNLPSLRGLRHGNKVVSKIVHR  276 (296)
Q Consensus       235 ~-~~~~~~~~~~~~---~~~~~ii~~~~k~g~~~~A~~~f~~m~~r  276 (296)
                      . ...+.. +++..   .-.+  ---|-..|+++-|+.-+++..+.
T Consensus       273 s~Y~rAl~-lrpn~A~a~gNl--a~iYyeqG~ldlAI~~Ykral~~  315 (966)
T KOG4626|consen  273 SCYLRALN-LRPNHAVAHGNL--ACIYYEQGLLDLAIDTYKRALEL  315 (966)
T ss_pred             HHHHHHHh-cCCcchhhccce--EEEEeccccHHHHHHHHHHHHhc
Confidence            0 000111 11111   1111  33378889999998888766643

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=83.66  E-value=1  Score=44.59  Aligned_cols=98  Identities=11%  Similarity=0.054  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhh-hcccccccccccCCHHHHHhh-cccCCcccCCCce
Q 044945           27 MDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHF-DGGVDGLRPSRSGSVRKVFEI-MAVRDFLEYCDYA  104 (296)
Q Consensus        27 ~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~-~~~~~i~~y~k~g~~~~~f~~-M~~~~~~~~~p~~  104 (296)
                      +.+|+.+.+.+.++....|-++....-.+..++.+.+.++...- .++-.|+||+|.|++++.|.- |.-.+-   ....
T Consensus       748 w~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~~~~dai~my~k~~kw~da~kla~e~~~~---e~t~  824 (1636)
T KOG3616|consen  748 WKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEADLFKDAIDMYGKAGKWEDAFKLAEECHGP---EATI  824 (1636)
T ss_pred             hhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcchhHHHHHHHhccccHHHHHHHHHHhcCc---hhHH
Confidence            56666666666665554343333332222222222211111100 112225666666666222221 111111   1222


Q ss_pred             eeHHHHHHHHhccCChhHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFF  127 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~  127 (296)
                      +.|-+--.-+-++|++.+|.+++
T Consensus       825 ~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  825 SLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHhHHhHHhhcchhhhhhee
Confidence            45555555555566666665555

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=83.28  E-value=15  Score=27.98  Aligned_cols=62  Identities=16%  Similarity=0.157  Sum_probs=47.2

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .++-..|+.++|..+|++-.+.|...+.           -...+--+=..|..-|++++|..+|++.....|.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~-----------~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~   70 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGAD-----------RRRALIQLASTLRNLGRYDEALALLEEALEEFPD   70 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchH-----------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            4566789999999999999998875311           1234445667788999999999999998775443

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

Probab=82.45  E-value=27  Score=33.05  Aligned_cols=83  Identities=11%  Similarity=0.000  Sum_probs=46.3

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCc-eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDY-AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~-~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                      +-+.+.++.   .+-|+.+...     .|+ .+.+=.+-.+|-+.|++.+|..++++-....              +-|.
T Consensus       348 ~i~~~~nk~~~A~e~~~kal~l-----~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~--------------p~dp  408 (484)
T COG4783         348 DILLEANKAKEAIERLKKALAL-----DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND--------------PEDP  408 (484)
T ss_pred             HHHHHcCChHHHHHHHHHHHhc-----CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC--------------CCCc
Confidence            445555555   4455554433     233 2445555567777777777777777665432              2355


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMI  178 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m  178 (296)
                      ..|..|=.+|...|+..+|....-+.
T Consensus       409 ~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         409 NGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             hHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            55666666666666555555554444

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

Probab=82.32  E-value=9.9  Score=34.27  Aligned_cols=50  Identities=24%  Similarity=0.324  Sum_probs=32.2

Q ss_pred             cCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          117 NGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       117 ~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      +.+.|+|.++|-+|.+.    |..||          .+--+|=+.|.+.|.+|.|.++.+.+.+
T Consensus        48 s~Q~dKAvdlF~e~l~~----d~~t~----------e~~ltLGnLfRsRGEvDRAIRiHQ~L~~   97 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE----DPETF----------EAHLTLGNLFRSRGEVDRAIRIHQTLLE   97 (389)
T ss_pred             hcCcchHHHHHHHHHhc----Cchhh----------HHHHHHHHHHHhcchHHHHHHHHHHHhc
Confidence            46889999999999882    22222          3333455556666666666666666654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=82.11  E-value=11  Score=36.27  Aligned_cols=134  Identities=10%  Similarity=0.002  Sum_probs=80.5

Q ss_pred             HHHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhh--hhcccccccccccCCH---HHHHhhcc
Q 044945           19 GLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIH--FDGGVDGLRPSRSGSV---RKVFEIMA   93 (296)
Q Consensus        19 ~~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~--~~~~~~i~~y~k~g~~---~~~f~~M~   93 (296)
                      +|...++ +++|..+|.++..--             ...    .|. .|..  ...+-+-..|++.|++   +..+++-.
T Consensus       250 ~y~~~~k-~~eAv~ly~~AL~i~-------------e~~----~G~-~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al  310 (508)
T KOG1840|consen  250 VYRSLGK-YDEAVNLYEEALTIR-------------EEV----FGE-DHPAVAATLNNLAVLYYKQGKFAEAEEYCERAL  310 (508)
T ss_pred             HHHHhcc-HHHHHHHHHHHHHHH-------------HHh----cCC-CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Confidence            4455566 888888888775411             000    011 1111  1233334678999999   33333211


Q ss_pred             ---cCCcccCCCceee-HHHHHHHHhccCChhHHHHHHHHHHHc---CCccChhhhhhhhccCC-CHHHHHHHHHHHHhc
Q 044945           94 ---VRDFLEYCDYAIS-RNSITAGCGQNGPFDEGLKFFGQMLMA---KIKARHAPFSRIMHAGS-TENVWLTLLSACRVH  165 (296)
Q Consensus        94 ---~~~~~~~~p~~~t-~n~li~~~~~~g~~~~A~~l~~~M~~~---g~~pd~~ty~~li~~~p-~~~~~~~Li~~~~~~  165 (296)
                         ++-.....|.+.+ .+-+..-|+..+++++|..+++.-.+.   -..++          .| -..+++-|=..|-+.
T Consensus       311 ~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~----------~~~~a~~~~nl~~l~~~~  380 (508)
T KOG1840|consen  311 EIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGED----------NVNLAKIYANLAELYLKM  380 (508)
T ss_pred             HHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcccc----------chHHHHHHHHHHHHHHHh
Confidence               1111001233343 667788899999999999999865431   11111          11 236799999999999


Q ss_pred             CCHHHHHHHHHHHHhc
Q 044945          166 RNVELAEKVADMILMI  181 (296)
Q Consensus       166 g~~~~A~~~~~~m~~~  181 (296)
                      |++++|++++++..++
T Consensus       381 gk~~ea~~~~k~ai~~  396 (508)
T KOG1840|consen  381 GKYKEAEELYKKAIQI  396 (508)
T ss_pred             cchhHHHHHHHHHHHH
Confidence            9999999999998754

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=82.10  E-value=14  Score=34.75  Aligned_cols=90  Identities=12%  Similarity=0.066  Sum_probs=67.5

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE----NVWLTLLSACRVHRNVELAEKVADMI  178 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~----~~~~~Li~~~~~~g~~~~A~~~~~~m  178 (296)
                      +...|+-+-.+|.+.|++++|+..|++-.+.               .||.    .+|.-+-.+|.+.|+.++|...+++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---------------~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL---------------NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---------------CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3457999999999999999999999986653               2442    45888899999999999999999998


Q ss_pred             HhcCCCCcchhHHh----------hHHHHHHHHHHHHhCCCc
Q 044945          179 LMIEPNNTGAYVIL----------INEALKDLLERMEQEGYV  210 (296)
Q Consensus       179 ~~~~~~~~~~y~~l----------~~~~a~~l~~~M~~~g~~  210 (296)
                      .+...   ..|..+          ...+..++++...+.|..
T Consensus       139 Lelsn---~~f~~i~~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        139 LRDYN---LKFSTILNDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             HHhcc---hhHHHHHhCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            87521   123223          224566777777777753

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

Probab=81.98  E-value=21  Score=30.98  Aligned_cols=92  Identities=18%  Similarity=0.108  Sum_probs=67.7

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ....+.|++   ...|.+-...+    .||.-.||.+=-+|.+.|++++|..-|.+-.+-  .|            -+..
T Consensus       108 k~~~~~g~~~~A~~~~rkA~~l~----p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L--~~------------~~p~  169 (257)
T COG5010         108 KNQIRNGNFGEAVSVLRKAARLA----PTDWEAWNLLGAALDQLGRFDEARRAYRQALEL--AP------------NEPS  169 (257)
T ss_pred             HHHHHhcchHHHHHHHHHHhccC----CCChhhhhHHHHHHHHccChhHHHHHHHHHHHh--cc------------CCch
Confidence            344567888   77777776655    367799999999999999999999999988773  22            2334


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      ..|-|--.|.-.|+.++|+.++..-....+.|.
T Consensus       170 ~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~  202 (257)
T COG5010         170 IANNLGMSLLLRGDLEDAETLLLPAYLSPAADS  202 (257)
T ss_pred             hhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCch
Confidence            455555566667999999999988876555444

>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=81.47  E-value=2.7  Score=32.41  Aligned_cols=47  Identities=17%  Similarity=0.134  Sum_probs=38.2

Q ss_pred             CCceeeHHHHHHHHhccCChhHHHHHHHHHHH-cCCccChhhhhhhhc
Q 044945          101 CDYAISRNSITAGCGQNGPFDEGLKFFGQMLM-AKIKARHAPFSRIMH  147 (296)
Q Consensus       101 ~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~-~g~~pd~~ty~~li~  147 (296)
                      .||..+-.+++.+|+.+|++..|+++.+...+ .+++.+..+|..|+.
T Consensus        49 ~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   49 YPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            68888999999999999999999999999766 577655555555544

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

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

Probab=81.12  E-value=21  Score=32.00  Aligned_cols=55  Identities=15%  Similarity=0.059  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .....+-..+...|++++|...+++..+..|.+...+..+        .+++|..++.+....
T Consensus       115 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~  177 (355)
T cd05804         115 YLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDT  177 (355)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhc
Confidence            3444555678899999999999999999888777666666        678888888776653

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.

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

Probab=80.87  E-value=3  Score=24.16  Aligned_cols=26  Identities=19%  Similarity=0.474  Sum_probs=22.3

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHH
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQML  131 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~  131 (296)
                      +|+.|=..|.+.|++++|.++|++..
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            47888899999999999999999954

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

Probab=80.40  E-value=1.9  Score=30.18  Aligned_cols=58  Identities=16%  Similarity=0.174  Sum_probs=41.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADM  177 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~  177 (296)
                      ..|-.+-.+|.+.|+.++|.++++. ..  ..|            .+....-.+-.+|.+.|++++|.++|++
T Consensus        26 ~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~------------~~~~~~~l~a~~~~~l~~y~eAi~~l~~   83 (84)
T PF12895_consen   26 AYLYNLAQCYFQQGKYEEAIELLQK-LK--LDP------------SNPDIHYLLARCLLKLGKYEEAIKALEK   83 (84)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHH------------CHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCC------------CCHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence            4455589999999999999999988 22  221            1222333446678899999999999875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	296
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.93
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.93
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.81
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.76
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.57
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.53
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.77
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.64
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	98.5
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.25
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	98.25
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.08
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	98.06
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.06
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	97.99
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	97.95
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	97.91
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	97.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	97.86
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	97.84
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	97.84
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	97.82
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	97.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	97.81
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	97.74
2gw1_A	514	Mitochondrial precursor proteins import receptor;	97.72
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	97.65
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	97.65
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	97.64
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	97.62
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	97.59
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	97.57
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.54
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	97.52
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	97.51
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	97.49
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	97.42
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	97.39
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	97.34
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	97.28
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.24
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	97.23
3u4t_A	272	TPR repeat-containing protein; structural genomics	97.19
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	97.18
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	97.14
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.06
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	96.97
3u4t_A	272	TPR repeat-containing protein; structural genomics	96.93
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	96.88
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	96.87
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	96.81
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	96.8
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	96.79
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	96.78
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	96.72
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	96.72
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.69
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.69
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	96.66
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	96.64
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.62
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	96.6
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	96.57
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.54
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	96.51
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	96.48
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	96.47
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	96.43
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	96.43
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	96.35
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	96.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	96.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	96.34
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	96.28
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	96.21
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	96.18
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	96.17
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	96.11
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	96.1
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	96.05
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	95.89
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	95.88
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.81
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	95.78
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	95.77
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	95.72
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	95.68
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	95.63
3k9i_A	117	BH0479 protein; putative protein binding protein,	95.58
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	95.53
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.52
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	95.48
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	95.43
2l6j_A	111	TPR repeat-containing protein associated with HSP;	95.38
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	95.36
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	95.28
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	95.27
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	95.27
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	95.21
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	95.15
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	95.15
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	95.14
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	95.03
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	95.02
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	95.02
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	95.01
3k9i_A	117	BH0479 protein; putative protein binding protein,	95.0
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	94.98
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	94.42
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	94.41
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	94.33
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	94.17
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	94.16
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	94.14
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	94.13
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	94.11
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	93.93
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	93.92
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	93.81
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	93.8
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	93.7
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	93.69
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	93.48
2kat_A	115	Uncharacterized protein; NESG, structure, structur	93.43
2kat_A	115	Uncharacterized protein; NESG, structure, structur	93.35
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	93.01
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	92.96
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	92.94
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	92.86
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	92.86
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	92.84
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	92.6
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	92.38
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	92.34
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	92.29
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	92.01
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	91.88
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	91.27
2l6j_A	111	TPR repeat-containing protein associated with HSP;	90.8
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	90.75
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	90.59
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	90.38
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	90.31
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	90.29
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	89.48
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	89.33
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	89.32
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	89.13
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	88.89
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	88.87
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	88.79
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	88.33
4g1t_A	472	Interferon-induced protein with tetratricopeptide	88.27
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	88.11
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	88.0
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	87.99
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	87.87
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	87.79
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	87.62
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	86.68
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	86.59
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	86.41
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	85.66
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	85.08
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	85.08
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	84.67
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	84.1
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	83.64
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	83.45
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	83.16
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	82.84
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	82.84
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	82.32
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	81.68
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	81.45
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	81.32
4g1t_A	472	Interferon-induced protein with tetratricopeptide	81.08
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	80.86
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	80.82
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	80.54
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	80.18

>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=99.93  E-value=1.7e-26  Score=218.88  Aligned_cols=168  Identities=13%  Similarity=0.047  Sum_probs=144.5

Q ss_pred             ehHHHHHhh---cccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCC-------
Q 044945           15 ELSNGLAGC---NEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGS-------   84 (296)
Q Consensus        15 s~n~~~~~~---~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~-------   84 (296)
                      .++.+|..|   |+ +++|.++|++|+++|+.+    +                   .++|+.+|++|++.+.       
T Consensus        28 ~l~~~id~c~k~G~-~~~A~~lf~~M~~~Gv~p----d-------------------~~tyn~Li~~c~~~~~~~~~~~~   83 (501)
T 4g26_A           28 LLKQKLDMCSKKGD-VLEALRLYDEARRNGVQL----S-------------------QYHYNVLLYVCSLAEAATESSPN   83 (501)
T ss_dssp             HHHHHHHHTTTSCC-HHHHHHHHHHHHHHTCCC----C-------------------HHHHHHHHHHHTTCCCCSSSSCC
T ss_pred             HHHHHHHHHHhCCC-HHHHHHHHHHHHHcCCCC----C-------------------HhHHHHHHHHHHhCCchhhhhhc
Confidence            456655544   76 999999999999987652    2                   2345555666665544       


Q ss_pred             --H---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHH
Q 044945           85 --V---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLL  159 (296)
Q Consensus        85 --~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li  159 (296)
                        +   .++|++|.+.|+   .||.+|||+||++|++.|++++|+++|++|.+.|+.             ||..|||+||
T Consensus        84 ~~l~~A~~lf~~M~~~G~---~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~-------------Pd~~tyn~lI  147 (501)
T 4g26_A           84 PGLSRGFDIFKQMIVDKV---VPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQ-------------PRLRSYGPAL  147 (501)
T ss_dssp             HHHHHHHHHHHHHHHTTC---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCC-------------CCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-------------CccceehHHH
Confidence              4   789999999999   999999999999999999999999999999999994             7888899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcC-CCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecch
Q 044945          160 SACRVHRNVELAEKVADMILMIE-PNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEE  222 (296)
Q Consensus       160 ~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~  222 (296)
                      .+|++.|++++|.++|++|.+.+ .||..+|++|        ..++|.++|++|++.|..|+..|+......
T Consensus       148 ~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~  219 (501)
T 4g26_A          148 FGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEW  219 (501)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHH
Confidence            99999999999999999999987 4799999999        789999999999999999999998665443

>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=99.93  E-value=6.1e-27  Score=221.89  Aligned_cols=171  Identities=13%  Similarity=0.127  Sum_probs=151.8

Q ss_pred             ccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCC---------hhHHHHHHHHHHHcCCccChh
Q 044945           73 GVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGP---------FDEGLKFFGQMLMAKIKARHA  140 (296)
Q Consensus        73 ~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~---------~~~A~~l~~~M~~~g~~pd~~  140 (296)
                      +..|++|||.|++   .++|++|+++|+   .||.+|||+||++|++.+.         +++|.++|++|.+.|+.    
T Consensus        30 ~~~id~c~k~G~~~~A~~lf~~M~~~Gv---~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~----  102 (501)
T 4g26_A           30 KQKLDMCSKKGDVLEALRLYDEARRNGV---QLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVV----  102 (501)
T ss_dssp             HHHHHHTTTSCCHHHHHHHHHHHHHHTC---CCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCC----
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCC---CCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCC----
Confidence            4458999999999   999999999999   9999999999999998776         68899999999999994    


Q ss_pred             hhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCcchhHHh--------hHHHHHHHHHHHHhCCCcC
Q 044945          141 PFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE-PNNTGAYVIL--------INEALKDLLERMEQEGYVP  211 (296)
Q Consensus       141 ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p  211 (296)
                               ||..|||+||++|++.|++++|.++|++|.+.+ .||..+|+++        ..++|.++|++|.+.|+.|
T Consensus       103 ---------Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~P  173 (501)
T 4g26_A          103 ---------PNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVP  173 (501)
T ss_dssp             ---------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCC
T ss_pred             ---------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCC
Confidence                     688889999999999999999999999999987 5799999999        6899999999999999999


Q ss_pred             CCccceeecchhhhhhhhhhhhHHHHHHHHhhcCCCCCeEEEEecccCccchhhHHHHHhhhhcceEEEecCCccchhcc
Q 044945          212 DTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNLPSLRGLRHGNKVVSKIVHREMIVRDNRRFCRHFL  291 (296)
Q Consensus       212 ~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~~~~k~g~~~~A~~~f~~m~~r~~~~~~~~~~~~~~~  291 (296)
                      |..||                        ..+          |++|++.|+.++|.++|++|.+.++.| +..+|...+.
T Consensus       174 d~~ty------------------------~~L----------i~~~~~~g~~d~A~~ll~~Mr~~g~~p-s~~T~~~l~~  218 (501)
T 4g26_A          174 EEPEL------------------------AAL----------LKVSMDTKNADKVYKTLQRLRDLVRQV-SKSTFDMIEE  218 (501)
T ss_dssp             CHHHH------------------------HHH----------HHHHHHTTCHHHHHHHHHHHHHHTSSB-CHHHHHHHHH
T ss_pred             CHHHH------------------------HHH----------HHHHhhCCCHHHHHHHHHHHHHhCCCc-CHHHHHHHHH
Confidence            98764                        111          788999999999999999999888775 6677776666


Q ss_pred             ccc
Q 044945          292 LFR  294 (296)
Q Consensus       292 ~~~  294 (296)
                      .|+
T Consensus       219 ~F~  221 (501)
T 4g26_A          219 WFK  221 (501)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            554

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

Probab=99.81  E-value=9.6e-21  Score=187.18  Aligned_cols=126  Identities=7%  Similarity=-0.060  Sum_probs=108.5

Q ss_pred             hhcccccccccccCCH---HHHHhhccc---CCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhh
Q 044945           70 FDGGVDGLRPSRSGSV---RKVFEIMAV---RDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFS  143 (296)
Q Consensus        70 ~~~~~~i~~y~k~g~~---~~~f~~M~~---~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~  143 (296)
                      ++++++|++|||+|++   .++|++|.+   +++   .||++|||+||+|||+.|++++|.++|++|.+.|+        
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~---~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~--------  196 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRK---LLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGL--------  196 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHT---TCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTC--------
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCC---CCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC--------
Confidence            5899999999999999   999988764   467   99999999999999999999999999999999999        


Q ss_pred             hhhccCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHhcC-CCCcchhHHh----hHHHHHHHHHHHHhCCCcCC
Q 044945          144 RIMHAGSTENVWLTLLSACRVHRN-VELAEKVADMILMIE-PNNTGAYVIL----INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       144 ~li~~~p~~~~~~~Li~~~~~~g~-~~~A~~~~~~m~~~~-~~~~~~y~~l----~~~~a~~l~~~M~~~g~~p~  212 (296)
                           .||++|||+||+++|+.|+ .++|.++|++|.+.+ .||.++|+++    .-+.+.+..+++ ..++.|+
T Consensus       197 -----~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          197 -----TPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             -----CCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGG-CCCCCCC
T ss_pred             -----CCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHh-CcccCCC
Confidence                 4788889999999999998 478999999999998 4799999988    333444444444 5677775

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

Probab=99.76  E-value=1.1e-18  Score=172.59  Aligned_cols=115  Identities=12%  Similarity=0.022  Sum_probs=103.0

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHH---cCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLM---AKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~---~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      .+|||+||+|||+.|++++|.++|.+|.+   .|+             .||++|||+||+|||+.|++++|.++|++|.+
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~-------------~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~  193 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRK-------------LLTLDMYNAVMLGWARQGAFKELVYVLFMVKD  193 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHT-------------TCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCC-------------CCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            35899999999999999999999998874   477             57999999999999999999999999999999


Q ss_pred             cC-CCCcchhHHh---------hHHHHHHHHHHHHhCCCcCCCccceeecchhhhhhhhhh
Q 044945          181 IE-PNNTGAYVIL---------INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYY  231 (296)
Q Consensus       181 ~~-~~~~~~y~~l---------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~  231 (296)
                      .+ .||.+||+++         ..++|.++|++|.+.|+.||..|+...+.+.+++..+..
T Consensus       194 ~G~~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~  254 (1134)
T 3spa_A          194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA  254 (1134)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHH
T ss_pred             cCCCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHH
Confidence            88 4799999999         247889999999999999999999988888877765543

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

Probab=99.57  E-value=2.4e-15  Score=143.38  Aligned_cols=188  Identities=11%  Similarity=0.020  Sum_probs=142.0

Q ss_pred             CCCCeeehHHHHHhh---cccHHHHHHHHHHhHhcccC-------------CCccccHHHHHhcCCCccCCceehhhhhc
Q 044945            9 ERNENVELSNGLAGC---NEFMDKANGITDRFEERAVS-------------IGHYADLDGISDQLPSSSGGRQVDIHFDG   72 (296)
Q Consensus         9 ~~pd~vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~~-------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~   72 (296)
                      +.|++.+|+.++..+   |+ +++|.++|++|.+....             .|.+..|..++..+.....     ....+
T Consensus        80 ~~~~~~~~~~~~~~~~~~g~-~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~  153 (597)
T 2xpi_A           80 SLSREDYLRLWRHDALMQQQ-YKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNR-----SSACR  153 (597)
T ss_dssp             --CHHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGT-----CHHHH
T ss_pred             hHHHHHHHHHHHHHHHHccC-chHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcccc-----chhHH
Confidence            456888899877655   65 99999999999854322             5666777777776643321     22345


Q ss_pred             ccccccccccCCH---HHHHhhcc-cC--------------CcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 044945           73 GVDGLRPSRSGSV---RKVFEIMA-VR--------------DFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAK  134 (296)
Q Consensus        73 ~~~i~~y~k~g~~---~~~f~~M~-~~--------------~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g  134 (296)
                      +.+..+|.++|++   .++|+++. ..              +.   .++..+|+.++.+|.+.|+.++|+++|++|.+.+
T Consensus       154 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  230 (597)
T 2xpi_A          154 YLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGI---KLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD  230 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSC---CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhHHHHHHHHhccCCcccccccccccccccccc---chhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            6678999999999   88998543 32              22   3456899999999999999999999999998854


Q ss_pred             CccChh-h--------------------------------------hhhhhcc--------------------CCCHHHH
Q 044945          135 IKARHA-P--------------------------------------FSRIMHA--------------------GSTENVW  155 (296)
Q Consensus       135 ~~pd~~-t--------------------------------------y~~li~~--------------------~p~~~~~  155 (296)
                        |+.. .                                      |+.++..                    .+|..+|
T Consensus       231 --p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  308 (597)
T 2xpi_A          231 --AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLL  308 (597)
T ss_dssp             --TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHH
T ss_pred             --chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHH
Confidence              3321 1                                      2222333                    4899999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          156 LTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       156 ~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +.++.+|.+.|++++|..+|+++.+..|.+..+|..+        ..++|.+++++|.+.
T Consensus       309 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  368 (597)
T 2xpi_A          309 LCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDR  368 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh
Confidence            9999999999999999999999998888788888777        578888888888743

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

Probab=99.53  E-value=7.4e-15  Score=140.01  Aligned_cols=253  Identities=6%  Similarity=-0.101  Sum_probs=168.7

Q ss_pred             CeeehHHH---HHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccC-----------------Cceehhhhh
Q 044945           12 ENVELSNG---LAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSG-----------------GRQVDIHFD   71 (296)
Q Consensus        12 d~vs~n~~---~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~-----------------~~~~~~~~~   71 (296)
                      |+++|+.+   +.+.|+ +++|.++|++|.+.+..   ..++............                 ...-.....
T Consensus       199 ~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  274 (597)
T 2xpi_A          199 EASMCYLRGQVYTNLSN-FDRAKECYKEALMVDAK---CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSL  274 (597)
T ss_dssp             HHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHCTT---CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHhCch---hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHH
Confidence            67889875   444576 99999999999986532   1122111111110000                 000000113


Q ss_pred             cccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           72 GGVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        72 ~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      ++.++++|++.|++   .++|++|.+.     .+|..+|+.++.+|.+.|+.++|+++|++|.+.+- .+..+|+.++..
T Consensus       275 ~~~~~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~  348 (597)
T 2xpi_A          275 YMLKLNKTSHEDELRRAEDYLSSINGL-----EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-YNLDVYPLHLAS  348 (597)
T ss_dssp             HHTTSCTTTTHHHHHHHHHHHHTSTTG-----GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHH
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHhhcC-----CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHH
Confidence            45567899999999   8999998763     24559999999999999999999999999998663 366777776665


Q ss_pred             ---------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHH
Q 044945          149 ---------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKD  199 (296)
Q Consensus       149 ---------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~  199 (296)
                                           +.+..+|+.+..+|.+.|++++|.++|+++.+..|.+..+|+.+        ..++|.+
T Consensus       349 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  428 (597)
T 2xpi_A          349 LHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAIS  428 (597)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence                                 45789999999999999999999999999999888888888888        6899999


Q ss_pred             HHHHHHhCCCcCCCccceeecchhhhhhhhhhhhHHHHHHHHhhcCCC-CCeEEEEecccCccchhhHHHHHhhhhcc
Q 044945          200 LLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPD-GTTIRVIKNLPSLRGLRHGNKVVSKIVHR  276 (296)
Q Consensus       200 l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ii~~~~k~g~~~~A~~~f~~m~~r  276 (296)
                      +|++|.+.+. ++..++..........+........+...... .+.. .....+...|.+.|+.++|.++|+++.+.
T Consensus       429 ~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  504 (597)
T 2xpi_A          429 AYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYAL-FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLL  504 (597)
T ss_dssp             HHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9999987642 23333322222222211111111111111111 1111 11112367799999999999999999764

>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=98.77  E-value=1.4e-08  Score=91.50  Aligned_cols=251  Identities=9%  Similarity=0.015  Sum_probs=149.1

Q ss_pred             CeeehHHH---HHhhcccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhccc
Q 044945           12 ENVELSNG---LAGCNEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGV   74 (296)
Q Consensus        12 d~vs~n~~---~~~~~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~   74 (296)
                      +..+|+.+   +.+.|+ +++|.+.|+++.+....              .|.+..|...+.......  +..  ...+..
T Consensus        66 ~~~~~~~lg~~~~~~g~-~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~--~~~~~~  140 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQ-LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDL--YCVRSD  140 (388)
T ss_dssp             CHHHHHHHHHHHHHHTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTC--THHHHH
T ss_pred             chHHHHHHHHHHHHCCC-HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCc--HHHHHH
Confidence            44455543   334465 88888888877664321              233444444443322111  100  001112


Q ss_pred             ccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccCh-hhhhhhhcc--
Q 044945           75 DGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARH-APFSRIMHA--  148 (296)
Q Consensus        75 ~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~-~ty~~li~~--  148 (296)
                      +-..|.+.|++   .+.|+++.+.+-    -+..+|+.+...|.+.|+.++|.+.|+++.+..  |+. ..|..+-..  
T Consensus       141 l~~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~  214 (388)
T 1w3b_A          141 LGNLLKALGRLEEAKACYLKAIETQP----NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PNFLDAYINLGNVLK  214 (388)
T ss_dssp             HHHHHHTTSCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHH
Confidence            23567777888   778887765321    124789999999999999999999999998743  442 233322211  


Q ss_pred             ------------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHH
Q 044945          149 ------------------GS-TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLL  201 (296)
Q Consensus       149 ------------------~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~  201 (296)
                                        .| +..+|+.+...|.+.|++++|...|+++.+..|.+..+|..+        ..++|.+.+
T Consensus       215 ~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  294 (388)
T 1w3b_A          215 EARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCY  294 (388)
T ss_dssp             TTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence                              44 578999999999999999999999999999888777777776        679999999


Q ss_pred             HHHHhCCCcCCCccceeecchh-hhhhhhhhhhHHHHHHHHhhcCCCC-CeEEEEecccCccchhhHHHHHhhhhcc
Q 044945          202 ERMEQEGYVPDTKEVLLDVEEE-QKKNILYYHGERLALVFGIISTPDG-TTIRVIKNLPSLRGLRHGNKVVSKIVHR  276 (296)
Q Consensus       202 ~~M~~~g~~p~~~t~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ii~~~~k~g~~~~A~~~f~~m~~r  276 (296)
                      +++.+.  .|+....+..++.. ...+........+..+... .+... ....+...|.+.|+.++|.+.|+++.+.
T Consensus       295 ~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          295 NTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            998875  35432222111111 1111000000000011100 11110 0011245688999999999999998763

>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=98.64  E-value=5e-08  Score=89.16  Aligned_cols=189  Identities=7%  Similarity=0.027  Sum_probs=124.0

Q ss_pred             CeeehHHH---HHhhcccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhccc
Q 044945           12 ENVELSNG---LAGCNEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGV   74 (296)
Q Consensus        12 d~vs~n~~---~~~~~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~   74 (296)
                      ++.+|..+   +.+.|+ +++|.++|+++.+....              .|.+..|...+.........    ....+..
T Consensus        25 ~~~~~~~~~~~~~~~g~-~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~----~~~~~~~   99 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQ-LADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD----FTAARLQ   99 (450)
T ss_dssp             HHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT----CHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC----cHHHHHH
Confidence            44555543   344476 99999999998875432              45556666655544322211    0112233


Q ss_pred             ccccccccCCH---HHHHhhcccCCcccCCCce---eeHHHHHHH------------HhccCChhHHHHHHHHHHHcCCc
Q 044945           75 DGLRPSRSGSV---RKVFEIMAVRDFLEYCDYA---ISRNSITAG------------CGQNGPFDEGLKFFGQMLMAKIK  136 (296)
Q Consensus        75 ~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~---~t~n~li~~------------~~~~g~~~~A~~l~~~M~~~g~~  136 (296)
                      +...|.+.|++   .+.|+++.+.+-    .+.   ..|..++..            |.+.|+.++|.+.|+++.+..- 
T Consensus       100 l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-  174 (450)
T 2y4t_A          100 RGHLLLKQGKLDEAEDDFKKVLKSNP----SENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-  174 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTSCC----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCC----CChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-
Confidence            45778888888   778888766432    223   456666444            8888999999999998877431 


Q ss_pred             cChhhhhhhhcc---------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh---
Q 044945          137 ARHAPFSRIMHA---------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL---  192 (296)
Q Consensus       137 pd~~ty~~li~~---------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l---  192 (296)
                      .+..++..+...                     +.+..+|+.+...|.+.|++++|...|+++.+..|.+...+..+   
T Consensus       175 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~  254 (450)
T 2y4t_A          175 WDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQV  254 (450)
T ss_dssp             TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHH
Confidence            244445444443                     45678899999999999999999999999888777665554322   


Q ss_pred             -----------------hHHHHHHHHHHHHhCCCcCC
Q 044945          193 -----------------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       193 -----------------~~~~a~~l~~~M~~~g~~p~  212 (296)
                                       .+++|...|+++.+.  .|+
T Consensus       255 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~  289 (450)
T 2y4t_A          255 KKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPS  289 (450)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCS
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc
Confidence                             578888888888763  455

>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=98.50  E-value=1e-06  Score=79.08  Aligned_cols=92  Identities=14%  Similarity=0.185  Sum_probs=60.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+|+.+...|.+.|+.++|.+.|+++.+..              +.+..+|+.+...|.+.|++++|...|+++.+..|.
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  303 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQ--------------PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPT  303 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTC--------------SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc
Confidence            455555555555566666665555555432              224566777777788888888888888877777776


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhCCCcCC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~  212 (296)
                      +..+|..+        ..++|.+.++++.+.  .|+
T Consensus       304 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~  337 (388)
T 1w3b_A          304 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPE  337 (388)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTT
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC
Confidence            76666666        567777777777653  455

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

Probab=98.25  E-value=8.1e-06  Score=71.15  Aligned_cols=132  Identities=10%  Similarity=0.016  Sum_probs=97.1

Q ss_pred             cccccccCCHHHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-------
Q 044945           76 GLRPSRSGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-------  148 (296)
Q Consensus        76 i~~y~k~g~~~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-------  148 (296)
                      ..+|...|+...+..+.+.. -   .|+..++..+...|.+.|+.++|++.++++...+..|+..++..++..       
T Consensus        41 ~r~yi~~g~~~~al~~~~~~-~---~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~  116 (291)
T 3mkr_A           41 YRAYLAQRKYGVVLDEIKPS-S---APELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQN  116 (291)
T ss_dssp             HHHHHHTTCHHHHHHHSCTT-S---CHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHhccc-C---ChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCC
Confidence            35677777775555555443 3   456678888888888888888888888888887777766555443322       


Q ss_pred             ----------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc-----hhHHh-----hHHHHHHHHHHHHhCC
Q 044945          149 ----------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG-----AYVIL-----INEALKDLLERMEQEG  208 (296)
Q Consensus       149 ----------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~-----~y~~l-----~~~~a~~l~~~M~~~g  208 (296)
                                ..+...+..+...|.+.|++++|.+.|+++.+..|.+..     .|..+     ..++|..+|+++.+. 
T Consensus       117 ~~~Al~~l~~~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-  195 (291)
T 3mkr_A          117 PDAALRTLHQGDSLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-  195 (291)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-
Confidence                      367889999999999999999999999999988765431     22222     689999999999876 


Q ss_pred             CcCCC
Q 044945          209 YVPDT  213 (296)
Q Consensus       209 ~~p~~  213 (296)
                       .|+.
T Consensus       196 -~p~~  199 (291)
T 3mkr_A          196 -CSPT  199 (291)
T ss_dssp             -SCCC
T ss_pred             -CCCc
Confidence             5553

>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=98.25  E-value=4.5e-06  Score=76.03  Aligned_cols=161  Identities=13%  Similarity=0.019  Sum_probs=100.5

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCC
Q 044945           20 LAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRD   96 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~   96 (296)
                      +...|+ +++|.+.|+++.+....  .                      ...+..+..+|.+.|+.   .+.|+++.+.+
T Consensus       153 ~~~~~~-~~~A~~~~~~~~~~~~~--~----------------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  207 (450)
T 2y4t_A          153 AFGSGD-YTAAIAFLDKILEVCVW--D----------------------AELRELRAECFIKEGEPRKAISDLKAASKLK  207 (450)
T ss_dssp             HHHHTC-HHHHHHHHHHHHHHCTT--C----------------------HHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH
T ss_pred             HHHcCC-HHHHHHHHHHHHHhCCC--C----------------------hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            444576 99999999998874321  0                      00111223556666666   55555554321


Q ss_pred             cccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhh-------------cc---------------
Q 044945           97 FLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIM-------------HA---------------  148 (296)
Q Consensus        97 ~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li-------------~~---------------  148 (296)
                          ..+..+|+.+...|.+.|+.++|++.|+++.+.  .|+..+....+             ..               
T Consensus       208 ----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  281 (450)
T 2y4t_A          208 ----NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYE  281 (450)
T ss_dssp             ----CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             ----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                112256666667777777777777777666643  34333322111             00               


Q ss_pred             -----CCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCc
Q 044945          149 -----GST-----ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYV  210 (296)
Q Consensus       149 -----~p~-----~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~  210 (296)
                           .|+     ...|..+...|.+.|++++|...++++.+..|.+...|..+        .+++|...+++..+  ..
T Consensus       282 ~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~  359 (450)
T 2y4t_A          282 SVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HN  359 (450)
T ss_dssp             HHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TS
T ss_pred             HHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hC
Confidence                 344     45788888888899999999999998888777777777666        67888888888776  45


Q ss_pred             CCC
Q 044945          211 PDT  213 (296)
Q Consensus       211 p~~  213 (296)
                      |+.
T Consensus       360 p~~  362 (450)
T 2y4t_A          360 END  362 (450)
T ss_dssp             SSC
T ss_pred             cch
Confidence            654

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

Probab=98.08  E-value=1.1e-05  Score=71.60  Aligned_cols=170  Identities=4%  Similarity=-0.123  Sum_probs=84.4

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH
Q 044945           20 LAGCNEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV   85 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~   85 (296)
                      +...|+ +++|.+.|+++.+....              .|.+..|...+.........    ....+..+...|.+.|+.
T Consensus        75 ~~~~g~-~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~----~~~~~~~l~~~~~~~g~~  149 (365)
T 4eqf_A           75 RLKEGD-LPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPN----NLKALMALAVSYTNTSHQ  149 (365)
T ss_dssp             HHHHTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT----CHHHHHHHHHHHHHTTCH
T ss_pred             HHHCCC-HHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC----CHHHHHHHHHHHHccccH
Confidence            333465 88888888888765432              45556666655443322111    011223334667777777


Q ss_pred             ---HHHHhhcccCCc---ccC---CCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHH
Q 044945           86 ---RKVFEIMAVRDF---LEY---CDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWL  156 (296)
Q Consensus        86 ---~~~f~~M~~~~~---~~~---~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~  156 (296)
                         .+.|++..+.+-   ..|   ......++.+...|.+.|+.++|.+.|+++.+..  |+          .++..+|.
T Consensus       150 ~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~----------~~~~~~~~  217 (365)
T 4eqf_A          150 QDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN--GD----------MIDPDLQT  217 (365)
T ss_dssp             HHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS--CS----------SCCHHHHH
T ss_pred             HHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC--cC----------ccCHHHHH
Confidence               666665543210   000   0011334445677777777777777777777642  21          11345555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          157 TLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       157 ~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .+-..|.+.|++++|...|++..+..|.+..+|..+        ..++|...+++..+
T Consensus       218 ~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  275 (365)
T 4eqf_A          218 GLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALE  275 (365)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555556666666666666666555555555555444        44555555555544

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

Probab=98.06  E-value=0.00014  Score=63.29  Aligned_cols=48  Identities=6%  Similarity=-0.204  Sum_probs=31.0

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHc
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMA  133 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~  133 (296)
                      ..|.+.|+.   .+.|++  ..+.       ..|..+...|.+.|+.++|.+.|+++.+.
T Consensus       109 ~~~~~~g~~~~Al~~l~~--~~~~-------~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A          109 SIYFYDQNPDAALRTLHQ--GDSL-------ECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHTTCHHHHHHHHTT--CCSH-------HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHhC--CCCH-------HHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            456666777   555554  1222       56777777777777777777777777664

>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=98.06  E-value=2.1e-05  Score=69.43  Aligned_cols=161  Identities=10%  Similarity=-0.006  Sum_probs=112.9

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCC
Q 044945           20 LAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRD   96 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~   96 (296)
                      +...|+ +++|...|+++.+....  ..                      ..+..+...|.+.|+.   .+.|++..+.+
T Consensus        74 ~~~~g~-~~~A~~~~~~al~~~p~--~~----------------------~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  128 (368)
T 1fch_A           74 RLQEGD-LPNAVLLFEAAVQQDPK--HM----------------------EAWQYLGTTQAENEQELLAISALRRCLELK  128 (368)
T ss_dssp             HHHTTC-HHHHHHHHHHHHHSCTT--CH----------------------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHCCC-HHHHHHHHHHHHHhCCC--CH----------------------HHHHHHHHHHHHCcCHHHHHHHHHHHHhcC
Confidence            334476 99999999999875321  00                      0111223567778888   66777665432


Q ss_pred             cccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhh--------------------------------
Q 044945           97 FLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSR--------------------------------  144 (296)
Q Consensus        97 ~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~--------------------------------  144 (296)
                      -    .+..+|..+...|.+.|+.++|.+.|+++.+..  |+......                                
T Consensus       129 ~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  202 (368)
T 1fch_A          129 P----DNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKE  202 (368)
T ss_dssp             T----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHH
T ss_pred             C----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHH
Confidence            1    234788889999999999999999999988754  32221111                                


Q ss_pred             ----hhccCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCC
Q 044945          145 ----IMHAGS---TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGY  209 (296)
Q Consensus       145 ----li~~~p---~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~  209 (296)
                          .+...|   +..+|..+-..|.+.|++++|...|++..+..|.+..+|..+        ..++|...+++..+.  
T Consensus       203 ~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--  280 (368)
T 1fch_A          203 LFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--  280 (368)
T ss_dssp             HHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--
Confidence                111144   478999999999999999999999999998888777777776        678999999888764  


Q ss_pred             cCCC
Q 044945          210 VPDT  213 (296)
Q Consensus       210 ~p~~  213 (296)
                      .|+.
T Consensus       281 ~~~~  284 (368)
T 1fch_A          281 QPGY  284 (368)
T ss_dssp             CTTC
T ss_pred             CCCc
Confidence            3553

>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=98.04  E-value=1.2e-05  Score=69.63  Aligned_cols=160  Identities=11%  Similarity=0.010  Sum_probs=99.8

Q ss_pred             cccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccC-CH---
Q 044945           24 NEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSG-SV---   85 (296)
Q Consensus        24 ~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g-~~---   85 (296)
                      |+ +++|.++|+++.+....              .|....+..++.........    ....+..+-..|.+.| +.   
T Consensus        36 g~-~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~~A  110 (330)
T 3hym_B           36 CD-FKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPS----NPVSWFAVGCYYLMVGHKNEHA  110 (330)
T ss_dssp             TC-HHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT----STHHHHHHHHHHHHSCSCHHHH
T ss_pred             CC-HHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC----CHHHHHHHHHHHHHhhhhHHHH
Confidence            65 99999999998876532              22233333333322211100    0001112235566666 66   


Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhc
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVH  165 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~  165 (296)
                      .+.|++..+.+-    .+...|..+...|.+.|+.++|.+.|++..+..              +.+...|..+-..|...
T Consensus       111 ~~~~~~a~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--------------~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B          111 RRYLSKATTLEK----TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM--------------KGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHTTCT----TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--------------TTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCC----ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc--------------cccHHHHHHHHHHHHHH
Confidence            666666544321    123567777788888888888888888776643              12345666677888888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          166 RNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       166 g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      |++++|...+++..+..|.+...|..+        .+++|...+++..+
T Consensus       173 ~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  221 (330)
T 3hym_B          173 NNSKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALE  221 (330)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            888888888888887777676666666        56778777777665

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=97.99  E-value=3.6e-05  Score=70.97  Aligned_cols=125  Identities=14%  Similarity=0.033  Sum_probs=93.2

Q ss_pred             ccCCH---HHHHhhccc-----CCc--cc---CCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhc
Q 044945           81 RSGSV---RKVFEIMAV-----RDF--LE---YCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMH  147 (296)
Q Consensus        81 k~g~~---~~~f~~M~~-----~~~--~~---~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~  147 (296)
                      +.|++   ...|+++.+     ..-  ..   ...+..+|..+...|.+.|+.++|.+.|++..+..  |+..+|..+..
T Consensus       201 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~  278 (514)
T 2gw1_A          201 SPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMAL  278 (514)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHH
Confidence            57777   677776655     211  00   01123678889999999999999999999998865  44444444433


Q ss_pred             c---------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHH
Q 044945          148 A---------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALK  198 (296)
Q Consensus       148 ~---------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~  198 (296)
                      .                     +.+..+|..+...|.+.|++++|...|++..+..|.+..+|..+        .+++|.
T Consensus       279 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  358 (514)
T 2gw1_A          279 IMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCE  358 (514)
T ss_dssp             HHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHH
Confidence            3                     44678899999999999999999999999998887777777766        678999


Q ss_pred             HHHHHHHhC
Q 044945          199 DLLERMEQE  207 (296)
Q Consensus       199 ~l~~~M~~~  207 (296)
                      ..+++..+.
T Consensus       359 ~~~~~~~~~  367 (514)
T 2gw1_A          359 TLFSEAKRK  367 (514)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999888764

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=97.95  E-value=6.7e-05  Score=66.09  Aligned_cols=168  Identities=11%  Similarity=-0.048  Sum_probs=113.5

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhh-------------c
Q 044945           20 LAGCNEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFD-------------G   72 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~-------------~   72 (296)
                      +...|+ +++|.+.|++..+....              .|....|...+..........  .....             .
T Consensus       108 ~~~~g~-~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~  184 (368)
T 1fch_A          108 QAENEQ-ELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAY--AHLVTPAEEGAGGAGLGPS  184 (368)
T ss_dssp             HHHTTC-HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTT--GGGCC--------------
T ss_pred             HHHCcC-HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCc--HHHHHHHHHHhhhhcccHH
Confidence            334476 89999999988776532              444555555544332211100  00000             0


Q ss_pred             ccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccC
Q 044945           73 GVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAG  149 (296)
Q Consensus        73 ~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  149 (296)
                      ...+..+.+.|+.   ...|+++.+.+-.  .++..+|+.+...|.+.|+.++|.+.|++..+..              +
T Consensus       185 ~~~~~~~~~~~~~~~A~~~~~~a~~~~p~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--------------~  248 (368)
T 1fch_A          185 KRILGSLLSDSLFLEVKELFLAAVRLDPT--SIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR--------------P  248 (368)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHHHHHHHSTT--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------T
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhCcC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------c
Confidence            0012223366766   6777776543220  1135789999999999999999999999987742              2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .+..+|..+-..|.+.|++++|...|++..+..|.+..+|..+        ..++|...+++..+
T Consensus       249 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  313 (368)
T 1fch_A          249 NDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALN  313 (368)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4577899999999999999999999999998888777777766        67889888888765

>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=97.91  E-value=0.00024  Score=59.13  Aligned_cols=145  Identities=10%  Similarity=-0.007  Sum_probs=74.2

Q ss_pred             HhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCc
Q 044945           21 AGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDF   97 (296)
Q Consensus        21 ~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~   97 (296)
                      ...|+ +++|.+.|++..+....  . ..                     .+..+...|.+.|+.   .+.|++..+.+-
T Consensus        48 ~~~~~-~~~A~~~~~~al~~~~~--~-~~---------------------~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  102 (252)
T 2ho1_A           48 LQRGN-TEQAKVPLRKALEIDPS--S-AD---------------------AHAALAVVFQTEMEPKLADEEYRKALASDS  102 (252)
T ss_dssp             HHTTC-TGGGHHHHHHHHHHCTT--C-HH---------------------HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHcCC-hHHHHHHHHHHHhcCCC--h-HH---------------------HHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            33465 99999999998775321  0 00                     011112344555555   444444433211


Q ss_pred             ccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 044945           98 LEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADM  177 (296)
Q Consensus        98 ~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~  177 (296)
                          .+...|..+...|.+.|+.++|.+.|++..+.+..|            .+...|..+...|.+.|++++|...|++
T Consensus       103 ----~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~------------~~~~~~~~la~~~~~~g~~~~A~~~~~~  166 (252)
T 2ho1_A          103 ----RNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYP------------ERSRVFENLGLVSLQMKKPAQAKEYFEK  166 (252)
T ss_dssp             ----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCT------------THHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ----CcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCc------------ccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                122456666666666666666666666665522221            1334455555555555555555555555


Q ss_pred             HHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          178 ILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       178 m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      ..+..|.+...|..+        ..++|...+++..+
T Consensus       167 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  203 (252)
T 2ho1_A          167 SLRLNRNQPSVALEMADLLYKEREYVPARQYYDLFAQ  203 (252)
T ss_dssp             HHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHhcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555544444444333        34555555555443

>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=97.89  E-value=0.0001  Score=54.25  Aligned_cols=112  Identities=13%  Similarity=0.189  Sum_probs=66.9

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   ..+|+++.+.+.    .+...|..+...|.+.|+.++|.+.|+++.+.+              +.+..
T Consensus         9 ~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~   70 (136)
T 2fo7_A            9 NAYYKQGDYDEAIEYYQKALELDP----RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--------------PRSAE   70 (136)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------------TTCHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHcCC----cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--------------CCchH
Confidence            344555666   555555543221    123556666667777777777777777765532              13445


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .|..+...|.+.|++++|...++++.+..|.+...|..+        ..++|.+.++++.+
T Consensus        71 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           71 AWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            666667777777777777777777766655555444444        45666666666554

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

Probab=97.86  E-value=0.00015  Score=64.07  Aligned_cols=213  Identities=5%  Similarity=-0.094  Sum_probs=122.1

Q ss_pred             CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCCh
Q 044945           44 IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPF  120 (296)
Q Consensus        44 ~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~  120 (296)
                      .|.+..|..++...-.....    ....+..+...|.+.|+.   .+.|++..+.+-    .+..+|..+...|.+.|+.
T Consensus        78 ~g~~~~A~~~~~~al~~~p~----~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~g~~  149 (365)
T 4eqf_A           78 EGDLPVTILFMEAAILQDPG----DAEAWQFLGITQAENENEQAAIVALQRCLELQP----NNLKALMALAVSYTNTSHQ  149 (365)
T ss_dssp             HTCHHHHHHHHHHHHHHCTT----CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCH
T ss_pred             CCCHHHHHHHHHHHHHhCcC----CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC----CCHHHHHHHHHHHHccccH
Confidence            35677777776655332211    111233445788889998   777877665321    2247899999999999999


Q ss_pred             hHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CcchhHHh------
Q 044945          121 DEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN--NTGAYVIL------  192 (296)
Q Consensus       121 ~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~--~~~~y~~l------  192 (296)
                      ++|.+.|+++.+..  |+.......+  .....+++.+...|.+.|++++|...|+++.+..|.  +..+|..+      
T Consensus       150 ~~A~~~~~~al~~~--p~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~  225 (365)
T 4eqf_A          150 QDACEALKNWIKQN--PKYKYLVKNK--KGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHL  225 (365)
T ss_dssp             HHHHHHHHHHHHHC--HHHHCC---------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--ccchHHHhhh--ccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHH
Confidence            99999999998743  3322111111  123445667788999999999999999999998876  67677666      


Q ss_pred             --hHHHHHHHHHHHHhCCCcCCCccceeecch-----hhhhhhhhhhhHHHHHHHHhhcCCCCC-eEEEEecccCccchh
Q 044945          193 --INEALKDLLERMEQEGYVPDTKEVLLDVEE-----EQKKNILYYHGERLALVFGIISTPDGT-TIRVIKNLPSLRGLR  264 (296)
Q Consensus       193 --~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ii~~~~k~g~~~  264 (296)
                        ..++|.+.+++..+.  .|+....+..++.     +...+.......    +... .+.... ...+-..|.+.|+.+
T Consensus       226 ~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~----al~~-~p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          226 SGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTR----ALEI-QPGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH----HHHH-CTTCHHHHHHHHHHHHHHTCCH
T ss_pred             CCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHH----HHhc-CCCchHHHHHHHHHHHHCCCHH
Confidence              679999999988765  4553333222211     111111111111    1111 111110 011145588899999


Q ss_pred             hHHHHHhhhhc
Q 044945          265 HGNKVVSKIVH  275 (296)
Q Consensus       265 ~A~~~f~~m~~  275 (296)
                      +|.+.|++..+
T Consensus       299 ~A~~~~~~al~  309 (365)
T 4eqf_A          299 EAVSNFLTALS  309 (365)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998774

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=97.84  E-value=3.9e-05  Score=66.21  Aligned_cols=157  Identities=10%  Similarity=-0.008  Sum_probs=106.9

Q ss_pred             HhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCc
Q 044945           21 AGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDF   97 (296)
Q Consensus        21 ~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~   97 (296)
                      ...|+ +++|..+|+++.+....  ..                      ..+..+...|.+.|+.   .+.|++..+.+-
T Consensus        32 ~~~~~-~~~A~~~~~~~~~~~~~--~~----------------------~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~   86 (327)
T 3cv0_A           32 LKLAN-LAEAALAFEAVCQAAPE--RE----------------------EAWRSLGLTQAENEKDGLAIIALNHARMLDP   86 (327)
T ss_dssp             HHTTC-HHHHHHHHHHHHHHCTT--CH----------------------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHhcc-HHHHHHHHHHHHHhCCC--CH----------------------HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc
Confidence            33466 99999999998874321  00                      0111123456777777   666666654321


Q ss_pred             ccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhh--------------h---cc------------
Q 044945           98 LEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRI--------------M---HA------------  148 (296)
Q Consensus        98 ~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l--------------i---~~------------  148 (296)
                          .+..+|..+...|.+.|+.++|.+.|++..+..-. +...+..+              -   ..            
T Consensus        87 ----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  161 (327)
T 3cv0_A           87 ----KDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLL  161 (327)
T ss_dssp             ----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHH
T ss_pred             ----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHH
Confidence                23367888888889999999999999888764311 11122111              0   11            


Q ss_pred             -------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          149 -------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       149 -------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                             +.+..+|..+...|.+.|++++|...+++..+..|.+..+|..+        ..++|.+.+++..+.
T Consensus       162 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  235 (327)
T 3cv0_A          162 HAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDI  235 (327)
T ss_dssp             HHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence                   34678899999999999999999999999988877777777666        678899999887764

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

Probab=97.84  E-value=3.8e-05  Score=70.71  Aligned_cols=104  Identities=7%  Similarity=0.047  Sum_probs=14.2

Q ss_pred             eehHHHHHhh---cccHHHHHHHHHHhHhccc---------CCCccccHHHHHhcCCCccCCceehhhhhcccccccccc
Q 044945           14 VELSNGLAGC---NEFMDKANGITDRFEERAV---------SIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSR   81 (296)
Q Consensus        14 vs~n~~~~~~---~~~~~~A~~~f~~M~~~~~---------~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k   81 (296)
                      -+|+.+....   |+ +++|++.|.+......         ..|.++++..++........     +....+.++.+|+|
T Consensus        33 ~vWs~La~A~l~~g~-~~eAIdsfika~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~-----~~~i~~~Li~~Y~K  106 (449)
T 1b89_A           33 AVWSQLAKAQLQKGM-VKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR-----ESYVETELIFALAK  106 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHcCC-HHHHHHHHHcCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCc-----cchhHHHHHHHHHH
Confidence            4777654443   55 8888888876543221         04455555555443332111     11223445679999


Q ss_pred             cCCHHHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHH
Q 044945           82 SGSVRKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQM  130 (296)
Q Consensus        82 ~g~~~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M  130 (296)
                      .|++.++-+-...       |+..+|+.+-..|...|++++|...|..+
T Consensus       107 lg~l~e~e~f~~~-------pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a  148 (449)
T 1b89_A          107 TNRLAELEEFING-------PNNAHIQQVGDRCYDEKMYDAAKLLYNNV  148 (449)
T ss_dssp             --CHHHHTTTTTC-------C----------------CTTTHHHHHHHT
T ss_pred             hCCHHHHHHHHcC-------CcHHHHHHHHHHHHHcCCHHHHHHHHHHh
Confidence            9999333332333       33367888777777777777777777765

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

Probab=97.82  E-value=5.6e-06  Score=76.27  Aligned_cols=146  Identities=14%  Similarity=0.057  Sum_probs=25.7

Q ss_pred             hHHHHHhhcccHHHHHHHHHHhHhcccC---------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH-
Q 044945           16 LSNGLAGCNEFMDKANGITDRFEERAVS---------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV-   85 (296)
Q Consensus        16 ~n~~~~~~~~~~~~A~~~f~~M~~~~~~---------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~-   85 (296)
                      -+.++.++|. +++|.++++++....+=         .|.+++|+..+-..+         +...+...++.+...|++ 
T Consensus         9 ~~~ll~~~~~-ld~A~~fae~~~~~~vWs~La~A~l~~g~~~eAIdsfika~---------D~~~y~~V~~~ae~~g~~E   78 (449)
T 1b89_A            9 VQVLIEHIGN-LDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKAD---------DPSSYMEVVQAANTSGNWE   78 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHccC-HHHHHHHHHhCCChHHHHHHHHHHHHcCCHHHHHHHHHcCC---------CHHHHHHHHHHHHhCCCHH
Confidence            3457777787 99999999998664321         334444444442211         111222233444555555 


Q ss_pred             --HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHH
Q 044945           86 --RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACR  163 (296)
Q Consensus        86 --~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~  163 (296)
                        .+.++ |-.++.    |+..+.+.++.+|++.|+++++.++++                    .|+..+|+.+-+.|.
T Consensus        79 eAi~yl~-~ark~~----~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------------------~pn~~a~~~IGd~~~  133 (449)
T 1b89_A           79 ELVKYLQ-MARKKA----RESYVETELIFALAKTNRLAELEEFIN--------------------GPNNAHIQQVGDRCY  133 (449)
T ss_dssp             -----------------------------------CHHHHTTTTT--------------------CC-------------
T ss_pred             HHHHHHH-HHHHhC----ccchhHHHHHHHHHHhCCHHHHHHHHc--------------------CCcHHHHHHHHHHHH
Confidence              33222 222222    334555566666666666666555553                    456667777777777


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHH
Q 044945          164 VHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       164 ~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M  204 (296)
                      ..|++++|...|..+.        .|.-+        .+++|.+.+.+.
T Consensus       134 ~~g~yeeA~~~Y~~a~--------n~~~LA~~L~~Lg~yq~AVea~~KA  174 (449)
T 1b89_A          134 DEKMYDAAKLLYNNVS--------NFGRLASTLVHLGEYQAAVDGARKA  174 (449)
T ss_dssp             ---CTTTHHHHHHHTT--------CHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHhh--------hHHHHHHHHHHhccHHHHHHHHHHc
Confidence            7778887777777651        23333        567777777666

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

Probab=97.82  E-value=0.00034  Score=56.62  Aligned_cols=145  Identities=12%  Similarity=-0.037  Sum_probs=88.5

Q ss_pred             HhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCc
Q 044945           21 AGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDF   97 (296)
Q Consensus        21 ~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~   97 (296)
                      ...|+ +++|.+.|++..+....  . +.                     .+..+...|.+.|+.   .+.|++..+.+-
T Consensus        19 ~~~~~-~~~A~~~~~~~~~~~~~--~-~~---------------------~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~   73 (225)
T 2vq2_A           19 MRGQD-YRQATASIEDALKSDPK--N-EL---------------------AWLVRAEIYQYLKVNDKAQESFRQALSIKP   73 (225)
T ss_dssp             HHTTC-HHHHHHHHHHHHHHCTT--C-HH---------------------HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHhh-HHHHHHHHHHHHHhCcc--c-hH---------------------HHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            33476 99999999998875321  0 00                     111123455666666   555555543211


Q ss_pred             ccCCCceeeHHHHHHHHhcc-CChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 044945           98 LEYCDYAISRNSITAGCGQN-GPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVAD  176 (296)
Q Consensus        98 ~~~~p~~~t~n~li~~~~~~-g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~  176 (296)
                          .+..+|..+...|.+. |+.++|.+.|++..+.+..|            .+...|..+-..|.+.|++++|...|+
T Consensus        74 ----~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~------------~~~~~~~~l~~~~~~~~~~~~A~~~~~  137 (225)
T 2vq2_A           74 ----DSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYP------------TPYIANLNKGICSAKQGQFGLAEAYLK  137 (225)
T ss_dssp             ----TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCS------------CHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ----CChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCc------------chHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                1235677777777888 88888888887776622211            234566666777777777777777777


Q ss_pred             HHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          177 MILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       177 ~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +..+..|.+...|..+        ..++|...+++..+
T Consensus       138 ~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  175 (225)
T 2vq2_A          138 RSLAAQPQFPPAFKELARTKMLAGQLGDADYYFKKYQS  175 (225)
T ss_dssp             HHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7776666555555544        45667777766655

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=97.81  E-value=0.00027  Score=60.74  Aligned_cols=111  Identities=11%  Similarity=0.039  Sum_probs=88.9

Q ss_pred             ccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHH
Q 044945           79 PSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVW  155 (296)
Q Consensus        79 y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~  155 (296)
                      |.+.|+.   .+.|++..+.+-    .+...|..+...|.+.|+.++|.+.|++..+..              +.+..+|
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~  209 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMNP----NDAQLHASLGVLYNLSNNYDSAAANLRRAVELR--------------PDDAQLW  209 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhCC----CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--------------CCcHHHH
Confidence            6666777   666776654321    234789999999999999999999999987742              2457789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          156 LTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       156 ~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      ..+-..|.+.|++++|...|++..+..|.+..+|..+        ..++|.+.+++..+.
T Consensus       210 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          210 NKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999999999999999999999998888777777766        678999988887654

>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=97.74  E-value=5.2e-05  Score=70.49  Aligned_cols=114  Identities=7%  Similarity=-0.056  Sum_probs=83.0

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   .+.|++..+.+-    .+..+|..+...|.+.|+.++|.+.|++..+..              +.+..
T Consensus       284 ~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--------------~~~~~  345 (537)
T 3fp2_A          284 LTLADKENSQEFFKFFQKAVDLNP----EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN--------------PENVY  345 (537)
T ss_dssp             HHTCCSSCCHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCSH
T ss_pred             HHHHHhcCHHHHHHHHHHHhccCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--------------CCCHH
Confidence            456666776   556655543221    123567777777777788888887777776632              23457


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEG  208 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g  208 (296)
                      .|..+-..|.+.|++++|...+++..+..|.+...|..+        ..++|...+++..+..
T Consensus       346 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          346 PYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            788899999999999999999999998888777777766        6788888888877654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=97.72  E-value=2.2e-05  Score=72.42  Aligned_cols=161  Identities=7%  Similarity=-0.147  Sum_probs=105.5

Q ss_pred             hcccHHHHHHHHHHhHh-----c--cc---------------------CCCccccHHHHHhcCCCccCCceehhhhhccc
Q 044945           23 CNEFMDKANGITDRFEE-----R--AV---------------------SIGHYADLDGISDQLPSSSGGRQVDIHFDGGV   74 (296)
Q Consensus        23 ~~~~~~~A~~~f~~M~~-----~--~~---------------------~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~   74 (296)
                      .|+ +++|.+.|+++.+     .  ..                     ..|.+..|...+...-.....     ...+..
T Consensus       202 ~~~-~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~-----~~~~~~  275 (514)
T 2gw1_A          202 PES-YDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR-----VNSYIY  275 (514)
T ss_dssp             TTH-HHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC-----HHHHHH
T ss_pred             hcc-HHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc-----HHHHHH
Confidence            455 9999999999887     2  00                     044445555544433222111     111122


Q ss_pred             ccccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC
Q 044945           75 DGLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST  151 (296)
Q Consensus        75 ~i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~  151 (296)
                      +...|.+.|+.   .+.|++..+.+-    .+...|..+...|.+.|+.++|.+.|++..+..              +.+
T Consensus       276 l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~  337 (514)
T 2gw1_A          276 MALIMADRNDSTEYYNYFDKALKLDS----NNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD--------------PEN  337 (514)
T ss_dssp             HHHHHHTSSCCTTGGGHHHHHHTTCT----TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC--------------SSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhhcCc----CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--------------hhh
Confidence            23556666666   555555544321    123567777777888888888888887776642              235


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          152 ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       152 ~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      ..+|..+...|.+.|++++|...+++..+..|.+...|..+        ..++|...+++..+.
T Consensus       338 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  401 (514)
T 2gw1_A          338 IFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL  401 (514)
T ss_dssp             SHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            67888889999999999999999999988877777776666        678888888887653

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

Probab=97.65  E-value=0.00035  Score=57.49  Aligned_cols=112  Identities=12%  Similarity=0.037  Sum_probs=59.2

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|+.   .+.|++..+.+-    .+...|..+...|.+.|+.++|.+.|++..+..              +.+..
T Consensus        65 ~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~  126 (243)
T 2q7f_A           65 NLLSSVNELERALAFYDKALELDS----SAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG--------------MENGD  126 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--------------CCSHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCC----cchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--------------CCCHH
Confidence            344555555   444444433211    122556666666666666666666666665532              12344


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .|..+...|.+.|++++|...+++..+..|.+...|..+        ..++|.+.+++..+
T Consensus       127 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  187 (243)
T 2q7f_A          127 LFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEALSQFAAVTE  187 (243)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            555555566666666666666666555554444444433        34555555555544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=97.65  E-value=0.00015  Score=63.03  Aligned_cols=89  Identities=8%  Similarity=0.022  Sum_probs=61.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|.+.|++..+..              +.+..+|..+-..|.+.|++++|...|++..+..|.
T Consensus       155 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  220 (359)
T 3ieg_A          155 ELRELRAECFIKEGEPRKAISDLKAASKLK--------------SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD  220 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--------------SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc
Confidence            445555556666666666666666554431              346678888888889999999999999988887776


Q ss_pred             CcchhHHh--------------------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------------------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------------------~~~~a~~l~~~M~~~  207 (296)
                      +...+..+                    ..++|...+++..+.
T Consensus       221 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  263 (359)
T 3ieg_A          221 HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT  263 (359)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            65544311                    578888888877664

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=97.64  E-value=0.00069  Score=58.23  Aligned_cols=165  Identities=12%  Similarity=-0.081  Sum_probs=97.5

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccC--------------CC-ccccHHHHHhcCCCccCCceehhhhhcccccccccccCC
Q 044945           20 LAGCNEFMDKANGITDRFEERAVS--------------IG-HYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGS   84 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~--------------~g-~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~   84 (296)
                      +...|+ .++|..+|+++.+....              .| ....|...+...-......    ...+..+...|.+.|+
T Consensus        66 ~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~----~~~~~~l~~~~~~~~~  140 (330)
T 3hym_B           66 LVELNK-ANELFYLSHKLVDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTY----GPAWIAYGHSFAVESE  140 (330)
T ss_dssp             HHHHTC-HHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTTC----THHHHHHHHHHHHHTC
T ss_pred             HHHhhh-HHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCcc----HHHHHHHHHHHHHccC
Confidence            344476 89999999988775532              44 4555555554433222110    0112233467777888


Q ss_pred             H---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHH
Q 044945           85 V---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSA  161 (296)
Q Consensus        85 ~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~  161 (296)
                      .   .+.|++..+.+-    .+..+|..+-..|.+.|+.++|.+.|++..+..  |            .+..+|..+-..
T Consensus       141 ~~~A~~~~~~a~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~------------~~~~~~~~l~~~  202 (330)
T 3hym_B          141 HDQAMAAYFTAAQLMK----GCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA--P------------EDPFVMHEVGVV  202 (330)
T ss_dssp             HHHHHHHHHHHHHHTT----TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--T------------TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcc----ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--C------------CChHHHHHHHHH
Confidence            8   666666554321    123667778888888999999999988877643  2            244556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhcC---------CCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          162 CRVHRNVELAEKVADMILMIE---------PNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       162 ~~~~g~~~~A~~~~~~m~~~~---------~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |.+.|++++|...+++..+..         +.+..+|..+        ..++|...+++..+.
T Consensus       203 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  265 (330)
T 3hym_B          203 AFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVL  265 (330)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhh
Confidence            666666666666666665432         2223344444        456666666665543

>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=97.62  E-value=9.1e-05  Score=61.72  Aligned_cols=67  Identities=15%  Similarity=0.108  Sum_probs=40.8

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+...|.+.|++++|.+.|++..+..  |            .+...|..+-..|.+.|++++|...+++..+..|.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~------------~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  103 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID--P------------SSADAHAALAVVFQTEMEPKLADEEYRKALASDSR  103 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC--C------------ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            668888888899999999999999887753  2            22334444444444444444444444444444333


Q ss_pred             C
Q 044945          185 N  185 (296)
Q Consensus       185 ~  185 (296)
                      +
T Consensus       104 ~  104 (252)
T 2ho1_A          104 N  104 (252)
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=97.59  E-value=7.7e-05  Score=61.53  Aligned_cols=176  Identities=12%  Similarity=0.056  Sum_probs=108.8

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                      -..|.+.|++   ...|++..+.+-    .+...|..+...|.+.|+.++|.+.|++..+..              +.+.
T Consensus        30 a~~~~~~~~~~~A~~~~~~~l~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~   91 (243)
T 2q7f_A           30 MGRGSEFGDYEKAAEAFTKAIEENK----EDAIPYINFANLLSSVNELERALAFYDKALELD--------------SSAA   91 (243)
T ss_dssp             ------------CCTTHHHHHTTCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCH
T ss_pred             HHHHHHhhCHHHHHHHHHHHHHhCc----ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--------------Ccch
Confidence            3566777777   556666554321    234788889999999999999999999987753              2367


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecch--
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEE--  222 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~--  222 (296)
                      .+|..+...|.+.|++++|...+++..+..|.+...|..+        ..++|.+.+++..+.  .|+.......++.  
T Consensus        92 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~  169 (243)
T 2q7f_A           92 TAYYGAGNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCL  169 (243)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHH
Confidence            8888999999999999999999999998887777666666        689999999888764  3432222211111  


Q ss_pred             ---hhhhhhhhhhhHHHHHHHHhhcCCCC-CeEEEEecccCccchhhHHHHHhhhhcc
Q 044945          223 ---EQKKNILYYHGERLALVFGIISTPDG-TTIRVIKNLPSLRGLRHGNKVVSKIVHR  276 (296)
Q Consensus       223 ---~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ii~~~~k~g~~~~A~~~f~~m~~r  276 (296)
                         +...........    .... .+... ....+...|.+.|+.++|.+.|++..+.
T Consensus       170 ~~~~~~~~A~~~~~~----~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          170 ANEGMLDEALSQFAA----VTEQ-DPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHTCCHHHHHHHHH----HHHH-CTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHH----HHHh-CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence               111111111111    1111 11100 0011244578899999999999988753

>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=97.57  E-value=0.0008  Score=49.22  Aligned_cols=121  Identities=12%  Similarity=0.207  Sum_probs=92.3

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      .|..+...|.+.|+.++|.++|+++.+.+              +.+...|..+...|...|++++|...|+++.+..|.+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~   68 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD--------------PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS   68 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC--------------CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCc
Confidence            57888899999999999999999997753              2356778888999999999999999999999887777


Q ss_pred             cchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecchhhhhhhhhhhhHHHHHHHHhhcCCCCCeEEEEecc
Q 044945          186 TGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTIRVIKNL  257 (296)
Q Consensus       186 ~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~~~  257 (296)
                      ...|..+        ..++|.+.++++.+..  |+...               ..       ..+           ...|
T Consensus        69 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~---------------~~-------~~l-----------a~~~  113 (136)
T 2fo7_A           69 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAE---------------AW-------YNL-----------GNAY  113 (136)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHH---------------HH-------HHH-----------HHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChH---------------HH-------HHH-----------HHHH
Confidence            6666655        6789999998887642  32110               00       001           2345


Q ss_pred             cCccchhhHHHHHhhhhc
Q 044945          258 PSLRGLRHGNKVVSKIVH  275 (296)
Q Consensus       258 ~k~g~~~~A~~~f~~m~~  275 (296)
                      .+.|+.+.|.+.|.++..
T Consensus       114 ~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A          114 YKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHc
Confidence            678999999999988764

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

Probab=97.54  E-value=0.0012  Score=47.75  Aligned_cols=89  Identities=16%  Similarity=0.259  Sum_probs=75.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+...|.+.|+.++|.+.|.+..+..              +.+..+|..+...|.+.|++++|...|+++.+..|.
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~   75 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD--------------PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN   75 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--------------cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc
Confidence            678889999999999999999999997753              235678889999999999999999999999988777


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +..+|..+        ..++|...+++..+.
T Consensus        76 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           76 NAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            77666665        678888888887764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=97.52  E-value=0.00011  Score=60.80  Aligned_cols=114  Identities=11%  Similarity=-0.027  Sum_probs=87.8

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|+.   ...|++..+.+-    .+...|..+-..|.+.|+.++|++.|++..+..  |            .+..
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~p----~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--P------------~~~~   74 (217)
T 2pl2_A           13 VQLYALGRYDAALTLFERALKENP----QDPEALYWLARTQLKLGLVNPALENGKTLVART--P------------RYLG   74 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTSS----SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CcHH
Confidence            356677777   666666554321    233678888888899999999999998887643  2            3567


Q ss_pred             HHHHHHHHHHhc-----------CCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCC
Q 044945          154 VWLTLLSACRVH-----------RNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEG  208 (296)
Q Consensus       154 ~~~~Li~~~~~~-----------g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g  208 (296)
                      .|..+-..|.+.           |++++|...|++..+..|.+...|..+        ..++|...|++..+..
T Consensus        75 a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  148 (217)
T 2pl2_A           75 GYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE  148 (217)
T ss_dssp             HHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc
Confidence            788888888888           999999999999999888888777766        6799999999888766

>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=97.51  E-value=0.0017  Score=50.50  Aligned_cols=112  Identities=13%  Similarity=0.022  Sum_probs=61.8

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENV  154 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~  154 (296)
                      .|.+.|+.   .+.|++..+.+-    .+...|..+...|.+.|+.++|.+.|++..+..              +.+...
T Consensus        17 ~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~   78 (186)
T 3as5_A           17 SHAKAGRYSQAVMLLEQVYDADA----FDVDVALHLGIAYVKTGAVDRGTELLERSLADA--------------PDNVKV   78 (186)
T ss_dssp             HHHHHTCHHHHHHHHTTTCCTTS----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCc----cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--------------CCCHHH
Confidence            44555555   555555443321    123556666666667777777777776665532              123445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          155 WLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       155 ~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |..+...|...|++++|...+++..+..|.+...|..+        ..++|.+.+++..+.
T Consensus        79 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  139 (186)
T 3as5_A           79 ATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGL  139 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhc
Confidence            55555666666666666666666655555444444433        455666666555443

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

Probab=97.49  E-value=0.00099  Score=55.02  Aligned_cols=155  Identities=8%  Similarity=-0.018  Sum_probs=107.5

Q ss_pred             hhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccC--C
Q 044945           22 GCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVR--D   96 (296)
Q Consensus        22 ~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~--~   96 (296)
                      ..|+ +++|.+.|++..+.. .   .+.                     .+..+...|.+.|+.   .+.|++..+.  +
T Consensus        17 ~~~~-~~~A~~~~~~a~~~~-~---~~~---------------------~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~   70 (258)
T 3uq3_A           17 KARQ-FDEAIEHYNKAWELH-K---DIT---------------------YLNNRAAAEYEKGEYETAISTLNDAVEQGRE   70 (258)
T ss_dssp             HTTC-HHHHHHHHHHHHHHS-C---CTH---------------------HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             Hhcc-HHHHHHHHHHHHHhh-c---cHH---------------------HHHHHHHHHHHcccHHHHHHHHHHHHHhCcc
Confidence            3465 999999999988754 2   000                     111223566777777   5566654432  1


Q ss_pred             cccCCCc----eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhh-------------hcc-CCCHHHHHHH
Q 044945           97 FLEYCDY----AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRI-------------MHA-GSTENVWLTL  158 (296)
Q Consensus        97 ~~~~~p~----~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l-------------i~~-~p~~~~~~~L  158 (296)
                      .   .|+    ..+|..+-..|.+.|+.++|.+.|++..+..  |+..++..+             +.. +.+...|..+
T Consensus        71 ~---~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  145 (258)
T 3uq3_A           71 M---RADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTADILTKLRNAEKELKKAEAEAYVNPEKAEEARLE  145 (258)
T ss_dssp             T---TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             c---ccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chhHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHH
Confidence            1   111    3788899999999999999999999988743  443332222             111 2345678888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          159 LSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       159 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      -..|...|++++|...|++..+..|.+...|..+        .+++|...+++..+.
T Consensus       146 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  202 (258)
T 3uq3_A          146 GKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEK  202 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            8899999999999999999988888777777666        678898888888764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=97.42  E-value=0.0011  Score=55.60  Aligned_cols=72  Identities=18%  Similarity=0.030  Sum_probs=41.6

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ..+|..+...|.+.|+.++|.+.|++..+..  |            .+..+|..+-..|.+.|++++|...|++..+..|
T Consensus        43 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~------------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~  108 (275)
T 1xnf_A           43 AQLLYERGVLYDSLGLRALARNDFSQALAIR--P------------DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP  108 (275)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--C------------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHcC--C------------CcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCc
Confidence            3677888888888888888888888887643  2            1233444444444444444444444444444433


Q ss_pred             CCcchh
Q 044945          184 NNTGAY  189 (296)
Q Consensus       184 ~~~~~y  189 (296)
                      .+..+|
T Consensus       109 ~~~~~~  114 (275)
T 1xnf_A          109 TYNYAH  114 (275)
T ss_dssp             TCTHHH
T ss_pred             cccHHH
Confidence            333333

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

Probab=97.39  E-value=0.0012  Score=53.37  Aligned_cols=145  Identities=9%  Similarity=-0.057  Sum_probs=106.2

Q ss_pred             HhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhccccccccccc-CCH---HHHHhhcccCC
Q 044945           21 AGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRS-GSV---RKVFEIMAVRD   96 (296)
Q Consensus        21 ~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~-g~~---~~~f~~M~~~~   96 (296)
                      ...|+ .++|.+.|++..+....  .   .                   ..+..+...|.+. |+.   .+.|++..+..
T Consensus        53 ~~~~~-~~~A~~~~~~a~~~~~~--~---~-------------------~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (225)
T 2vq2_A           53 QYLKV-NDKAQESFRQALSIKPD--S---A-------------------EINNNYGWFLCGRLNRPAESMAYFDKALADP  107 (225)
T ss_dssp             HHTTC-HHHHHHHHHHHHHHCTT--C---H-------------------HHHHHHHHHHHTTTCCHHHHHHHHHHHHTST
T ss_pred             HHcCC-hHHHHHHHHHHHHhCCC--C---h-------------------HHHHHHHHHHHHhcCcHHHHHHHHHHHHcCc
Confidence            33476 99999999998774311  0   0                   0111224567788 888   77777776622


Q ss_pred             cccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044945           97 FLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVA  175 (296)
Q Consensus        97 ~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~  175 (296)
                      .   .| +...|..+...|.+.|+.++|.+.|++..+..              +.+...|..+...|.+.|++++|...+
T Consensus       108 ~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~la~~~~~~~~~~~A~~~~  170 (225)
T 2vq2_A          108 T---YPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--------------PQFPPAFKELARTKMLAGQLGDADYYF  170 (225)
T ss_dssp             T---CSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             C---CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------CCCchHHHHHHHHHHHcCCHHHHHHHH
Confidence            2   33 34678899999999999999999999987743              235678889999999999999999999


Q ss_pred             HHHHhcCC-CCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          176 DMILMIEP-NNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       176 ~~m~~~~~-~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      ++..+..| .+...+..+        ..+++..+++.+.+.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          171 KKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            99988877 676666555        567887888777643

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=97.34  E-value=0.0019  Score=55.90  Aligned_cols=82  Identities=9%  Similarity=-0.009  Sum_probs=60.6

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      ..|.+.|+.++|.+.|++..+..              +.+...|..+-..|.+.|++++|...+++..+..|.+..+|..
T Consensus       128 ~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  193 (359)
T 3ieg_A          128 LDAFDGADYTAAITFLDKILEVC--------------VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYK  193 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC--------------CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            44445555555555555544321              3467789999999999999999999999999888877777776


Q ss_pred             h--------hHHHHHHHHHHHHhC
Q 044945          192 L--------INEALKDLLERMEQE  207 (296)
Q Consensus       192 l--------~~~~a~~l~~~M~~~  207 (296)
                      +        ..++|...+++..+.
T Consensus       194 la~~~~~~~~~~~A~~~~~~a~~~  217 (359)
T 3ieg_A          194 ISTLYYQLGDHELSLSEVRECLKL  217 (359)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh
Confidence            6        678888888887754

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=97.28  E-value=0.00085  Score=55.24  Aligned_cols=21  Identities=19%  Similarity=0.132  Sum_probs=15.5

Q ss_pred             HHhhcccHHHHHHHHHHhHhcc
Q 044945           20 LAGCNEFMDKANGITDRFEERA   41 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~   41 (296)
                      +...|+ +++|...|++..+..
T Consensus        15 ~~~~g~-~~~A~~~~~~al~~~   35 (217)
T 2pl2_A           15 LYALGR-YDAALTLFERALKEN   35 (217)
T ss_dssp             HHHTTC-HHHHHHHHHHHHTTS
T ss_pred             HHHcCC-HHHHHHHHHHHHHhC
Confidence            444476 999999999887654

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

Probab=97.24  E-value=0.0019  Score=46.67  Aligned_cols=97  Identities=18%  Similarity=0.248  Sum_probs=76.5

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                      ...|.+.|++   .+.|++..+.+-    .+..+|..+...|.+.|+.++|...|+++.+..              +.+.
T Consensus        16 ~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~   77 (125)
T 1na0_A           16 GNAYYKQGDYDEAIEYYQKALELDP----NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--------------PNNA   77 (125)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCc----CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--------------CccH
Confidence            3567778888   777777654321    234688999999999999999999999998743              2466


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      .+|..+-..|.+.|++++|...|++..+..|.+...+.
T Consensus        78 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  115 (125)
T 1na0_A           78 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQ  115 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHH
Confidence            78889999999999999999999999888776654443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=97.23  E-value=0.003  Score=49.78  Aligned_cols=125  Identities=8%  Similarity=0.098  Sum_probs=79.5

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-----
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-----  148 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-----  148 (296)
                      +.|.+.|++   .+.|++..+.+-    -+..+|..+-..|.+.|+.++|.+.+.......-.. ...+..+-..     
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   87 (184)
T 3vtx_A           13 DKKRTKGDFDGAIRAYKKVLKADP----NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTTS-AEAYYILGSANFMID   87 (184)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCC-HHHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCchh-HHHHHHHHHHHHHcC
Confidence            456667777   566665543211    122567777888888888888888888776643211 1111111000     


Q ss_pred             ----------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHH
Q 044945          149 ----------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       149 ----------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M  204 (296)
                                      +-+...|..+-..|.+.|++++|...|++..+..|.+..+|..+        ..++|.+.|++-
T Consensus        88 ~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  167 (184)
T 3vtx_A           88 EKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAVKYFKKA  167 (184)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                            33566777777788888888888888888877777777666666        567777777766


Q ss_pred             Hh
Q 044945          205 EQ  206 (296)
Q Consensus       205 ~~  206 (296)
                      .+
T Consensus       168 l~  169 (184)
T 3vtx_A          168 LE  169 (184)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=97.19  E-value=0.0048  Score=51.52  Aligned_cols=146  Identities=9%  Similarity=-0.044  Sum_probs=102.5

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCC
Q 044945           20 LAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRD   96 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~   96 (296)
                      +...|+ +++|.+.|++..+....  .. .                     .+..+...|.+.|+.   .+.|++..+..
T Consensus        13 ~~~~~~-~~~A~~~~~~~l~~~p~--~~-~---------------------~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   67 (272)
T 3u4t_A           13 LFKNNN-YAEAIEVFNKLEAKKYN--SP-Y---------------------IYNRRAVCYYELAKYDLAQKDIETYFSKV   67 (272)
T ss_dssp             HHTTTC-HHHHHHHHHHHHHTTCC--CS-T---------------------THHHHHHHHHHTTCHHHHHHHHHHHHTTS
T ss_pred             HHHhcC-HHHHHHHHHHHHHhCCC--cH-H---------------------HHHHHHHHHHHHhhHHHHHHHHHHHHhcc
Confidence            344466 99999999998875321  00 0                     011123467777888   66666655522


Q ss_pred             cccCCCcee--eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 044945           97 FLEYCDYAI--SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKV  174 (296)
Q Consensus        97 ~~~~~p~~~--t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~  174 (296)
                      -   .|+..  +|..+-..|.+.|+.++|.+.|++..+..              +.+..+|..+-..|.+.|++++|...
T Consensus        68 ~---~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~--------------~~~~~~~~~l~~~~~~~~~~~~A~~~  130 (272)
T 3u4t_A           68 N---ATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD--------------TTRLDMYGQIGSYFYNKGNFPLAIQY  130 (272)
T ss_dssp             C---TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             C---chhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--------------cccHHHHHHHHHHHHHccCHHHHHHH
Confidence            2   23322  38888899999999999999999987742              23556788888899999999999999


Q ss_pred             HHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          175 ADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       175 ~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |++..+..|.+...|..+        .+++|.+.|++..+.
T Consensus       131 ~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  171 (272)
T 3u4t_A          131 MEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL  171 (272)
T ss_dssp             HGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            998887777666655554        578888888887764

>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=97.18  E-value=0.002  Score=50.09  Aligned_cols=143  Identities=13%  Similarity=0.042  Sum_probs=102.7

Q ss_pred             hhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCcc
Q 044945           22 GCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDFL   98 (296)
Q Consensus        22 ~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~   98 (296)
                      ..|+ +++|.+.|++..+....  .   .                   ..+..+...|.+.|+.   .+.|++..+.+- 
T Consensus        20 ~~~~-~~~A~~~~~~~~~~~~~--~---~-------------------~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-   73 (186)
T 3as5_A           20 KAGR-YSQAVMLLEQVYDADAF--D---V-------------------DVALHLGIAYVKTGAVDRGTELLERSLADAP-   73 (186)
T ss_dssp             HHTC-HHHHHHHHTTTCCTTSC--C---H-------------------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-
T ss_pred             HhcC-HHHHHHHHHHHHHhCcc--C---h-------------------HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-
Confidence            3366 99999999988764211  0   0                   0111223566677887   666666554321 


Q ss_pred             cCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044945           99 EYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMI  178 (296)
Q Consensus        99 ~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  178 (296)
                         .+...|..+...|.+.|+.++|.+.|++..+..              +.+...|..+-..|.+.|++++|...+++.
T Consensus        74 ---~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~  136 (186)
T 3as5_A           74 ---DNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN--------------PINFNVRFRLGVALDNLGRFDEAIDSFKIA  136 (186)
T ss_dssp             ---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ---CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--------------cHhHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence               233678888899999999999999999987752              245677888888999999999999999999


Q ss_pred             HhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          179 LMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       179 ~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .+..|.+...|..+        ..++|.+.+++..+.
T Consensus       137 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          137 LGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            88877676666665        678888888877654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=97.14  E-value=0.0019  Score=54.05  Aligned_cols=145  Identities=14%  Similarity=0.010  Sum_probs=103.6

Q ss_pred             cccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCcccC
Q 044945           24 NEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDFLEY  100 (296)
Q Consensus        24 ~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~~~  100 (296)
                      ++ +++|.+.|+++.+....  .-+...                  ..+..+...|.+.|++   ...|++..+.+-   
T Consensus        19 ~~-~~~A~~~~~~~~~~~~~--~~~~~~------------------~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~---   74 (275)
T 1xnf_A           19 LQ-QEVILARMEQILASRAL--TDDERA------------------QLLYERGVLYDSLGLRALARNDFSQALAIRP---   74 (275)
T ss_dssp             HH-HHHHHHHHHHHHTSSCC--CHHHHH------------------HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC---
T ss_pred             ch-HHHHHHHHHHHHhcccc--cCchhH------------------HHHHHHHHHHHHcccHHHHHHHHHHHHHcCC---
Confidence            54 99999999998875211  001100                  1112224567788888   777777655321   


Q ss_pred             CCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          101 CDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       101 ~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                       .+..+|..+-..|.+.|+.++|.+.|++..+..              +.+..+|..+-..|.+.|++++|...|++..+
T Consensus        75 -~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  139 (275)
T 1xnf_A           75 -DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--------------PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ  139 (275)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--------------ccccHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence             234789999999999999999999999988742              23567889999999999999999999999998


Q ss_pred             cCCCCcchhHHh-------hHHHHHHHHHHHHhC
Q 044945          181 IEPNNTGAYVIL-------INEALKDLLERMEQE  207 (296)
Q Consensus       181 ~~~~~~~~y~~l-------~~~~a~~l~~~M~~~  207 (296)
                      ..|.+...+..+       ..++|...+.+....
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A          140 DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            877665333222       568888888766654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.06  E-value=0.0057  Score=47.63  Aligned_cols=90  Identities=12%  Similarity=0.081  Sum_probs=77.4

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|.+.|++..+..              +-+...|..+=..|.+.|++++|...|++..+..|.
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--------------P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~  102 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD--------------FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN  102 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC
Confidence            467778889999999999999999987743              246788999999999999999999999999999998


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhCC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQEG  208 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~g  208 (296)
                      +...|..+        ..++|...|++-.+..
T Consensus       103 ~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          103 DYTPVFHTGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            88777777        7899999998877653

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

Probab=96.97  E-value=0.00052  Score=56.78  Aligned_cols=90  Identities=6%  Similarity=-0.016  Sum_probs=65.0

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC--
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST--  151 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~--  151 (296)
                      ..|.+.|++   ...|++..+.+     ++...|..+-..|.+.|+.++|.+.|++..+..  |+.         .|+  
T Consensus        13 ~~~~~~~~~~~A~~~~~~a~~~~-----~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~---------~~~~~   76 (258)
T 3uq3_A           13 NKFYKARQFDEAIEHYNKAWELH-----KDITYLNNRAAAEYEKGEYETAISTLNDAVEQG--REM---------RADYK   76 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-----CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHT---------TCCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhh-----ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC--ccc---------ccchH
Confidence            456667777   67777766544     345677888888888888888888888876532  110         112  


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          152 --ENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       152 --~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                        ..+|..+-..|.+.|++++|...|++..+..
T Consensus        77 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  109 (258)
T 3uq3_A           77 VISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH  109 (258)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence              5788888999999999999999999988753

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=96.93  E-value=0.0011  Score=55.50  Aligned_cols=123  Identities=8%  Similarity=-0.024  Sum_probs=93.2

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   ...|++..+.+-    .+...|..+...|.+.|+.++|++.|++..+.+-.|           .....
T Consensus        11 ~~~~~~~~~~~A~~~~~~~l~~~p----~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-----------~~~~~   75 (272)
T 3u4t_A           11 DFLFKNNNYAEAIEVFNKLEAKKY----NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNAT-----------KAKSA   75 (272)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHTTC----CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTT-----------TCCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCch-----------hHHHH
Confidence            456677888   777777655421    122489999999999999999999999998743211           12345


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccc
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEV  216 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~  216 (296)
                      .|..+-..|.+.|++++|...|++..+..|.+...|..+        .+++|...+++..+.  .|+....
T Consensus        76 ~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~  144 (272)
T 3u4t_A           76 DFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKV  144 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHH
Confidence            688888999999999999999999999888887777777        678998888776654  5654433

>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=96.88  E-value=0.01  Score=45.63  Aligned_cols=89  Identities=10%  Similarity=0.012  Sum_probs=74.4

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..+.+.|+.++|...|++.....              +.+...|..+=..|.+.|++++|...|++..+..|.
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--------------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~   87 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD--------------HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX   87 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC--------------cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence            567778889999999999999999887643              246778888888999999999999999999998888


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...|..+        ..++|...|++..+.
T Consensus        88 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           88 EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            87777666        678898888876653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=96.87  E-value=0.0095  Score=43.53  Aligned_cols=91  Identities=13%  Similarity=0.187  Sum_probs=69.3

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +...|..+-..|.+.|+.++|.+.|++..+..  |            .+...|..+-..|...|++++|...+++..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--~------------~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~   80 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN--P------------KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE   80 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC--T------------TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--C------------CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            44568888888889999999999998876642  2            356777888888888899999999998888877


Q ss_pred             CCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          183 PNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       183 ~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |.+...|..+        ..++|.+.+++..+.
T Consensus        81 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           81 PTFIKGYTRKAAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            7666555555        567888877776653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=96.81  E-value=0.014  Score=43.53  Aligned_cols=92  Identities=8%  Similarity=0.071  Sum_probs=74.9

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      .|.-.=..|.+.|++++|++.|++-.+..              +.+...|.-+-..|.+.|++++|...|++..+..|.+
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~--------------p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~   80 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD--------------PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKF   80 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhh
Confidence            45556678899999999999999987643              2467888888899999999999999999999988888


Q ss_pred             cchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          186 TGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       186 ~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      ...|..+        .+++|.+.|++-.+.  .|+.
T Consensus        81 ~~a~~~lg~~~~~~~~~~~A~~~~~~al~l--~P~~  114 (126)
T 4gco_A           81 IKGYIRKAACLVAMREWSKAQRAYEDALQV--DPSN  114 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcCC
Confidence            8777777        678888888877653  4553

>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=96.80  E-value=0.015  Score=41.29  Aligned_cols=89  Identities=11%  Similarity=0.044  Sum_probs=68.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+...+.+.|++++|.+.|++.....              +.+...|..+-..|.+.|++++|...+++..+..|.
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~   70 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD--------------PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD   70 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC--------------CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc
Confidence            467778888889999999999999887642              235667788888888899999999999988887776


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...|..+        ..++|.+.+++..+.
T Consensus        71 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           71 WGKGYSRKAAALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            66555555        567888888776653

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=96.79  E-value=0.014  Score=44.09  Aligned_cols=89  Identities=12%  Similarity=0.002  Sum_probs=73.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..+..+-..+.+.|++++|.+.|++.....              +.+...|..+=..|.+.|++++|...|++..+..|.
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--------------p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~   84 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD--------------HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN   84 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC--------------CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence            456667788899999999999999987643              246778888888999999999999999999998888


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...|..+        ..++|.+.|++..+.
T Consensus        85 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           85 EPRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            87776666        678888888877654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=96.78  E-value=0.0025  Score=50.30  Aligned_cols=151  Identities=13%  Similarity=0.061  Sum_probs=93.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|.-+=..|.+.|++++|++.|++-.+..  |            -+..+|..+-..|.+.|++++|...++...+..+.
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~   71 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKAD--P------------NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT   71 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch
Confidence            568888899999999999999999987642  3            35677888888888999999999998888877776


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecch-----hhhhhhhhhhhHHHHHHHHhhcCCCCCe-
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEE-----EQKKNILYYHGERLALVFGIISTPDGTT-  250 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  250 (296)
                      +...+..+        ..+.|...+.+....  .|+.......++.     +...+.+.....    .... .+..... 
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~----~l~~-~p~~~~~~  144 (184)
T 3vtx_A           72 SAEAYYILGSANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEK----TISI-KPGFIRAY  144 (184)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH----HHHH-CTTCHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHH----HHHh-cchhhhHH
Confidence            66555555        566777766665543  3443222221111     111111111111    1111 1111000 


Q ss_pred             EEEEecccCccchhhHHHHHhhhhcc
Q 044945          251 IRVIKNLPSLRGLRHGNKVVSKIVHR  276 (296)
Q Consensus       251 ~~ii~~~~k~g~~~~A~~~f~~m~~r  276 (296)
                      ..+-..|.+.|+.++|.+.|++..+.
T Consensus       145 ~~lg~~~~~~g~~~~A~~~~~~al~~  170 (184)
T 3vtx_A          145 QSIGLAYEGKGLRDEAVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence            00123478899999999999887643

>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=96.72  E-value=0.02  Score=42.28  Aligned_cols=91  Identities=11%  Similarity=-0.012  Sum_probs=74.4

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +...|..+-..|.+.|++++|...|.+..+..              +.+...|..+-..|...|++++|...+++..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~   73 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN--------------PLVAVYYTNRALCYLKMQQPEQALADCRRALELD   73 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--------------cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34678888899999999999999999987743              2356788888899999999999999999999888


Q ss_pred             CCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          183 PNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       183 ~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |.+...|..+        ..++|...|.+..+.
T Consensus        74 p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           74 GQSVKAHFFLGQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            8777777666        678888888776653

>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=96.72  E-value=0.0031  Score=58.32  Aligned_cols=116  Identities=9%  Similarity=0.035  Sum_probs=88.1

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|...|+.   ...|++..+.     .|+..+|..+-..|.+.|+.++|.+.|++..+..              +.+..
T Consensus       251 ~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~  311 (537)
T 3fp2_A          251 IFHFLKNNLLDAQVLLQESINL-----HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN--------------PEYPP  311 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-----CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC--------------TTCHH
T ss_pred             HHHHhcccHHHHHHHHHHHHhc-----CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC--------------CCCHH
Confidence            345556666   5566655543     3444677777788888888888888888876643              23677


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      +|..+-..|...|++++|...|++..+..|.+...|..+        .+++|...+++..+.  .|+.
T Consensus       312 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~  377 (537)
T 3fp2_A          312 TYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTL  377 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            899999999999999999999999999888777777777        689999999988775  3553

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.69  E-value=0.022  Score=44.02  Aligned_cols=117  Identities=11%  Similarity=-0.008  Sum_probs=73.3

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   .+.|++..+.+-    -+...|..+-..|.+.|+.++|++.|++..+..  |            -+..
T Consensus        19 ~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~   80 (164)
T 3sz7_A           19 NAAMARKEYSKAIDLYTQALSIAP----ANPIYLSNRAAAYSASGQHEKAAEDAELATVVD--P------------KYSK   80 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC----cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--C------------CCHH
Confidence            445566666   555554433211    123567777777777777777777777766542  2            2456


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHhhHHHHHHHHHHHHhCCCcC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVP  211 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l~~~~a~~l~~~M~~~g~~p  211 (296)
                      .|..+-..|.+.|++++|...|++..+..|.+...|.......+..-+.+.......|
T Consensus        81 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~~~~~~  138 (164)
T 3sz7_A           81 AWSRLGLARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGLETTKRKIEEANRGAEPP  138 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHhccCCC
Confidence            6777777777788888888888877777666666665555555555556665554433

>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=96.69  E-value=0.028  Score=41.12  Aligned_cols=89  Identities=10%  Similarity=0.030  Sum_probs=73.1

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|.+.|.+-.+..              +.+...|..+-..|.+.|++++|...|++..+..|.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--------------p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~   70 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA--------------PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN   70 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--------------CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC
Confidence            356667788999999999999999987743              246788999999999999999999999999998888


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...|..+        ..++|...|++..+.
T Consensus        71 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           71 FVRAYIRKATAQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhCHHHHHHHHHHHHHh
Confidence            87777666        678888888776553

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=96.66  E-value=0.028  Score=40.55  Aligned_cols=91  Identities=12%  Similarity=0.090  Sum_probs=74.3

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +...|..+-..+...|+.++|.+.|++..+..              +.+...|..+-..|...|++++|...+++..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~   76 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN--------------PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID   76 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--------------CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC
Confidence            34678888899999999999999999987642              2356778888899999999999999999998887


Q ss_pred             CCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          183 PNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       183 ~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |.+...|..+        ..++|.+.+++..+.
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           77 PAYSKAYGRMGLALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            7776666555        678888888877654

>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=96.64  E-value=0.032  Score=44.64  Aligned_cols=110  Identities=10%  Similarity=-0.054  Sum_probs=82.7

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   .+.|++..       .|+...|..+-..|.+.|+.++|.+.|++..+..              +.+..
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~-------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--------------~~~~~   72 (213)
T 1hh8_A           14 VLAADKKDWKGALDAFSAVQ-------DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--------------KHLAV   72 (213)
T ss_dssp             HHHHHTTCHHHHHHHHHTSS-------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHc-------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------ccchH
Confidence            345667777   56666553       3444789999999999999999999999887643              23567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc----------------chhHHh--------hHHHHHHHHHHHHhC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNT----------------GAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~----------------~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .|..+-..|.+.|++++|...|++..+..|.+.                ..|..+        ..++|...|++..+.
T Consensus        73 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           73 AYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            788888899999999999999999988766544                334333        678888888877664

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.62  E-value=0.027  Score=43.53  Aligned_cols=95  Identities=13%  Similarity=0.109  Sum_probs=79.1

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ...|..+-..|.+.|++++|++.|++-.+..  |            -+...|..+-..|.+.|++++|...|++..+..|
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p   76 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA--P------------ANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP   76 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            4568888899999999999999999987743  2            3677889999999999999999999999999988


Q ss_pred             CCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCc
Q 044945          184 NNTGAYVIL--------INEALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       184 ~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~  214 (296)
                      .+...|..+        .+++|...|++..+.  .|+..
T Consensus        77 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~  113 (164)
T 3sz7_A           77 KYSKAWSRLGLARFDMADYKGAKEAYEKGIEA--EGNGG  113 (164)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HSSSC
T ss_pred             CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCch
Confidence            888777777        678999988887664  45543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=96.60  E-value=0.012  Score=43.83  Aligned_cols=96  Identities=15%  Similarity=0.095  Sum_probs=76.8

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      +.|.+.|++   .+.|++..+.+-    .+...|.-+-.+|.+.|+.++|++.|++-.+..              +.+..
T Consensus        21 ~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--------------p~~~~   82 (126)
T 4gco_A           21 NEYFKKGDYPTAMRHYNEAVKRDP----ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD--------------SKFIK   82 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh--------------hhhhH
Confidence            567888888   667766544321    234789999999999999999999999987642              24677


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      .|..+=..|...|++++|...|++..+..|.|...+.
T Consensus        83 a~~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~  119 (126)
T 4gco_A           83 GYIRKAACLVAMREWSKAQRAYEDALQVDPSNEEARE  119 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHH
Confidence            8989999999999999999999999999887775544

>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=96.57  E-value=0.039  Score=54.11  Aligned_cols=136  Identities=13%  Similarity=0.044  Sum_probs=99.6

Q ss_pred             eeehHH---HHHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---H
Q 044945           13 NVELSN---GLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---R   86 (296)
Q Consensus        13 ~vs~n~---~~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~   86 (296)
                      +-+|+.   ++.+.|+ +++|++.|++-.+..-.  . ..                     .+..+-..|.+.|+.   .
T Consensus         9 a~al~nLG~~~~~~G~-~~eAi~~~~kAl~l~P~--~-~~---------------------a~~nLg~~l~~~g~~~eA~   63 (723)
T 4gyw_A            9 ADSLNNLANIKREQGN-IEEAVRLYRKALEVFPE--F-AA---------------------AHSNLASVLQQQGKLQEAL   63 (723)
T ss_dssp             HHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHCSC--C-HH---------------------HHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-HHHHHHHHHHHHHhCCC--C-HH---------------------HHHHHHHHHHHcCCHHHHH
Confidence            445664   3555587 99999999998764311  1 00                     111223567778888   6


Q ss_pred             HHHhhcccCCcccCCCc-eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhc
Q 044945           87 KVFEIMAVRDFLEYCDY-AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVH  165 (296)
Q Consensus        87 ~~f~~M~~~~~~~~~p~-~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~  165 (296)
                      +.|++-.+.     .|+ ...|+.+-..|.+.|+.++|++.|++-.+..  |            -+...|+.|=..|.+.
T Consensus        64 ~~~~~Al~l-----~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~--P------------~~~~a~~~Lg~~~~~~  124 (723)
T 4gyw_A           64 MHYKEAIRI-----SPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQIN--P------------AFADAHSNLASIHKDS  124 (723)
T ss_dssp             HHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHh-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHHc
Confidence            666655432     232 3689999999999999999999999877632  2            3567899999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          166 RNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       166 g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      |++++|...|++..+..|.+...|..+
T Consensus       125 g~~~eAi~~~~~Al~l~P~~~~a~~~L  151 (723)
T 4gyw_A          125 GNIPEAIASYRTALKLKPDFPDAYCNL  151 (723)
T ss_dssp             TCHHHHHHHHHHHHHHCSCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCChHHHhhh
Confidence            999999999999999988888777766

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.54  E-value=0.039  Score=40.63  Aligned_cols=88  Identities=14%  Similarity=0.043  Sum_probs=73.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..+-.+-..+.+.|+.++|...|++..+..              +.+...|..+=..|.+.|++++|...|++..+..|.
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--------------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~   83 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKE--------------PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK   83 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHC--------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            456667788899999999999999987742              236778888888999999999999999999999888


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHh
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +...|..+        ..++|...+++..+
T Consensus        84 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           84 DIAVHAALAVSHTNEHNANAALASLRAWLL  113 (121)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            87777666        67888888887664

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.51  E-value=0.033  Score=41.42  Aligned_cols=93  Identities=12%  Similarity=-0.042  Sum_probs=67.7

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ...|..+-..|.+.|++++|.+.|++..+..  |+..         -....|..+-..|.+.|++++|...+++..+..|
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~---------~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~   96 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQ---------DQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG   96 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHH---------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccch---------HHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc
Confidence            3567888888889999999999998877642  2110         0156777777888889999999999998888777


Q ss_pred             CCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          184 NNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       184 ~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .+...|..+        ..++|.+.+++..+.
T Consensus        97 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A           97 GDVKALYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            666555544        567777777766653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=96.48  E-value=0.026  Score=48.72  Aligned_cols=118  Identities=11%  Similarity=0.059  Sum_probs=79.6

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCcee--eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCC
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYAI--SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGS  150 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~--t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p  150 (296)
                      ...+.+.|++   .++|++..+.     .|+..  .|..+...+.+.|++++|.++|++..+..  |            +
T Consensus       106 ~~~~~~~~~~~~A~~~~~~al~~-----~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p------------~  166 (308)
T 2ond_A          106 ADYEESRMKYEKVHSIYNRLLAI-----EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--R------------T  166 (308)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTS-----SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--T------------C
T ss_pred             HHHHHhcCCHHHHHHHHHHHHhc-----cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--C------------C
Confidence            3455667777   7888877652     44333  79999999999999999999999987643  2            2


Q ss_pred             CHHHHHHHHHHH-HhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCC-CcCC
Q 044945          151 TENVWLTLLSAC-RVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEG-YVPD  212 (296)
Q Consensus       151 ~~~~~~~Li~~~-~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g-~~p~  212 (296)
                      +...|....... ...|+.++|..+|++..+..|.+...|..+        ..++|..+|++..... +.|+
T Consensus       167 ~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~  238 (308)
T 2ond_A          167 RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHH
Confidence            223333332222 225888888888888877766666666554        5677888888777763 3453

>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=96.47  E-value=0.035  Score=42.15  Aligned_cols=71  Identities=7%  Similarity=-0.002  Sum_probs=45.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|.+.|.+..+..              +.+...|..+-..|.+.|++++|...|++..+..|.
T Consensus        48 ~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~p~  113 (166)
T 1a17_A           48 IYYGNRSLAYLRTECYGYALGDATRAIELD--------------KKYIKGYYRRAASNMALGKFRAALRDYETVVKVKPH  113 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            556666666777777777777776665532              124455666666777777777777777777666555


Q ss_pred             Ccchh
Q 044945          185 NTGAY  189 (296)
Q Consensus       185 ~~~~y  189 (296)
                      +...+
T Consensus       114 ~~~~~  118 (166)
T 1a17_A          114 DKDAK  118 (166)
T ss_dssp             CHHHH
T ss_pred             CHHHH
Confidence            54444

>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=96.43  E-value=0.0067  Score=50.46  Aligned_cols=122  Identities=15%  Similarity=0.102  Sum_probs=84.2

Q ss_pred             ccccccccccCCH---HHHHhhcccC------CcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCC---ccCh
Q 044945           73 GVDGLRPSRSGSV---RKVFEIMAVR------DFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKI---KARH  139 (296)
Q Consensus        73 ~~~i~~y~k~g~~---~~~f~~M~~~------~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~---~pd~  139 (296)
                      ..+-..|...|++   ...|++..+.      +-   .| ...+|+.+-..|...|+.++|.+.|.+..+..-   .|+.
T Consensus        47 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  123 (283)
T 3edt_B           47 NILALVYRDQNKYKEAAHLLNDALAIREKTLGKD---HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH  123 (283)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTT---CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCc---chHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC
Confidence            3345778888888   7777776542      21   23 345788888999999999999999988765310   0000


Q ss_pred             hhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--------CCCCcchhHHh--------hHHHHHHHHHH
Q 044945          140 APFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI--------EPNNTGAYVIL--------INEALKDLLER  203 (296)
Q Consensus       140 ~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~--------~~~~~~~y~~l--------~~~~a~~l~~~  203 (296)
                               +....+|..+-..|...|++++|...|++..+.        .+....+|..+        ..++|...+++
T Consensus       124 ---------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  194 (283)
T 3edt_B          124 ---------PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKE  194 (283)
T ss_dssp             ---------HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ---------hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                     123567888889999999999999999998765        12223344444        57888888877


Q ss_pred             HHh
Q 044945          204 MEQ  206 (296)
Q Consensus       204 M~~  206 (296)
                      ..+
T Consensus       195 ~l~  197 (283)
T 3edt_B          195 ILT  197 (283)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=96.43  E-value=0.028  Score=39.36  Aligned_cols=89  Identities=13%  Similarity=0.099  Sum_probs=67.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|...|++..+..              +.+...|..+-..|.+.|++++|...|++..+..|.
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~   72 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLD--------------PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIED   72 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--------------CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--------------cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcc
Confidence            567788888999999999999999987743              235667788888889999999999999998887776


Q ss_pred             --CcchhHHh------h---HHHHHHHHHHHHhC
Q 044945          185 --NTGAYVIL------I---NEALKDLLERMEQE  207 (296)
Q Consensus       185 --~~~~y~~l------~---~~~a~~l~~~M~~~  207 (296)
                        +...|..+      .   .++|.+.+.+....
T Consensus        73 ~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           73 EYNKDVWAAKADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             TTCHHHHHHHHHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             cchHHHHHHHHHHHHHHhCCHHHHHHHHHHHhhc
Confidence              66555544      1   35666666655543

>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=96.35  E-value=0.015  Score=42.17  Aligned_cols=89  Identities=9%  Similarity=0.122  Sum_probs=70.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|++++|...|.+..+..              +.+...|..+-..|...|++++|...+++..+..|.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~   70 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD--------------PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRE   70 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--------------CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccc
Confidence            457788889999999999999999987753              235677888888999999999999999998876543


Q ss_pred             C-------cchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 N-------TGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~-------~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +       ..+|..+        ..++|.+.+++..+.
T Consensus        71 ~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           71 NREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            3       3344433        678888888888764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=96.34  E-value=0.014  Score=49.45  Aligned_cols=153  Identities=14%  Similarity=0.104  Sum_probs=97.0

Q ss_pred             cccHHHHHHHHHHhHhcccCCC--ccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhccc----
Q 044945           24 NEFMDKANGITDRFEERAVSIG--HYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAV----   94 (296)
Q Consensus        24 ~~~~~~A~~~f~~M~~~~~~~g--~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~----   94 (296)
                      |+ +++|..+|++..+..-..+  ..+..                  ...+..+-..|...|+.   ...|++..+    
T Consensus        41 g~-~~~A~~~~~~a~~~~~~~~~~~~~~~------------------~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  101 (311)
T 3nf1_A           41 GR-YEVAVPLCKQALEDLEKTSGHDHPDV------------------ATMLNILALVYRDQNKYKDAANLLNDALAIREK  101 (311)
T ss_dssp             TC-HHHHHHHHHHHHHHHHHHHCSSSHHH------------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CC-HHHHHHHHHHHHHHHHHHcCCCCHHH------------------HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            66 9999999999876311000  00000                  01122233566777777   555554432    


Q ss_pred             ---CCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc--CCCHHHHHHHHHHHHhcCCHH
Q 044945           95 ---RDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA--GSTENVWLTLLSACRVHRNVE  169 (296)
Q Consensus        95 ---~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~--~p~~~~~~~Li~~~~~~g~~~  169 (296)
                         .+.   .....+|+.+-..|...|+.++|.+.|++..+..-        .....  .....+|..+-..|.+.|+++
T Consensus       102 ~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~la~~~~~~~~~~  170 (311)
T 3nf1_A          102 TLGKDH---PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIRE--------KVLGKDHPDVAKQLNNLALLCQNQGKYE  170 (311)
T ss_dssp             HHCTTC---HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH--------HHHCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HhCCCC---hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHH--------HhcCCCChHHHHHHHHHHHHHHHcCCHH
Confidence               222   22346789999999999999999999999876310        00000  124567888889999999999


Q ss_pred             HHHHHHHHHHhc--------CCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          170 LAEKVADMILMI--------EPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       170 ~A~~~~~~m~~~--------~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +|...+++..+.        .+....+|..+        ..++|.+.+++..+
T Consensus       171 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          171 EVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999998764        11123334444        67888888877765

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=96.34  E-value=0.017  Score=50.67  Aligned_cols=112  Identities=11%  Similarity=0.034  Sum_probs=73.9

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCC-----ceeeHHHHHHH--Hhc--cCChhHHHHHHHHHHHcCCccChhhhh
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCD-----YAISRNSITAG--CGQ--NGPFDEGLKFFGQMLMAKIKARHAPFS  143 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p-----~~~t~n~li~~--~~~--~g~~~~A~~l~~~M~~~g~~pd~~ty~  143 (296)
                      +..|.+.|+.   .+.+++|.+.     .|     +..+..-|..+  ...  .++..+|+.+|+++.+.          
T Consensus       143 vqi~L~~~r~d~A~k~l~~~~~~-----~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~----------  207 (310)
T 3mv2_B          143 IEVALLNNNVSTASTIFDNYTNA-----IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT----------  207 (310)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-----SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT----------
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc-----CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh----------
Confidence            5678888888   8888888653     34     12444445545  222  33888999999998654          


Q ss_pred             hhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----------CCCCcchh-HHh-----hHHHHHHHHHHHHhC
Q 044945          144 RIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI----------EPNNTGAY-VIL-----INEALKDLLERMEQE  207 (296)
Q Consensus       144 ~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~----------~~~~~~~y-~~l-----~~~~a~~l~~~M~~~  207 (296)
                           .|+..+-..|++++.+.|++++|++.++.+.+.          .|.|..+. |.+     .-++|.+++.++++.
T Consensus       208 -----~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk~a~~l~~qL~~~  282 (310)
T 3mv2_B          208 -----FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGLDTEDLTNQLVKL  282 (310)
T ss_dssp             -----SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTCTTHHHHHHHHHT
T ss_pred             -----CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhChHHHHHHHHHHHh
Confidence                 355444455666889999999999999987654          25555554 332     224666777777654

>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=96.34  E-value=0.029  Score=45.63  Aligned_cols=116  Identities=9%  Similarity=0.021  Sum_probs=83.9

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENV  154 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~  154 (296)
                      .|.+.|+.   .+.|++..+.+-   .++...|.-+-..|.+.|+.++|++.|++-.+..  |            -+...
T Consensus        16 ~~~~~~~~~~A~~~~~~al~~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~~   78 (228)
T 4i17_A           16 DALNAKNYAVAFEKYSEYLKLTN---NQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN--Y------------NLANA   78 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTT---TCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--C------------SHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHhccC---CCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC--c------------chHHH
Confidence            45566777   566665544332   2344666667788888888888888888876532  2            35567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc-------chhHHh--------hHHHHHHHHHHHHhCCCcCC
Q 044945          155 WLTLLSACRVHRNVELAEKVADMILMIEPNNT-------GAYVIL--------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       155 ~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~-------~~y~~l--------~~~~a~~l~~~M~~~g~~p~  212 (296)
                      |..+-..|.+.|++++|...|++..+..|.+.       ..|..+        ..++|...|++..+.  .|+
T Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~  149 (228)
T 4i17_A           79 YIGKSAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSK  149 (228)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCC
Confidence            88889999999999999999999998888776       334444        678999999877654  555

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=96.28  E-value=0.011  Score=54.68  Aligned_cols=112  Identities=11%  Similarity=0.041  Sum_probs=77.0

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhcc---------CChhHHHHHHHHHHHcCCccChhhhh
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQN---------GPFDEGLKFFGQMLMAKIKARHAPFS  143 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~---------g~~~~A~~l~~~M~~~g~~pd~~ty~  143 (296)
                      -..|.+.|++   .+.|++..+.     .|+...|..+-..|.+.         |+.++|++.|++..+..  |      
T Consensus       144 g~~~~~~g~~~~A~~~~~~al~~-----~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p------  210 (474)
T 4abn_A          144 GEVYWKKGDVTSAHTCFSGALTH-----CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--V------  210 (474)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHTT-----CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--T------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh-----CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--C------
Confidence            3577788888   6677766554     45557888888889998         99999999999987743  2      


Q ss_pred             hhhccCCCHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHhcCC---CCcchhHHh--------hHHHHHHHHHHH
Q 044945          144 RIMHAGSTENVWLTLLSACRVH--------RNVELAEKVADMILMIEP---NNTGAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       144 ~li~~~p~~~~~~~Li~~~~~~--------g~~~~A~~~~~~m~~~~~---~~~~~y~~l--------~~~~a~~l~~~M  204 (296)
                            -+...|..+-..|...        |++++|...|++..+..|   .+...|..+        .+++|.+.|++.
T Consensus       211 ------~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  284 (474)
T 4abn_A          211 ------LDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQA  284 (474)
T ss_dssp             ------TCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ------CCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                  2455666666666666        667777777777666655   555555555        456666666655


Q ss_pred             Hh
Q 044945          205 EQ  206 (296)
Q Consensus       205 ~~  206 (296)
                      .+
T Consensus       285 l~  286 (474)
T 4abn_A          285 AA  286 (474)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=96.21  E-value=0.026  Score=41.10  Aligned_cols=97  Identities=14%  Similarity=0.013  Sum_probs=74.6

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                      -..|.+.|++   .+.|++..+.+-    .+...|..+-..|.+.|+.++|++.|++..+..  |            .+.
T Consensus        23 ~~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~------------~~~   84 (133)
T 2lni_A           23 GNECFQKGDYPQAMKHYTEAIKRNP----KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE--P------------TFI   84 (133)
T ss_dssp             HHHHHHTTCSHHHHHHHHHHHTTCT----TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC--T------------TCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCC----CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--C------------Cch
Confidence            3566777887   666766554321    234778999999999999999999999987742  2            356


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      ..|..+-..|.+.|++++|...|++..+..|.+...+.
T Consensus        85 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  122 (133)
T 2lni_A           85 KGYTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAAD  122 (133)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHH
Confidence            78888889999999999999999999887665554443

>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=96.18  E-value=0.0082  Score=58.92  Aligned_cols=153  Identities=13%  Similarity=0.097  Sum_probs=97.7

Q ss_pred             CCc-eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044945          101 CDY-AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMIL  179 (296)
Q Consensus       101 ~p~-~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  179 (296)
                      .|+ ..+|+-|=..|.+.|+.++|++.|++-.+.  .|            -+...|+.|=..|.+.|++++|...|++..
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P------------~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al   70 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FP------------EFAAAHSNLASVLQQQGKLQEALMHYKEAI   70 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CS------------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CC------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            453 357999999999999999999999998764  23            246778888888889999999999999888


Q ss_pred             hcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecch-----hhhhhhhhhhhHHHHHHHHhhcCC
Q 044945          180 MIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEE-----EQKKNILYYHGERLALVFGIISTP  246 (296)
Q Consensus       180 ~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~  246 (296)
                      +..|.+..+|..+        ..++|.+.|++-.+.  .|+.......++.     +..++.+......    ..+ .+.
T Consensus        71 ~l~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~A----l~l-~P~  143 (723)
T 4gyw_A           71 RISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTA----LKL-KPD  143 (723)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHH-CSC
T ss_pred             HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHh-CCC
Confidence            8888777777777        678888888776653  4553333222211     1111111111111    111 111


Q ss_pred             CCCe-EEEEecccCccchhhHHHHHhhhh
Q 044945          247 DGTT-IRVIKNLPSLRGLRHGNKVVSKIV  274 (296)
Q Consensus       247 ~~~~-~~ii~~~~k~g~~~~A~~~f~~m~  274 (296)
                      .... ..+...|.+.|+.++|.+.+++..
T Consensus       144 ~~~a~~~L~~~l~~~g~~~~A~~~~~kal  172 (723)
T 4gyw_A          144 FPDAYCNLAHCLQIVCDWTDYDERMKKLV  172 (723)
T ss_dssp             CHHHHHHHHHHHHHTTCCTTHHHHHHHHH
T ss_pred             ChHHHhhhhhHHHhcccHHHHHHHHHHHH
Confidence            1000 001344778888888888877665

>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=96.17  E-value=0.066  Score=40.57  Aligned_cols=89  Identities=11%  Similarity=-0.000  Sum_probs=74.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|.+.|.+..+..              +.+..+|..+-..|...|++++|...+++..+..|.
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--------------~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~   79 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN--------------PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK   79 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC--------------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            457788888999999999999999987742              235778888899999999999999999999988887


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...|..+        ..++|...+++..+.
T Consensus        80 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           80 YIKGYYRRAASNMALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            77666665        678898888887754

>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=96.11  E-value=0.038  Score=38.99  Aligned_cols=96  Identities=13%  Similarity=0.050  Sum_probs=72.8

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|...|++   .+.|++....+-    .+...|..+-..|.+.|+.++|.+.+++..+..  |            .+..
T Consensus        12 ~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~------------~~~~   73 (118)
T 1elw_A           12 NKALSVGNIDDALQCYSEAIKLDP----HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--P------------DWGK   73 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--T------------TCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCC----CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC--c------------ccHH
Confidence            355667777   666666543221    133678888899999999999999999987753  2            3567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      .|..+-..|.+.|++++|...+++..+..|.+...+.
T Consensus        74 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  110 (118)
T 1elw_A           74 GYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKE  110 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHH
Confidence            7888899999999999999999999887776654443

>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=96.10  E-value=0.039  Score=42.97  Aligned_cols=113  Identities=9%  Similarity=0.066  Sum_probs=79.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..+...|+.   ...|++..+.+    ..+...|..+-..|...|+.++|.+.|++..+..  |            .+..
T Consensus        18 ~~~~~~~~~~~A~~~~~~al~~~----p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~   79 (177)
T 2e2e_A           18 HQFASQQNPEAQLQALQDKIRAN----PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--G------------ENAE   79 (177)
T ss_dssp             CCCC-----CCCCHHHHHHHHHC----CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--C------------SCHH
T ss_pred             hhhhhccCHHHHHHHHHHHHHhC----CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--C------------CCHH
Confidence            345566666   44555443321    1123678889999999999999999999987642  2            3556


Q ss_pred             HHHHHHHH-HHhcCCH--HHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          154 VWLTLLSA-CRVHRNV--ELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       154 ~~~~Li~~-~~~~g~~--~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      .|..+-.. |...|++  ++|...|++..+..|.+...|..+        ..++|...+++..+.
T Consensus        80 ~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           80 LYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            67777777 7788998  999999999998888777666665        678898888887765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=96.05  E-value=0.043  Score=39.48  Aligned_cols=96  Identities=8%  Similarity=-0.009  Sum_probs=73.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|...|++   ...|++..+.+-    .+...|..+...|.+.|+.++|.+.+.+..+..  |            .+..
T Consensus        20 ~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~------------~~~~   81 (131)
T 2vyi_A           20 NEQMKVENFEAAVHFYGKAIELNP----ANAVYFCNRAAAYSKLGNYAGAVQDCERAICID--P------------AYSK   81 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC--c------------cCHH
Confidence            456677777   666666543221    233678889999999999999999999987742  2            3567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      .|..+-..|.+.|++++|...|++..+..|.+...+.
T Consensus        82 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  118 (131)
T 2vyi_A           82 AYGRMGLALSSLNKHVEAVAYYKKALELDPDNETYKS  118 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCccchHHHH
Confidence            7888888999999999999999999888776655444

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=95.89  E-value=0.026  Score=47.62  Aligned_cols=94  Identities=17%  Similarity=0.165  Sum_probs=67.5

Q ss_pred             ccccccccCCH---HHHHhhcccC-------CcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHc---CCccChhh
Q 044945           75 DGLRPSRSGSV---RKVFEIMAVR-------DFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMA---KIKARHAP  141 (296)
Q Consensus        75 ~i~~y~k~g~~---~~~f~~M~~~-------~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~---g~~pd~~t  141 (296)
                      +...|.+.|+.   .+.|++..+.       +.   ......|+.+-..|.+.|+.++|.+.|++..+.   ...++.  
T Consensus       117 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~---~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~--  191 (311)
T 3nf1_A          117 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKDH---PDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDD--  191 (311)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC---HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTC--
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCC---hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCC--
Confidence            34667778888   5555554431       11   113357888999999999999999999998764   000100  


Q ss_pred             hhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          142 FSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       142 y~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                             .....++..+-..|.+.|++++|...+++..+
T Consensus       192 -------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          192 -------PNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             -------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                   12346788899999999999999999999875

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=95.88  E-value=0.049  Score=38.06  Aligned_cols=93  Identities=12%  Similarity=0.060  Sum_probs=71.8

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|+.   ...|++..+.+-    .+...|..+-..|.+.|+.++|.+.|++..+..  |+          ..+..
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~----------~~~~~   77 (112)
T 2kck_A           14 VLQYDAGNYTESIDLFEKAIQLDP----EESKYWLMKGKALYNLERYEEAVDCYNYVINVI--ED----------EYNKD   77 (112)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--CC----------TTCHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCc----CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cc----------cchHH
Confidence            456777888   666766554321    123678889999999999999999999988753  21          01577


Q ss_pred             HHHHHHHHHHhc-CCHHHHHHHHHHHHhcCCCC
Q 044945          154 VWLTLLSACRVH-RNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       154 ~~~~Li~~~~~~-g~~~~A~~~~~~m~~~~~~~  185 (296)
                      .|..+-..|.+. |+.++|.+.++...+..|.+
T Consensus        78 ~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~p~~  110 (112)
T 2kck_A           78 VWAAKADALRYIEGKEVEAEIAEARAKLEHHHH  110 (112)
T ss_dssp             HHHHHHHHHTTCSSCSHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHhhcccCC
Confidence            888999999999 99999999999999876654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.81  E-value=0.08  Score=35.71  Aligned_cols=73  Identities=19%  Similarity=0.314  Sum_probs=59.7

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ...|..+-..|.+.|++++|.+.|++-.+..  |            .+...|..+-..|.+.|++++|...|++..+..|
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p   74 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--P------------NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP   74 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--C------------CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            3567778888999999999999999987642  2            3566788888899999999999999999988877


Q ss_pred             CCcchhH
Q 044945          184 NNTGAYV  190 (296)
Q Consensus       184 ~~~~~y~  190 (296)
                      .+...+.
T Consensus        75 ~~~~~~~   81 (91)
T 1na3_A           75 NNAEAKQ   81 (91)
T ss_dssp             TCHHHHH
T ss_pred             CCHHHHH
Confidence            6665544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.78  E-value=0.082  Score=39.12  Aligned_cols=94  Identities=11%  Similarity=-0.019  Sum_probs=74.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCc----eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccC
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDY----AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAG  149 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~----~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  149 (296)
                      ..|.+.|++   .+.|++..+.     .|+    ...|..+-..|.+.|++++|.+.|++..+..              +
T Consensus        36 ~~~~~~~~~~~A~~~~~~a~~~-----~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--------------~   96 (148)
T 2dba_A           36 NELFKCGDYGGALAAYTQALGL-----DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD--------------G   96 (148)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHTS-----CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--------------S
T ss_pred             HHHHHhCCHHHHHHHHHHHHHH-----cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--------------c
Confidence            567788888   6777766543     343    4778889999999999999999999987642              2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchh
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAY  189 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y  189 (296)
                      .+...|..+-..|...|++++|...|++..+..|.+...+
T Consensus        97 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  136 (148)
T 2dba_A           97 GDVKALYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQ  136 (148)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHH
Confidence            3567788888899999999999999999988877665433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=95.77  E-value=0.11  Score=37.70  Aligned_cols=94  Identities=20%  Similarity=0.256  Sum_probs=67.6

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-
Q 044945          107 RNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN-  185 (296)
Q Consensus       107 ~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~-  185 (296)
                      +-.+-..+.+.|+.++|.+.|++..+..  |+..         .....+..+-..|.+.|++++|...|+...+..|.+ 
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~---------~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~   73 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY--PNGV---------YTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHD   73 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSST---------THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTST
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCc---------ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCc
Confidence            3345567889999999999999987743  2110         011466677788999999999999999998887765 


Q ss_pred             --cchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          186 --TGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       186 --~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                        ...+..+        ..++|...|++..+..  |+.
T Consensus        74 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--p~~  109 (129)
T 2xev_A           74 KAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQY--PGS  109 (129)
T ss_dssp             THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTS
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCC
Confidence              3334333        6788988888887653  553

>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=95.72  E-value=0.013  Score=48.61  Aligned_cols=95  Identities=15%  Similarity=0.085  Sum_probs=68.4

Q ss_pred             ccccccccCCH---HHHHhhccc-------CCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcC---CccChhh
Q 044945           75 DGLRPSRSGSV---RKVFEIMAV-------RDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAK---IKARHAP  141 (296)
Q Consensus        75 ~i~~y~k~g~~---~~~f~~M~~-------~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g---~~pd~~t  141 (296)
                      +-..|...|++   .+.|++..+       .+.   .....+|..+-..|...|+.++|.+.|++..+.-   ..++.  
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~---~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~--  165 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFH---PDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDD--  165 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC---HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTC--
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCC---hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC--
Confidence            34677888888   555555432       111   1234678999999999999999999999987640   00110  


Q ss_pred             hhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          142 FSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       142 y~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                             .....++..+-..|.+.|++++|...+++..+.
T Consensus       166 -------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  198 (283)
T 3edt_B          166 -------PNVAKTKNNLASCYLKQGKYQDAETLYKEILTR  198 (283)
T ss_dssp             -------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                   124567888999999999999999999998754

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=95.68  E-value=0.092  Score=39.43  Aligned_cols=95  Identities=11%  Similarity=0.051  Sum_probs=73.0

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   ...|+.....+-    .+...|..+-..|.+.|+.++|.+.|++..+..  |            .+..
T Consensus        26 ~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~   87 (142)
T 2xcb_A           26 FNQYQAGKWDDAQKIFQALCMLDH----YDARYFLGLGACRQSLGLYEQALQSYSYGALMD--I------------NEPR   87 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCTH
T ss_pred             HHHHHHccHHHHHHHHHHHHHhCC----ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--C------------CCcH
Confidence            456778888   777776654321    133678888899999999999999999987743  2            3556


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchh
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAY  189 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y  189 (296)
                      .|..+-..|...|++++|...|+...+..|.+...+
T Consensus        88 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  123 (142)
T 2xcb_A           88 FPFHAAECHLQLGDLDGAESGFYSARALAAAQPAHE  123 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcchH
Confidence            777888899999999999999999988766555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=95.63  E-value=0.077  Score=41.01  Aligned_cols=90  Identities=8%  Similarity=0.058  Sum_probs=72.7

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   ...|++..+.+-    -+...|..+=..|.+.|+.++|++.|++..+..  |            -+..
T Consensus        44 ~~~~~~g~~~eA~~~~~~al~~~P----~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~--P------------~~~~  105 (151)
T 3gyz_A           44 YDFYNKGRIEEAEVFFRFLCIYDF----YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG--K------------NDYT  105 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--S------------SCCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--C------------CCcH
Confidence            467788888   777877665321    134689999999999999999999999988743  3            3567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .|.-+=.+|.+.|++++|...|++..+..|.
T Consensus       106 ~~~~lg~~~~~lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A          106 PVFHTGQCQLRLKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            7888889999999999999999999887653

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=95.58  E-value=0.028  Score=40.84  Aligned_cols=81  Identities=19%  Similarity=0.162  Sum_probs=60.7

Q ss_pred             ccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh---
Q 044945          116 QNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL---  192 (296)
Q Consensus       116 ~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l---  192 (296)
                      ..|+.++|++.|++-.+.+..  .         +-+...|..|-..|.+.|++++|...|++..+..|.+...|..+   
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~--~---------p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   70 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQ--G---------KDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMV   70 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCC--H---------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCC--C---------ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            468889999999998875421  0         13456788888999999999999999999999888887776666   


Q ss_pred             -----hHHHHHHHHHHHHhC
Q 044945          193 -----INEALKDLLERMEQE  207 (296)
Q Consensus       193 -----~~~~a~~l~~~M~~~  207 (296)
                           ..++|...+++..+.
T Consensus        71 ~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           71 LYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh
Confidence                 678888888876653

>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=95.53  E-value=0.1  Score=45.76  Aligned_cols=97  Identities=16%  Similarity=0.111  Sum_probs=77.1

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCc----------------eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDY----------------AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKA  137 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~----------------~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~p  137 (296)
                      ..|.+.|++   ...|++-.+.     .|+                ...|+.+-..|.+.|+.++|++.|++..+..  |
T Consensus       155 ~~~~~~g~~~~A~~~y~~Al~~-----~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p  227 (336)
T 1p5q_A          155 TVYFKEGKYKQALLQYKKIVSW-----LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD--S  227 (336)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH-----TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T
T ss_pred             HHHHHCCCHHHHHHHHHHHHHH-----hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C
Confidence            567778888   5555554332     222                2689999999999999999999999987742  2


Q ss_pred             ChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          138 RHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       138 d~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                                  .+...|..+-.+|...|++++|...|++..+..|.+...+..+
T Consensus       228 ------------~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l  270 (336)
T 1p5q_A          228 ------------NNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQL  270 (336)
T ss_dssp             ------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             ------------CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHH
Confidence                        3677888889999999999999999999999888887777666

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.52  E-value=0.18  Score=34.83  Aligned_cols=79  Identities=9%  Similarity=0.136  Sum_probs=61.9

Q ss_pred             HHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchh
Q 044945          111 TAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN-VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAY  189 (296)
Q Consensus       111 i~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~-~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y  189 (296)
                      -..+.+.|+.++|.+.|++..+..  |            .+.. .|..+=..|.+.|++++|...|++..+..|.+...+
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE--P------------VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC--S------------STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--C------------CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            456778999999999999987742  2            3456 788888899999999999999999999888777776


Q ss_pred             HHhhHHHHHHHHHH
Q 044945          190 VILINEALKDLLER  203 (296)
Q Consensus       190 ~~l~~~~a~~l~~~  203 (296)
                      .....+++...+++
T Consensus        73 ~~~~~~~a~~~~~~   86 (99)
T 2kc7_A           73 ARKMVMDILNFYNK   86 (99)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHH
Confidence            55556666555543

>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=95.48  E-value=0.11  Score=42.06  Aligned_cols=96  Identities=10%  Similarity=0.007  Sum_probs=76.9

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      |...|...-..|.+.|+.++|.+.|++..+..-             .++...|..+-..|.+.|++++|...|++..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-------------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~   72 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTN-------------NQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN   72 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-------------TCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccC-------------CCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC
Confidence            346677777889999999999999999887542             2566667678889999999999999999999888


Q ss_pred             CCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          183 PNNTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       183 ~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      |.+...|..+        ..++|...+++..+.  .|+.
T Consensus        73 p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~  109 (228)
T 4i17_A           73 YNLANAYIGKSAAYRDMKNNQEYIATLTEGIKA--VPGN  109 (228)
T ss_dssp             CSHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTC
T ss_pred             cchHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCc
Confidence            8777777766        678998888877654  3543

>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=95.43  E-value=0.08  Score=49.81  Aligned_cols=74  Identities=8%  Similarity=0.002  Sum_probs=42.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhc
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVH---RNVELAEKVADMILMI  181 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~---g~~~~A~~~~~~m~~~  181 (296)
                      ..|..+-..|.+.|+.++|.+.|++..+..              +.+...+..+-..|.+.   |+.++|...+++..+.
T Consensus        92 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~--------------p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           92 GIALWLGHALEDAGQAEAAAAAYTRAHQLL--------------PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--------------CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            344444455555555555555555444321              12455666666666666   6777777777766666


Q ss_pred             CCCCcchhHHh
Q 044945          182 EPNNTGAYVIL  192 (296)
Q Consensus       182 ~~~~~~~y~~l  192 (296)
                      .|.+...|..+
T Consensus       158 ~p~~~~~~~~l  168 (568)
T 2vsy_A          158 GVGAVEPFAFL  168 (568)
T ss_dssp             TCCCSCHHHHT
T ss_pred             CCcccChHHHh
Confidence            66555566555

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=95.38  E-value=0.1  Score=36.66  Aligned_cols=69  Identities=10%  Similarity=0.030  Sum_probs=57.6

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +...|..+-..+.+.|+.++|.+.|++-.+..  |            .+...|..+-..|.+.|++++|...+++..+..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--P------------QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--C------------CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34567888889999999999999999987742  2            356778888889999999999999999999877


Q ss_pred             CCC
Q 044945          183 PNN  185 (296)
Q Consensus       183 ~~~  185 (296)
                      |.+
T Consensus        69 p~~   71 (111)
T 2l6j_A           69 STA   71 (111)
T ss_dssp             SST
T ss_pred             CCc
Confidence            755

>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=95.36  E-value=0.11  Score=39.67  Aligned_cols=93  Identities=13%  Similarity=0.047  Sum_probs=71.9

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   ...|+.....+-    .+...|..+-..|.+.|+.++|++.|++..+..  |            .+..
T Consensus        29 ~~~~~~g~~~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p------------~~~~   90 (148)
T 2vgx_A           29 FNQYQSGXYEDAHXVFQALCVLDH----YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD--I------------XEPR   90 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T------------TCTH
T ss_pred             HHHHHcCChHHHHHHHHHHHHcCc----ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--C------------CCch
Confidence            466778888   677776544321    233678888899999999999999999987743  2            3566


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTG  187 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  187 (296)
                      .|..+-..|...|++++|...|+...+..|.+..
T Consensus        91 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  124 (148)
T 2vgx_A           91 FPFHAAECLLQXGELAEAESGLFLAQELIANXPE  124 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCc
Confidence            7788888999999999999999999887665443

>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=95.28  E-value=0.14  Score=43.49  Aligned_cols=31  Identities=6%  Similarity=-0.128  Sum_probs=16.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          151 TENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       151 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                      +...|..+-.+|.+.|++++|...|++..+.
T Consensus        71 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           71 SVKAHFFLGQCQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3444555555555555555555555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=95.27  E-value=0.13  Score=37.32  Aligned_cols=93  Identities=10%  Similarity=0.042  Sum_probs=67.9

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCCcee----eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCC
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCDYAI----SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGS  150 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p~~~----t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p  150 (296)
                      .+.+.|++   .+.|++..+.     .|+..    .|..+-..|.+.|+.++|.+.|++..+..  |+.          +
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~-----~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~----------~   73 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLEL-----YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTH----------D   73 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH-----CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTS----------T
T ss_pred             HHHHhCCHHHHHHHHHHHHHH-----CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCC----------c
Confidence            45567777   6666665543     22223    67778889999999999999999988753  221          1


Q ss_pred             C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc
Q 044945          151 T-ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG  187 (296)
Q Consensus       151 ~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  187 (296)
                      . ...+..+-..|.+.|++++|...|++..+..|.+..
T Consensus        74 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~  111 (129)
T 2xev_A           74 KAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQYPGSDA  111 (129)
T ss_dssp             THHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTSHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCChH
Confidence            1 456677778899999999999999999987765543

>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=95.27  E-value=0.088  Score=40.18  Aligned_cols=74  Identities=9%  Similarity=0.054  Sum_probs=62.8

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|-.+-..|.+.|+.++|.+.|++-.+..  |            -+..+|..+=..|.+.|++++|...|++..+..|.
T Consensus        32 ~~~~~la~~y~~~~~~~~A~~~~~~al~~~--p------------~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~   97 (150)
T 4ga2_A           32 IKGFYFAKLYYEAKEYDLAKKYICTYINVQ--E------------RDPKAHRFLGLLYELEENTDKAVECYRRSVELNPT   97 (150)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC
Confidence            456677888999999999999999987742  2            36788999999999999999999999999998888


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      +..+|..+
T Consensus        98 ~~~~~~~l  105 (150)
T 4ga2_A           98 QKDLVLKI  105 (150)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            87777766

>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=95.21  E-value=0.049  Score=49.07  Aligned_cols=130  Identities=9%  Similarity=-0.005  Sum_probs=92.7

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCC-H---HHHHhhcccC
Q 044945           20 LAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGS-V---RKVFEIMAVR   95 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~-~---~~~f~~M~~~   95 (296)
                      +.+.|+ .++|++.|++..+..-.  ..                      ..+..+-..|.+.|+ +   ...|++..+.
T Consensus       107 ~~~~g~-~~~Al~~~~~al~l~P~--~~----------------------~a~~~~g~~l~~~g~d~~eAl~~~~~al~l  161 (382)
T 2h6f_A          107 LQRDER-SERAFKLTRDAIELNAA--NY----------------------TVWHFRRVLLKSLQKDLHEEMNYITAIIEE  161 (382)
T ss_dssp             HHHTCC-CHHHHHHHHHHHHHCTT--CH----------------------HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHCCC-hHHHHHHHHHHHHhCcc--CH----------------------HHHHHHHHHHHHcccCHHHHHHHHHHHHHH
Confidence            333465 88888888888764321  11                      011111234556675 6   6666665543


Q ss_pred             CcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 044945           96 DFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVA  175 (296)
Q Consensus        96 ~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~  175 (296)
                      +-    -+...|+-+-..|.+.|+.++|++.|++..+..              +-+...|.-+-..|.+.|++++|...|
T Consensus       162 ~P----~~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld--------------P~~~~a~~~lg~~~~~~g~~~eAl~~~  223 (382)
T 2h6f_A          162 QP----KNYQVWHHRRVLVEWLRDPSQELEFIADILNQD--------------AKNYHAWQHRQWVIQEFKLWDNELQYV  223 (382)
T ss_dssp             CT----TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCCTTHHHHH
T ss_pred             CC----CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--------------ccCHHHHHHHHHHHHHcCChHHHHHHH
Confidence            21    123678989999999999999999999987743              246788888888999999999999999


Q ss_pred             HHHHhcCCCCcchhHHh
Q 044945          176 DMILMIEPNNTGAYVIL  192 (296)
Q Consensus       176 ~~m~~~~~~~~~~y~~l  192 (296)
                      ++..+..|.+...|+.+
T Consensus       224 ~~al~l~P~~~~a~~~l  240 (382)
T 2h6f_A          224 DQLLKEDVRNNSVWNQR  240 (382)
T ss_dssp             HHHHHHCTTCHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHH
Confidence            99999988888888777

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=95.15  E-value=0.11  Score=42.01  Aligned_cols=101  Identities=15%  Similarity=0.161  Sum_probs=68.9

Q ss_pred             HHHHhccCChhHHHHHHHHHHHcCCccChhh-hhh--hhcc-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 044945          111 TAGCGQNGPFDEGLKFFGQMLMAKIKARHAP-FSR--IMHA-GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNT  186 (296)
Q Consensus       111 i~~~~~~g~~~~A~~l~~~M~~~g~~pd~~t-y~~--li~~-~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~  186 (296)
                      -..+.+.|+.++|.+.|++..+..  |+... |..  +-.. ......++.+-..|.+.|++++|...|++..+..|.+.
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~   88 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPNNV   88 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCH
Confidence            345678999999999999987743  43221 110  0000 11122233377788899999999999999998888888


Q ss_pred             chhHHh--------hHHHHHHHHHHHHhCCCcCCCcc
Q 044945          187 GAYVIL--------INEALKDLLERMEQEGYVPDTKE  215 (296)
Q Consensus       187 ~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t  215 (296)
                      ..|..+        ..++|...|++..+.  .|+...
T Consensus        89 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~  123 (208)
T 3urz_A           89 DCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLA  123 (208)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHH
Confidence            777777        678888888887764  466433

>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=95.15  E-value=0.1  Score=38.57  Aligned_cols=88  Identities=6%  Similarity=0.039  Sum_probs=66.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+|.-+=..|.+.|++++|++.|++-.+.  .|            -+...|+-+=..|.+.|++++|...|++..+..|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p------------~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~   74 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL--DP------------SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRE   74 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CC------------CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcc
Confidence            34555667889999999999999998763  23            35677888889999999999999999998876554


Q ss_pred             Ccc-------hhHHh--------hHHHHHHHHHHHHh
Q 044945          185 NTG-------AYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       185 ~~~-------~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +..       +|..+        .+++|.+.|++-..
T Consensus        75 ~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           75 TRADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            332       22222        57888888776554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=95.14  E-value=0.062  Score=43.43  Aligned_cols=69  Identities=16%  Similarity=0.242  Sum_probs=61.0

Q ss_pred             HHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchh
Q 044945          110 ITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAY  189 (296)
Q Consensus       110 li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y  189 (296)
                      +-..|.+.|+.++|.+.|++..+..  |            -+...|..+-..|...|++++|...|++..+..|.+..+|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~  125 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA--P------------NNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAAN  125 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC--C------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            7888999999999999999987743  2            3678899999999999999999999999999999888888


Q ss_pred             HHh
Q 044945          190 VIL  192 (296)
Q Consensus       190 ~~l  192 (296)
                      ..+
T Consensus       126 ~~l  128 (208)
T 3urz_A          126 IFL  128 (208)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            776

>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=95.03  E-value=0.056  Score=43.18  Aligned_cols=86  Identities=13%  Similarity=0.058  Sum_probs=71.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..+..+-..|.+.|+.++|.+.|++.    +             .|+...|..+-..|.+.|++++|...|++..+..|.
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a----~-------------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~   69 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAV----Q-------------DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH   69 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTS----S-------------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHH----c-------------CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            34556667888999999999999865    2             246778999999999999999999999999988887


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...|..+        ..++|...|++..+.
T Consensus        70 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  100 (213)
T 1hh8_A           70 LAVAYFQRGMLYYQTEKYDLAIKDLKEALIQ  100 (213)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHcccHHHHHHHHHHHHHh
Confidence            77777666        689999999888775

>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=95.02  E-value=0.064  Score=41.00  Aligned_cols=96  Identities=6%  Similarity=0.009  Sum_probs=74.8

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                      ..|.+.|+.   .+.|++..+.     .| +..+|..+-..|.+.|+.++|+..|++..+..  |            -+.
T Consensus        39 ~~y~~~~~~~~A~~~~~~al~~-----~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p------------~~~   99 (150)
T 4ga2_A           39 KLYYEAKEYDLAKKYICTYINV-----QERDPKAHRFLGLLYELEENTDKAVECYRRSVELN--P------------TQK   99 (150)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--C------------CCH
Confidence            578888888   6677765543     22 23789999999999999999999999987742  2            356


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHH-HHHHHhcCCCCcchhHH
Q 044945          153 NVWLTLLSACRVHRNVELAEKV-ADMILMIEPNNTGAYVI  191 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~-~~~m~~~~~~~~~~y~~  191 (296)
                      ..|..+-..|.+.|+.++|.+. +++..+..|.+...|..
T Consensus       100 ~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l  139 (150)
T 4ga2_A          100 DLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKL  139 (150)
T ss_dssp             HHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHH
Confidence            7888888999999999876655 58888888888776654

>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=95.02  E-value=0.23  Score=38.34  Aligned_cols=105  Identities=8%  Similarity=-0.054  Sum_probs=75.7

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHH-HhccCCh--hHHHHHHHHHHHcCCccChhhhhhhhccCC
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAG-CGQNGPF--DEGLKFFGQMLMAKIKARHAPFSRIMHAGS  150 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~-~~~~g~~--~~A~~l~~~M~~~g~~pd~~ty~~li~~~p  150 (296)
                      ..|...|+.   ...|++..+.+-    .+...|..+-.. |.+.|+.  ++|.+.|++..+..  |            .
T Consensus        52 ~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~--p------------~  113 (177)
T 2e2e_A           52 EYYLWQNDYSNSLLAYRQALQLRG----ENAELYAALATVLYYQASQHMTAQTRAMIDKALALD--S------------N  113 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHC----SCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHC--T------------T
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCC----CCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhC--C------------C
Confidence            567778888   666666543211    122567777777 7789998  99999999988753  2            3


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh-hHHHHHH
Q 044945          151 TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL-INEALKD  199 (296)
Q Consensus       151 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l-~~~~a~~  199 (296)
                      +...|..+-..|.+.|++++|...|++..+..|.+.....++ ..+.+.+
T Consensus       114 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~i~~~~~  163 (177)
T 2e2e_A          114 EITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQLVESINMAKL  163 (177)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHH
Confidence            567788888899999999999999999998887665544443 3444433

>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=95.01  E-value=0.094  Score=38.16  Aligned_cols=88  Identities=11%  Similarity=0.007  Sum_probs=68.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   ...|++..+.+-    .+...|..+-..|.+.|+.++|++.|++..+..  |            .+..
T Consensus        12 ~~~~~~~~~~~A~~~~~~al~~~p----~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~   73 (126)
T 3upv_A           12 KEYFTKSDWPNAVKAYTEMIKRAP----EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--P------------NFVR   73 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCC----CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--C------------CcHH
Confidence            345677777   666665543221    133789999999999999999999999987743  2            3567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      .|..+-..|...|++++|...|++..+..
T Consensus        74 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           74 AYIRKATAQIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCHHHHHHHHHHHHHhC
Confidence            88888899999999999999999998776

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=95.00  E-value=0.073  Score=38.50  Aligned_cols=69  Identities=6%  Similarity=-0.027  Sum_probs=58.2

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ...|..+-..|.+.|+.++|.+.|++..+..  |            -+...|..+-..|.+.|+.++|...|++..+..|
T Consensus        27 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p   92 (117)
T 3k9i_A           27 AECYLGLGSTFRTLGEYRKAEAVLANGVKQF--P------------NHQALRVFYAMVLYNLGRYEQGVELLLKIIAETS   92 (117)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            3678889999999999999999999988753  2            3567788888999999999999999999988766


Q ss_pred             CCc
Q 044945          184 NNT  186 (296)
Q Consensus       184 ~~~  186 (296)
                      .+.
T Consensus        93 ~~~   95 (117)
T 3k9i_A           93 DDE   95 (117)
T ss_dssp             CCH
T ss_pred             CcH
Confidence            543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=94.98  E-value=0.13  Score=44.28  Aligned_cols=96  Identities=9%  Similarity=0.070  Sum_probs=75.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN-VWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~-~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ..|..+...+.+.|++++|.++|++..+  +.|+            +.. +|..+...+.+.|++++|..+|++..+..|
T Consensus       100 ~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~------------~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p  165 (308)
T 2ond_A          100 LLYFAYADYEESRMKYEKVHSIYNRLLA--IEDI------------DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR  165 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT--SSSS------------CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh--cccc------------CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC
Confidence            5899999999999999999999999987  3332            233 899999999999999999999999998777


Q ss_pred             CCcchhHHh---------hHHHHHHHHHHHHhCCCcCCCccc
Q 044945          184 NNTGAYVIL---------INEALKDLLERMEQEGYVPDTKEV  216 (296)
Q Consensus       184 ~~~~~y~~l---------~~~~a~~l~~~M~~~g~~p~~~t~  216 (296)
                      .+...|...         ..++|.++|++..+.  .|+...+
T Consensus       166 ~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~  205 (308)
T 2ond_A          166 TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEY  205 (308)
T ss_dssp             CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            665555433         356788888877653  4654333

>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=94.42  E-value=0.11  Score=40.55  Aligned_cols=99  Identities=10%  Similarity=-0.014  Sum_probs=57.7

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhh---------
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSR---------  144 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~---------  144 (296)
                      .|.+.|++   ...|++..+.     .| +...|..+-..|.+.|+.++|.+.|++..+.  .|+...+..         
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~-----~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           15 ELLQQGEHAQALNVIQTLSDE-----LQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHTTCHHHHHHHHHTSCHH-----HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH-----CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHhh
Confidence            45566777   6666665432     12 2256777888888888888888888775432  122111110         


Q ss_pred             ------------hhccCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          145 ------------IMHAGS-TENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       145 ------------li~~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                                  .+...| +...+..+-..|...|++++|...|++..+..|
T Consensus        88 ~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p  139 (176)
T 2r5s_A           88 AAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNL  139 (176)
T ss_dssp             HTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             cccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCc
Confidence                        000033 356666666666677777777777776666554

>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=94.41  E-value=0.13  Score=36.83  Aligned_cols=92  Identities=7%  Similarity=-0.023  Sum_probs=68.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC--
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST--  151 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~--  151 (296)
                      ..|.+.|++   ...|++..+.+-    .+...|..+-..|.+.|+.++|...|.+..+..  |+.         .++  
T Consensus        12 ~~~~~~~~~~~A~~~~~~a~~~~~----~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~---------~~~~~   76 (131)
T 1elr_A           12 NDAYKKKDFDTALKHYDKAKELDP----TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG--REN---------REDYR   76 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHS---------TTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcCC----ccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc--ccc---------chhHH
Confidence            455667777   666666544321    233678889999999999999999999987743  110         112  


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          152 --ENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       152 --~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                        ..+|..+-..|.+.|++++|...|++..+..+
T Consensus        77 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  110 (131)
T 1elr_A           77 QIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHR  110 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence              66788888999999999999999999988765

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=94.33  E-value=0.084  Score=45.10  Aligned_cols=26  Identities=0%  Similarity=-0.180  Sum_probs=14.5

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQM  130 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M  130 (296)
                      ..+..+-..|.+.|+.++|.+.|++.
T Consensus       152 ~a~~~la~~~~~~g~~~~A~~~l~~~  177 (287)
T 3qou_A          152 EIGLLLAETLIALNRSEDAEAVLXTI  177 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            34555555555566666666555554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=94.17  E-value=0.36  Score=44.95  Aligned_cols=95  Identities=7%  Similarity=0.053  Sum_probs=69.1

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhc-
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-GSTE-NVWLTLLSACRVHRNVELAEKVADMILMI-  181 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-~p~~-~~~~~Li~~~~~~g~~~~A~~~~~~m~~~-  181 (296)
                      .++|.|...|...|++++|+.++++..+-        |-.++.. .|++ .+++-|=..|...|++++|+.++++..+. 
T Consensus       352 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i--------~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~  423 (490)
T 3n71_A          352 RLLSIASEVLSYLQAYEEASHYARRMVDG--------YMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAIL  423 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------HHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--------HHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            47999999999999999999999987541        1222221 4554 67899999999999999999999987542 


Q ss_pred             ----CCCCcchh---HHh--------hHHHHHHHHHHHHhC
Q 044945          182 ----EPNNTGAY---VIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       182 ----~~~~~~~y---~~l--------~~~~a~~l~~~M~~~  207 (296)
                          ++....+-   +.+        ..++|+.++.++++.
T Consensus       424 ~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          424 LVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                44333222   222        568888888887653

>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=94.16  E-value=0.33  Score=42.42  Aligned_cols=105  Identities=13%  Similarity=0.076  Sum_probs=78.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhh--hhhcc-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFS--RIMHA-GSTENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~--~li~~-~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                      ..|+.+-..|.+.|+.++|.+.|++-.+..  |+...+.  ..... .-....|..+-..|.+.|++++|...+++..+.
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            578888899999999999999999987743  2210000  00000 011578888999999999999999999999999


Q ss_pred             CCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          182 EPNNTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       182 ~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      .|.+...|..+        .+++|...|++..+.  .|+.
T Consensus       226 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~  263 (336)
T 1p5q_A          226 DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNN  263 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSC
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCC
Confidence            88888777766        689999999887764  4554

>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=94.14  E-value=0.21  Score=44.93  Aligned_cols=101  Identities=11%  Similarity=0.034  Sum_probs=69.5

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhh-hhhhhcc----------------------CCCHHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAP-FSRIMHA----------------------GSTENVWLTLLSA  161 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~t-y~~li~~----------------------~p~~~~~~~Li~~  161 (296)
                      ..|+.+-..|.+.|+.++|++.|++..+.  .|+..+ |..+-..                      +-+...|+-+=..
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            45888888899999999999999998773  343222 1111000                      2355677777777


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          162 CRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       162 ~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |.+.|++++|...|++..+..|.+...|..+        .+++|...+++..+.
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l  229 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE  229 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence            7777777777777777777777777666666        457777788777764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=94.13  E-value=0.12  Score=37.88  Aligned_cols=90  Identities=13%  Similarity=0.086  Sum_probs=68.4

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..+.+.|++   ...|++..+.+-    -+...|..+=..|.+.|+.++|+..|++-.+..  |            -+..
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~P----~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P------------~~~~   86 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKEP----EREEAWRSLGLTQAENEKDGLAIIALNHARMLD--P------------KDIA   86 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCC----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CCHH
Confidence            456778888   667776654321    133678888899999999999999999987743  2            3567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .|..|-..|.+.|+.++|...+++..+..|.
T Consensus        87 ~~~~la~~~~~~g~~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A           87 VHAALAVSHTNEHNANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC
Confidence            8888999999999999999999999877664

>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=94.11  E-value=0.27  Score=46.14  Aligned_cols=59  Identities=15%  Similarity=0.041  Sum_probs=44.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh-----------hHHHHHHHHHHHHhCC
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL-----------INEALKDLLERMEQEG  208 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l-----------~~~~a~~l~~~M~~~g  208 (296)
                      .+...|..+-..|.+.|++++|...+++..+..|.+...+..+           ..++|.+.+++..+.+
T Consensus        89 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           89 EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            3567788888888888888888888888888777666666555           3566777777776543

>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=93.93  E-value=0.19  Score=36.71  Aligned_cols=90  Identities=8%  Similarity=-0.104  Sum_probs=70.2

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      ..|.+.|++   ...|++..+.+-    .+...|..+-..|.+.|+.++|...|++..+..  |            .+..
T Consensus        17 ~~~~~~~~~~~A~~~~~~al~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~   78 (137)
T 3q49_B           17 NRLFVGRKYPEAAACYGRAITRNP----LVAVYYTNRALCYLKMQQPEQALADCRRALELD--G------------QSVK   78 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHhhCc----CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--c------------hhHH
Confidence            466778888   666666544321    123678999999999999999999999987743  2            3567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .|..+-..|...|++++|...|++..+..|.
T Consensus        79 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           79 AHFFLGQCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHChh
Confidence            8889999999999999999999998876543

>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=93.92  E-value=0.74  Score=36.26  Aligned_cols=105  Identities=15%  Similarity=0.112  Sum_probs=74.5

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhh-hcc---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRI-MHA---GSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l-i~~---~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      ..|..+-..|.+.|++++|.+.|.+-.+..  |+...+... +..   ......|..+-..|.+.|++++|...+++..+
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            457777788999999999999999987732  221111000 000   00136788888899999999999999999998


Q ss_pred             cCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          181 IEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       181 ~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      ..|.+...|..+        .+++|.+.|++-.+.  .|+.
T Consensus       117 ~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~  155 (198)
T 2fbn_A          117 IDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNN  155 (198)
T ss_dssp             HSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTC
T ss_pred             hCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCc
Confidence            888777666665        678888888876654  3543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=93.81  E-value=0.27  Score=34.43  Aligned_cols=64  Identities=8%  Similarity=0.068  Sum_probs=54.7

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                      ...|..+-..|.+.|+.++|.+.|++..+..  |            .+...|..+=..|.+.|++++|...|++..+.
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD--P------------DYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T------------TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3568888899999999999999999988753  2            35568888999999999999999999988764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=93.80  E-value=0.44  Score=36.26  Aligned_cols=103  Identities=11%  Similarity=0.099  Sum_probs=74.7

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHc------CCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMA------KIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMIL  179 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~------g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  179 (296)
                      .|...=..|.+.|++++|++.|.+-.+.      .-.|+...+..+ . +-+...|.-+-.+|.+.|++++|...+++..
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVEL-D-RKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHH-H-HTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHH-H-HHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            4666667889999999999999987663      001221111100 0 2345678888899999999999999999999


Q ss_pred             hcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCC
Q 044945          180 MIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       180 ~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~  212 (296)
                      +..|.+...|..+        .+++|...|++-.+.  .|+
T Consensus        91 ~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~  129 (162)
T 3rkv_A           91 KREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPA  129 (162)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGG
T ss_pred             hcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCC
Confidence            9888888777766        678888888776654  454

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=93.70  E-value=0.21  Score=46.05  Aligned_cols=88  Identities=14%  Similarity=0.123  Sum_probs=71.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhc---------CCHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVH---------RNVELAEKVA  175 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~---------g~~~~A~~~~  175 (296)
                      ..|..+-..|.+.|+.++|.+.|++..+.               .|+...|..+-..|...         |++++|...|
T Consensus       138 ~a~~~lg~~~~~~g~~~~A~~~~~~al~~---------------~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~  202 (474)
T 4abn_A          138 EAWNQLGEVYWKKGDVTSAHTCFSGALTH---------------CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQA  202 (474)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTT---------------CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh---------------CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHH
Confidence            56777778888888888888888776653               46667788888888888         9999999999


Q ss_pred             HHHHhcCCCCcchhHHh------h----------HHHHHHHHHHHHhC
Q 044945          176 DMILMIEPNNTGAYVIL------I----------NEALKDLLERMEQE  207 (296)
Q Consensus       176 ~~m~~~~~~~~~~y~~l------~----------~~~a~~l~~~M~~~  207 (296)
                      ++..+..|.+...|..+      .          +++|.+.|++-.+.
T Consensus       203 ~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~  250 (474)
T 4abn_A          203 KLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV  250 (474)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh
Confidence            99999988888777776      3          68888888887764

>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=93.69  E-value=0.32  Score=38.43  Aligned_cols=74  Identities=12%  Similarity=0.061  Sum_probs=62.4

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|++.+++..+..              +.+...|..+-..|...|++++|...|++..+..|.
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~--------------p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~  154 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID--------------KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  154 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--------------cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC
Confidence            578888889999999999999999987742              246677888889999999999999999999988887


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      +...+..+
T Consensus       155 ~~~~~~~l  162 (198)
T 2fbn_A          155 NLDIRNSY  162 (198)
T ss_dssp             CHHHHHHH
T ss_pred             cHHHHHHH
Confidence            76666655

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=93.48  E-value=0.35  Score=33.79  Aligned_cols=56  Identities=16%  Similarity=0.160  Sum_probs=47.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          151 TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       151 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +...|..+=..|.+.|++++|...|++..+..|.+...|..+        ..++|.+.+++-.+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            567788888999999999999999999999988888887777        67888888776554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=93.43  E-value=0.48  Score=33.65  Aligned_cols=57  Identities=16%  Similarity=0.071  Sum_probs=47.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .+...|..+-..|.+.|++++|...|++..+..|.+...|..+        ..++|...|++..+
T Consensus        17 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           17 DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3667888888999999999999999999998888777777666        67888888877654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=93.35  E-value=0.39  Score=34.15  Aligned_cols=66  Identities=14%  Similarity=0.091  Sum_probs=55.9

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ...|..+-..|.+.|++++|++.|++..+..              +.+...|..+-..|.+.|++++|...|++..+..|
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~   84 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFD--------------PTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQ   84 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            4678888899999999999999999987743              23567888889999999999999999999876543

>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=93.01  E-value=0.15  Score=49.42  Aligned_cols=170  Identities=6%  Similarity=-0.072  Sum_probs=98.6

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-CCCHHHHHHHHHHHHh
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-GSTENVWLTLLSACRV  164 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-~p~~~~~~~Li~~~~~  164 (296)
                      ..+...++.+..   .|+...-.. +.+ ...|+.++|++.|++..+..+..       -... +.+...|..+-..|.+
T Consensus       378 ~~~~~~L~~p~~---~p~~~~a~~-~~a-~~~~~~~~A~~~~~~al~~~~~~-------~~~~~p~~~~~~~~~a~~~~~  445 (681)
T 2pzi_A          378 NEIVTALSVPLV---DPTDVAASV-LQA-TVLSQPVQTLDSLRAARHGALDA-------DGVDFSESVELPLMEVRALLD  445 (681)
T ss_dssp             HHHHHHSCCBCC---CTTSTTHHH-HHH-TTTCCHHHHHHHHHHHHTC--------------CCTTCSHHHHHHHHHHHH
T ss_pred             HHHHhhCCCccC---CCCCcchHH-hhc-ccccCHHHHHHHHHHhhhhcccc-------cccccccchhHHHHHHHHHHh
Confidence            445555554444   554333222 233 78899999999999987211100       0000 2355678888888999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCccceeecch-----hhhhhhhhh
Q 044945          165 HRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKEVLLDVEE-----EQKKNILYY  231 (296)
Q Consensus       165 ~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~-----~~~~~~~~~  231 (296)
                      .|++++|...|++..+..|.+...|..+        .+++|.+.|++-.+.  .|+.......++.     +...+ +..
T Consensus       446 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~  522 (681)
T 2pzi_A          446 LGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKF  522 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCH
T ss_pred             cCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHH
Confidence            9999999999999988888787777666        678898888877654  4553333222111     11111 111


Q ss_pred             hhHHHHHHHHhhcCCCCCe-EEEEecccCccchhhHHHHHhhhhc
Q 044945          232 HGERLALVFGIISTPDGTT-IRVIKNLPSLRGLRHGNKVVSKIVH  275 (296)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~-~~ii~~~~k~g~~~~A~~~f~~m~~  275 (296)
                      ....    ..+ .+..... ..+-..|.+.|+.++|.+.|++..+
T Consensus       523 ~~~a----l~~-~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  562 (681)
T 2pzi_A          523 YQTV----WST-NDGVISAAFGLARARSAEGDRVGAVRTLDEVPP  562 (681)
T ss_dssp             HHHH----HHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCT
T ss_pred             HHHH----HHh-CCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcc
Confidence            1111    111 1111000 0002347789999999999987664

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=92.96  E-value=0.22  Score=46.18  Aligned_cols=90  Identities=9%  Similarity=0.114  Sum_probs=66.8

Q ss_pred             eeHHHHHHHHhc-------cCChh-------HHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHH
Q 044945          105 ISRNSITAGCGQ-------NGPFD-------EGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVEL  170 (296)
Q Consensus       105 ~t~n~li~~~~~-------~g~~~-------~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~  170 (296)
                      ..|......+.+       .|+++       +|.++|++-.+. +.|            -+...|..+...+.+.|++++
T Consensus       273 ~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~-~~p------------~~~~l~~~~~~~~~~~g~~~~  339 (530)
T 2ooe_A          273 DIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLK------------KNMLLYFAYADYEESRMKYEK  339 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT-TCS------------SCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH-hCc------------ccHHHHHHHHHHHHhcCCHHH
Confidence            567777777765       68887       888888776431 222            357789999999999999999


Q ss_pred             HHHHHHHHHhcCCCCc-chhHHh--------hHHHHHHHHHHHHhC
Q 044945          171 AEKVADMILMIEPNNT-GAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       171 A~~~~~~m~~~~~~~~-~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      |..+|++..+..|.+. ..|...        ..++|.++|++-.+.
T Consensus       340 A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~  385 (530)
T 2ooe_A          340 VHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED  385 (530)
T ss_dssp             HHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999999988766553 356554        568888888877664

>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=92.94  E-value=0.49  Score=43.67  Aligned_cols=79  Identities=9%  Similarity=0.120  Sum_probs=46.7

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccC-hhhhhhhhcc---------------------CCCHHHHHHHHHHHHhcCCHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKAR-HAPFSRIMHA---------------------GSTENVWLTLLSACRVHRNVE  169 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~---------------------~p~~~~~~~Li~~~~~~g~~~  169 (296)
                      ..|.+.|+.++|.+.|++-.+.  .|+ ..+|..+-..                     +.+...|..+-..|.+.|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            3456789999999999988774  232 2222222211                     224455666666666666666


Q ss_pred             HHHHHHHHHHhcCCCCcchhHHh
Q 044945          170 LAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       170 ~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      +|...|++..+..|.+...+..+
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l  114 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKY  114 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHH
Confidence            66666666666555554444433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=92.86  E-value=1.3  Score=35.77  Aligned_cols=91  Identities=5%  Similarity=0.027  Sum_probs=58.1

Q ss_pred             ccCChhHHHHHHHHHHHcCCccChh-hhhhhhcc---CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc---
Q 044945          116 QNGPFDEGLKFFGQMLMAKIKARHA-PFSRIMHA---GST-ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG---  187 (296)
Q Consensus       116 ~~g~~~~A~~l~~~M~~~g~~pd~~-ty~~li~~---~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~---  187 (296)
                      ..|+.++|.+.|++..+.-  |+.. .+.+....   ... ....-.+-..|.+.|++++|...|+++.+..|.+..   
T Consensus       108 ~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  185 (225)
T 2yhc_A          108 DPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRD  185 (225)
T ss_dssp             CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHH
Confidence            3678999999999987742  4332 11111110   000 011124456788999999999999999988775542   


Q ss_pred             hhHHh--------hHHHHHHHHHHHHhCC
Q 044945          188 AYVIL--------INEALKDLLERMEQEG  208 (296)
Q Consensus       188 ~y~~l--------~~~~a~~l~~~M~~~g  208 (296)
                      .+..+        ..++|.+.++.+...+
T Consensus       186 a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          186 ALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            22222        6788989998887754

>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=92.86  E-value=0.62  Score=42.98  Aligned_cols=59  Identities=12%  Similarity=0.070  Sum_probs=30.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHH--HHhcCCHHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSA--CRVHRNVELAEKVADM  177 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~--~~~~g~~~~A~~~~~~  177 (296)
                      .+|..+-..|.+.|+.++|++.|++..+..  |            -+...+..+-.+  +.+.|++++|...+++
T Consensus        75 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--p------------~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           75 KGYYRRAASNMALGKFRAALRDYETVVKVK--P------------HDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--T------------TCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            445555555555666666666665554421  1            123344444444  7888999999888775

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=92.84  E-value=0.3  Score=42.65  Aligned_cols=91  Identities=13%  Similarity=0.053  Sum_probs=66.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP-  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~-  183 (296)
                      .++..+-..|...|+.++|++++.+-...|-.            .-+...+-.++..|.+.|+++.|.+.+++|.+..+ 
T Consensus       101 ~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~------------~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~~~d  168 (310)
T 3mv2_B          101 YELYLLATAQAILGDLDKSLETCVEGIDNDEA------------EGTTELLLLAIEVALLNNNVSTASTIFDNYTNAIED  168 (310)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCS------------TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC------------cCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc
Confidence            55567778899999999999999886443311            12567788889999999999999999999987755 


Q ss_pred             ----CCcchhH------Hh-----hHHHHHHHHHHHHhC
Q 044945          184 ----NNTGAYV------IL-----INEALKDLLERMEQE  207 (296)
Q Consensus       184 ----~~~~~y~------~l-----~~~~a~~l~~~M~~~  207 (296)
                          .+.....      .+     ..++|..+|+++.+.
T Consensus       169 ~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~  207 (310)
T 3mv2_B          169 TVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT  207 (310)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT
T ss_pred             ccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh
Confidence                2332222      22     467888888888654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=92.60  E-value=1.1  Score=41.52  Aligned_cols=69  Identities=4%  Similarity=0.010  Sum_probs=47.6

Q ss_pred             CCc-eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044945          101 CDY-AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMIL  179 (296)
Q Consensus       101 ~p~-~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  179 (296)
                      .|+ ...|..+...+.+.|+.++|.++|++..+.  .|+..           ...|..+...+.+.|++++|..+|++..
T Consensus       317 ~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~-----------~~~~~~~~~~~~~~~~~~~A~~~~~~Al  383 (530)
T 2ooe_A          317 LKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDP-----------TLVYIQYMKFARRAEGIKSGRMIFKKAR  383 (530)
T ss_dssp             CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCc-----------hHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            343 467999999999999999999999999873  34321           1355555555566666666666666655


Q ss_pred             hcC
Q 044945          180 MIE  182 (296)
Q Consensus       180 ~~~  182 (296)
                      +..
T Consensus       384 ~~~  386 (530)
T 2ooe_A          384 EDA  386 (530)
T ss_dssp             TCT
T ss_pred             hcc
Confidence            543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=92.38  E-value=0.3  Score=42.80  Aligned_cols=86  Identities=12%  Similarity=0.064  Sum_probs=53.1

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      .|+-+-.+|.+.|++++|++.|++-.+..  |            .+...|..+-.+|...|++++|...|++..+..|.+
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~  297 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE--E------------KNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDD  297 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCC
Confidence            78888899999999999999999887642  2            366788888899999999999999999998877766


Q ss_pred             cchhHHh---------hHHHHHHHHHHHH
Q 044945          186 TGAYVIL---------INEALKDLLERME  205 (296)
Q Consensus       186 ~~~y~~l---------~~~~a~~l~~~M~  205 (296)
                      ...+..+         ..+++..++..|.
T Consensus       298 ~~a~~~L~~l~~~~~~~~~~a~~~~~~~l  326 (338)
T 2if4_A          298 KAIRRELRALAEQEKALYQKQKEMYKGIF  326 (338)
T ss_dssp             -----------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            6666555         2344555555554

>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=92.34  E-value=0.61  Score=42.71  Aligned_cols=97  Identities=10%  Similarity=0.050  Sum_probs=73.1

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCc----------------eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCcc
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDY----------------AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKA  137 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~----------------~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~p  137 (296)
                      ..|.+.|++   ...|++-.+.     .|+                ...|+-+-.+|.+.|+.++|++.|++..+..  |
T Consensus       276 ~~~~~~g~~~~A~~~y~~Al~~-----~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p  348 (457)
T 1kt0_A          276 TVYFKGGKYMQAVIQYGKIVSW-----LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD--S  348 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-----HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--T
T ss_pred             HHHHhCCCHHHHHHHHHHHHHH-----hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--C
Confidence            567778888   5555544331     122                2678889999999999999999999987742  2


Q ss_pred             ChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          138 RHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       138 d~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                                  .+...|..+=.+|.+.|++++|...|++..+..|.+...|..+
T Consensus       349 ------------~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l  391 (457)
T 1kt0_A          349 ------------ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQI  391 (457)
T ss_dssp             ------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHH
T ss_pred             ------------ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence                        3677788888899999999999999999999888887777776

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=92.29  E-value=0.65  Score=39.91  Aligned_cols=144  Identities=9%  Similarity=0.033  Sum_probs=89.2

Q ss_pred             HHHHHhhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcc
Q 044945           17 SNGLAGCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMA   93 (296)
Q Consensus        17 n~~~~~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~   93 (296)
                      -.++...|+ +++|.++|+.....+  ++..                    ...   ..-..|.+.+++   ...|+...
T Consensus       109 A~~L~~~g~-y~eA~~~l~~~~~~~--p~~~--------------------~~~---~~a~l~~~~~r~~dA~~~l~~a~  162 (282)
T 4f3v_A          109 AACEAAQGN-YADAMEALEAAPVAG--SEHL--------------------VAW---MKAVVYGAAERWTDVIDQVKSAG  162 (282)
T ss_dssp             HHHHHHHTC-HHHHHHHHTSSCCTT--CHHH--------------------HHH---HHHHHHHHTTCHHHHHHHHTTGG
T ss_pred             HHHHHHCCC-HHHHHHHHHHHHhcC--CchH--------------------HHH---HHHHHHHHcCCHHHHHHHHHHhh
Confidence            345555576 999999988876532  1111                    001   011266778888   66665332


Q ss_pred             cCCcccCCCc--eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHH
Q 044945           94 VRDFLEYCDY--AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELA  171 (296)
Q Consensus        94 ~~~~~~~~p~--~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A  171 (296)
                      ...    .|.  ...+..+=.++.+.|++++|++.|++-......|..           ....+..+=.++.+.|+.++|
T Consensus       163 ~~~----d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~-----------~~da~~~~glaL~~lGr~deA  227 (282)
T 4f3v_A          163 KWP----DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEAC-----------ARAIAWYLAMARRSQGNESAA  227 (282)
T ss_dssp             GCS----CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTT-----------HHHHHHHHHHHHHHHTCHHHH
T ss_pred             ccC----CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccc-----------cHHHHHHHHHHHHHcCCHHHH
Confidence            211    010  124566667899999999999999987643221321           223444555688899999999


Q ss_pred             HHHHHHHHhcCCCCcchhHHhhHHHHHHHHHHHHhCCCcCCCc
Q 044945          172 EKVADMILMIEPNNTGAYVILINEALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       172 ~~~~~~m~~~~~~~~~~y~~l~~~~a~~l~~~M~~~g~~p~~~  214 (296)
                      ..+|+++....|. .            .....+....+.|.+.
T Consensus       228 ~~~l~~a~a~~P~-~------------~~~~aL~~~~~~~~~t  257 (282)
T 4f3v_A          228 VALLEWLQTTHPE-P------------KVAAALKDPSYRLKTT  257 (282)
T ss_dssp             HHHHHHHHHHSCC-H------------HHHHHHHCTTCCCCCC
T ss_pred             HHHHHHHHhcCCc-H------------HHHHHHhCCCCCCCCC
Confidence            9999999988774 3            3444555556655544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=92.01  E-value=1.4  Score=36.27  Aligned_cols=118  Identities=9%  Similarity=-0.014  Sum_probs=82.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCc-eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDY-AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~-~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                      ..|.+.|++   ...|++..+.+-.  .|. ...|.-+-..|.+.|+.++|.+.|++..+..  |+.         ....
T Consensus        23 ~~~~~~g~~~~A~~~~~~~l~~~p~--~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--p~~---------~~~~   89 (261)
T 3qky_A           23 MEFYNQGKYDRAIEYFKAVFTYGRT--HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIY--QID---------PRVP   89 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHGGGCSC--STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC---------TTHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCC--CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHC--CCC---------chhH
Confidence            456677888   7778777654210  010 3567778889999999999999999988752  221         0113


Q ss_pred             HHHHHHHHHHHh--------cCCHHHHHHHHHHHHhcCCCCcchhHH-----------------h--------hHHHHHH
Q 044945          153 NVWLTLLSACRV--------HRNVELAEKVADMILMIEPNNTGAYVI-----------------L--------INEALKD  199 (296)
Q Consensus       153 ~~~~~Li~~~~~--------~g~~~~A~~~~~~m~~~~~~~~~~y~~-----------------l--------~~~~a~~  199 (296)
                      ..+..+-..|.+        .|++++|...|++..+..|.+...+..                 +        .+++|..
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  169 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAV  169 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            455566667777        999999999999999887766544422                 1        5788888


Q ss_pred             HHHHHHhC
Q 044945          200 LLERMEQE  207 (296)
Q Consensus       200 l~~~M~~~  207 (296)
                      .|++..+.
T Consensus       170 ~~~~~l~~  177 (261)
T 3qky_A          170 TYEAVFDA  177 (261)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.88  E-value=1.3  Score=37.57  Aligned_cols=167  Identities=7%  Similarity=-0.085  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHhHhcccCCCccccHHHHHhcCCCcc--CCceehhhhhcccccccccccCCH---HHHHhhcc----cCCc
Q 044945           27 MDKANGITDRFEERAVSIGHYADLDGISDQLPSSS--GGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMA----VRDF   97 (296)
Q Consensus        27 ~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~--~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~----~~~~   97 (296)
                      +++|.+.|.+.-..-...|.++.|...+...-...  .+........+.-+-..|.+.|+.   ...|++-.    +.+-
T Consensus        33 ~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~  112 (292)
T 1qqe_A           33 FEEAADLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQ  112 (292)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCC
Confidence            77888877775432223566666666543322110  000000111223334677788888   34444322    1111


Q ss_pred             ccCCC-ceeeHHHHHHHHhcc-CChhHHHHHHHHHHHcCCccChhhhhhhhccCC-CHHHHHHHHHHHHhcCCHHHHHHH
Q 044945           98 LEYCD-YAISRNSITAGCGQN-GPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGS-TENVWLTLLSACRVHRNVELAEKV  174 (296)
Q Consensus        98 ~~~~p-~~~t~n~li~~~~~~-g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p-~~~~~~~Li~~~~~~g~~~~A~~~  174 (296)
                         .+ -..+|+.+-..|.+. |+.++|++.|++-.+..  |+.-       ..+ ...+|+-+-..|.+.|++++|...
T Consensus       113 ---~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~--~~~~-------~~~~~~~~~~~lg~~~~~~g~~~~A~~~  180 (292)
T 1qqe_A          113 ---FRRGANFKFELGEILENDLHDYAKAIDCYELAGEWY--AQDQ-------SVALSNKCFIKCADLKALDGQYIEASDI  180 (292)
T ss_dssp             ---HHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH--HHTT-------CHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ---HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHH--HhCC-------ChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence               00 124788888999996 99999999999876521  1000       000 135688888999999999999999


Q ss_pred             HHHHHhcCCCCcc-------hhHHh--------hHHHHHHHHHHHH
Q 044945          175 ADMILMIEPNNTG-------AYVIL--------INEALKDLLERME  205 (296)
Q Consensus       175 ~~~m~~~~~~~~~-------~y~~l--------~~~~a~~l~~~M~  205 (296)
                      |++..+..|.+..       +|..+        ..++|...+++-.
T Consensus       181 ~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  226 (292)
T 1qqe_A          181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQ  226 (292)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGG
T ss_pred             HHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999887654332       22222        5677777776543

>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=91.27  E-value=1  Score=39.94  Aligned_cols=105  Identities=13%  Similarity=0.020  Sum_probs=75.0

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCC-ccChhhhhhhhcc-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKI-KARHAPFSRIMHA-GSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~-~pd~~ty~~li~~-~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      .|..+-..|.+.|+.++|++.|++-.+.-- .|....+...... .-+...|+-+-..|.+.|++++|...+++..+..|
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            477788899999999999999998775100 0000001111111 23567888888999999999999999999999888


Q ss_pred             CCcchhHHh--------hHHHHHHHHHHHHhCCCcCC
Q 044945          184 NNTGAYVIL--------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       184 ~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~  212 (296)
                      .+...|..+        .+++|.+.|++..+.  .|+
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~  339 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APE  339 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCC
Confidence            777666666        678898888877654  454

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=90.80  E-value=0.84  Score=31.59  Aligned_cols=62  Identities=10%  Similarity=-0.068  Sum_probs=50.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      ++...|..+-..+.+.|++++|...|++..+..|.+...|..+        .+++|...+++..+.  .|+.
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~   71 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTA   71 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSST
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCc
Confidence            4566788888899999999999999999999888787777666        689999999887754  4543

>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=90.75  E-value=1.4  Score=40.27  Aligned_cols=106  Identities=14%  Similarity=0.084  Sum_probs=75.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhh----hhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFS----RIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~----~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      ..|+.+-..|.+.|++++|...|++-.+.  .|+...+.    .-+. .-....|.-+-.+|.+.|++++|...+++..+
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~-~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASE-SFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHH-HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            35777888999999999999999998763  12210000    0000 01157788888899999999999999999999


Q ss_pred             cCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCcc
Q 044945          181 IEPNNTGAYVIL--------INEALKDLLERMEQEGYVPDTKE  215 (296)
Q Consensus       181 ~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~t  215 (296)
                      ..|.+..+|..+        .+++|...|++..+.  .|+...
T Consensus       346 ~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~  386 (457)
T 1kt0_A          346 LDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKA  386 (457)
T ss_dssp             HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----C
T ss_pred             cCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHH
Confidence            888887776666        689999999887764  565443

>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=90.59  E-value=2.3  Score=33.13  Aligned_cols=97  Identities=13%  Similarity=0.046  Sum_probs=69.1

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----
Q 044945          107 RNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-GSTENVWLTLLSACRVHRNVELAEKVADMILMI----  181 (296)
Q Consensus       107 ~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~----  181 (296)
                      +...=..+.+.|++++|++.|++-.+.  .|+... ..-+.. .-+...|+-+=.++.+.|++++|...+++..+.    
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 ALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPP-EEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCT-TSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcc-hhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            445556678899999999999998763  232100 000000 113448999999999999999999999999988    


Q ss_pred             ---CCCCcchh----HHh--------hHHHHHHHHHHHHh
Q 044945          182 ---EPNNTGAY----VIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       182 ---~~~~~~~y----~~l--------~~~~a~~l~~~M~~  206 (296)
                         .|.+...|    .-.        ..++|..-|++-.+
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence               88777777    433        67888887776543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=90.38  E-value=1.1  Score=39.13  Aligned_cols=104  Identities=13%  Similarity=0.121  Sum_probs=72.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-----GSTENVWLTLLSACRVHRNVELAEKVADMIL  179 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-----~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~  179 (296)
                      ..|..+-..|.+.|++++|...|.+-.+.  .|+...|...-.-     .-....|+-+-..|.+.|++++|...+++..
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al  257 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVL  257 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45777778889999999999999987653  2443322111000     0011367888889999999999999999999


Q ss_pred             hcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcCC
Q 044945          180 MIEPNNTGAYVIL--------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       180 ~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~  212 (296)
                      +..|.+...|..+        .+++|...|++..+  +.|+
T Consensus       258 ~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~  296 (338)
T 2if4_A          258 TEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPD  296 (338)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------
T ss_pred             HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCC
Confidence            9888787776666        67888888876543  3454

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=90.31  E-value=1.1  Score=33.86  Aligned_cols=68  Identities=13%  Similarity=0.103  Sum_probs=59.0

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|.-+-.+|.+.|++++|+..+++-.+..  |            .+...|..+=.+|...|++++|...|++..+..|.
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~  129 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE--E------------TNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPA  129 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC--C------------cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCC
Confidence            678889999999999999999999987742  2            46778888899999999999999999999988776


Q ss_pred             Cc
Q 044945          185 NT  186 (296)
Q Consensus       185 ~~  186 (296)
                      +.
T Consensus       130 ~~  131 (162)
T 3rkv_A          130 AA  131 (162)
T ss_dssp             GH
T ss_pred             CH
Confidence            55

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=90.29  E-value=3  Score=33.51  Aligned_cols=95  Identities=14%  Similarity=0.198  Sum_probs=68.5

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGS-TENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+-.+-..+.+.|+.++|.+.|++..+..  |+          .| ....+..+-..|.+.|++++|...|++..+..|.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~--p~----------~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~   73 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRY--PF----------GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPT   73 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TT----------STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC----------ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcC
Confidence            34445567889999999999999998742  21          11 1356777888999999999999999999988776


Q ss_pred             Ccc---hhHHh--------------------------hHHHHHHHHHHHHhCCCcCCCc
Q 044945          185 NTG---AYVIL--------------------------INEALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       185 ~~~---~y~~l--------------------------~~~~a~~l~~~M~~~g~~p~~~  214 (296)
                      +..   ++..+                          ..++|...|++..+.  -|+..
T Consensus        74 ~~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~  130 (225)
T 2yhc_A           74 HPNIDYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQ  130 (225)
T ss_dssp             CTTHHHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCT
T ss_pred             CCcHHHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCCh
Confidence            543   22111                          357888888887765  46543

>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=89.48  E-value=1.3  Score=46.44  Aligned_cols=93  Identities=12%  Similarity=0.137  Sum_probs=54.0

Q ss_pred             ccccccCCH-HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-------
Q 044945           77 LRPSRSGSV-RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-------  148 (296)
Q Consensus        77 ~~y~k~g~~-~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-------  148 (296)
                      .++-+.|++ +.+-.=.+..+.       -.|.-++..|.+.|+.++|.+.|..=++..  ++....+-+..+       
T Consensus      1113 KAql~~G~~kEAIdsYiKAdD~-------say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rl 1183 (1630)
T 1xi4_A         1113 KAQLQKGMVKEAIDSYIKADDP-------SSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRL 1183 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHhcCCh-------HHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCH
Confidence            566666777 222222333444       667778889999999999998886544322  222111111111       


Q ss_pred             --------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 044945          149 --------GSTENVWLTLLSACRVHRNVELAEKVADMI  178 (296)
Q Consensus       149 --------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m  178 (296)
                              .|+...|..+=+.|...|++++|..+|...
T Consensus      1184 eele~fI~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA 1221 (1630)
T 1xi4_A         1184 AELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV 1221 (1630)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh
Confidence                    455555666666666777777777777664

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=89.33  E-value=1.4  Score=29.16  Aligned_cols=57  Identities=18%  Similarity=0.232  Sum_probs=46.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhC
Q 044945          151 TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       151 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      +...|..+-..|.+.|++++|...|++..+..|.+...|..+        ..++|.+.+++..+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            345777788889999999999999999998887777666665        678888888877654

>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=89.32  E-value=2.6  Score=44.25  Aligned_cols=82  Identities=10%  Similarity=0.078  Sum_probs=55.1

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-----------------CCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-----------------GSTENVWLTLLSACRVHRN  167 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-----------------~p~~~~~~~Li~~~~~~g~  167 (296)
                      -.|..+...|++.|++++|.+.+++=      -|..+|.-+-.+                 .-+...+..++..|-+.|.
T Consensus      1222 ~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~ 1295 (1630)
T 1xi4_A         1222 SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGY 1295 (1630)
T ss_pred             hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCC
Confidence            35777777777777777777777653      222333211111                 2355567789999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          168 VELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       168 ~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      +++|..+++.-...++.....|+-+
T Consensus      1296 feEAI~LlE~aL~LeraH~gmftEL 1320 (1630)
T 1xi4_A         1296 FEELITMLEAALGLERAHMGMFTEL 1320 (1630)
T ss_pred             HHHHHHHHHHHhccChhHhHHHHHH
Confidence            9999999988877666666677555

>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=89.13  E-value=8.2  Score=31.55  Aligned_cols=103  Identities=8%  Similarity=0.006  Sum_probs=62.9

Q ss_pred             cCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhc----cCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHH
Q 044945           82 SGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQ----NGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENV  154 (296)
Q Consensus        82 ~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~----~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~  154 (296)
                      .|+.   .+.|++-.+.+      +..+|..+-..|.+    .|+.++|++.|++-.+.|                +...
T Consensus        55 ~~~~~~A~~~~~~a~~~~------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----------------~~~a  112 (273)
T 1ouv_A           55 EKNLKKAASFYAKACDLN------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK----------------YAEG  112 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----------------CHHH
T ss_pred             CCCHHHHHHHHHHHHHCC------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC----------------CccH
Confidence            5555   55555544432      12567777777777    888888888888776643                3445


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCcchhHHh------------hHHHHHHHHHHHHhCC
Q 044945          155 WLTLLSACRV----HRNVELAEKVADMILMIEPNNTGAYVIL------------INEALKDLLERMEQEG  208 (296)
Q Consensus       155 ~~~Li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~y~~l------------~~~~a~~l~~~M~~~g  208 (296)
                      +..|=..|.+    .|+.++|...|++..+.+  +..++..+            ..++|...+++-.+.+
T Consensus       113 ~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~  180 (273)
T 1ouv_A          113 CASLGGIYHDGKVVTRDFKKAVEYFTKACDLN--DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK  180 (273)
T ss_dssp             HHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC--cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            5566666666    777777777777776654  22222222            3566666666665553

>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=88.89  E-value=1.2  Score=40.67  Aligned_cols=68  Identities=16%  Similarity=0.193  Sum_probs=54.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-GSTE-NVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-~p~~-~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      .++|.|-..|...|++++|+.++++..+        .|-.++.. .|++ .++|-|=..|...|++++|+.++++..+
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~--------i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIK--------PYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--------HHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHH--------HHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            4799999999999999999999999764        11222221 4655 6799999999999999999999998754

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.87  E-value=1.7  Score=36.73  Aligned_cols=73  Identities=11%  Similarity=0.095  Sum_probs=52.8

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+|+.+-..|.+.|+.++|++.|++..+.........|+       -...|..+-..|...|++++|...|++..+..|.
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~-------~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~  231 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS-------LKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPN  231 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG-------HHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH-------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            468889999999999999999999988754221111010       1125667777889999999999999998876554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=88.79  E-value=5.1  Score=32.69  Aligned_cols=91  Identities=11%  Similarity=0.072  Sum_probs=66.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ..+-.+-..+.+.|+.++|.+.|++..+..  |+.          |. ...+..+-..|.+.|++++|...|++..+..|
T Consensus        16 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~----------~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p   83 (261)
T 3qky_A           16 QEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTH----------EWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQ   83 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCS----------TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCC----------cchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCC
Confidence            445556677889999999999999987753  211          11 56677788889999999999999999998866


Q ss_pred             CCcc---hhHHh----------------hHHHHHHHHHHHHhC
Q 044945          184 NNTG---AYVIL----------------INEALKDLLERMEQE  207 (296)
Q Consensus       184 ~~~~---~y~~l----------------~~~~a~~l~~~M~~~  207 (296)
                      .+..   .+..+                ..++|...|++..+.
T Consensus        84 ~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           84 IDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             TCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            4422   12111                467888888888764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=88.33  E-value=2.5  Score=39.23  Aligned_cols=84  Identities=13%  Similarity=0.039  Sum_probs=57.6

Q ss_pred             HHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCC
Q 044945          113 GCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-GST-ENVWLTLLSACRVHRNVELAEKVADMILMI-----EPNN  185 (296)
Q Consensus       113 ~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~-----~~~~  185 (296)
                      .+-..|+.++|+.++++-.+..        ..++.. .|+ ..+++.|-..|...|++++|+.++++..+.     ++..
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~--------~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~H  389 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQ--------EPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNN  389 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHH--------TTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTC
T ss_pred             HHHhCCCHHHHHHHHHHHHHHH--------HHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCC
Confidence            3567899999999998876521        111111 344 368999999999999999999999987643     3333


Q ss_pred             c---chhHHh--------hHHHHHHHHHHH
Q 044945          186 T---GAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       186 ~---~~y~~l--------~~~~a~~l~~~M  204 (296)
                      .   .+++-|        .+++|+.++++-
T Consensus       390 p~~a~~l~nLa~~~~~~G~~~eA~~~~~~A  419 (490)
T 3n71_A          390 AQLGMAVMRAGLTNWHAGHIEVGHGMICKA  419 (490)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            2   334444        567777766653

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=88.27  E-value=4.3  Score=36.23  Aligned_cols=179  Identities=8%  Similarity=-0.032  Sum_probs=83.5

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccC-hhhhhhhhcc----------------
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKAR-HAPFSRIMHA----------------  148 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd-~~ty~~li~~----------------  148 (296)
                      .+.+++....+-    .+...|+.+-..|.+.|+.++|.+.|.+..+..  |+ ..+|..+-..                
T Consensus       233 ~~~~~~al~~~~----~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~~~~~~  306 (472)
T 4g1t_A          233 EKLVEEALEKAP----GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNLRENGM  306 (472)
T ss_dssp             HHHHHHHHHHCS----SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             HHHHHHHHHhCc----cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            566665443221    223678889999999999999999999987743  43 2222221100                


Q ss_pred             ------------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc---hhHH---h------
Q 044945          149 ------------------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG---AYVI---L------  192 (296)
Q Consensus       149 ------------------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~---~y~~---l------  192 (296)
                                              +.+..+|..+-..|.+.|++++|...|++..+..+.+..   .+..   +      
T Consensus       307 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~  386 (472)
T 4g1t_A          307 YGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMK  386 (472)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSS
T ss_pred             HHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCC
Confidence                                    233455667777788888888888888877766543321   1111   1      


Q ss_pred             hHHHHHHHHHHHHhCCCcCCCccceeecchhhhhhhhhhhhHHHHHHHHhhcCCCCCeE-EEEecccCccchhhHHHHHh
Q 044945          193 INEALKDLLERMEQEGYVPDTKEVLLDVEEEQKKNILYYHGERLALVFGIISTPDGTTI-RVIKNLPSLRGLRHGNKVVS  271 (296)
Q Consensus       193 ~~~~a~~l~~~M~~~g~~p~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ii~~~~k~g~~~~A~~~f~  271 (296)
                      ..++|...+.+-.+  +.|+....         .+.............. ..+...... .+=..|.+.|+.++|.+.|+
T Consensus       387 ~~~~Ai~~y~kal~--i~~~~~~~---------~~~~~~l~~~~~~~l~-~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~  454 (472)
T 4g1t_A          387 CEDKAIHHFIEGVK--INQKSREK---------EKMKDKLQKIAKMRLS-KNGADSEALHVLAFLQELNEKMQQADEDSE  454 (472)
T ss_dssp             CHHHHHHHHHHHHH--SCCCCHHH---------HHHHHHHHHHHHHHHH-HCC-CTTHHHHHHHHHHHHHHCC-------
T ss_pred             CHHHHHHHHHHHHh--cCcccHHH---------HHHHHHHHHHHHHHHH-hCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34667666665544  23432211         0000000000000010 122221111 00123678899999999999


Q ss_pred             hhhcceEEEec
Q 044945          272 KIVHREMIVRD  282 (296)
Q Consensus       272 ~m~~r~~~~~~  282 (296)
                      +-.+-+-..|+
T Consensus       455 kALe~~~~~p~  465 (472)
T 4g1t_A          455 RGLESGSLIPS  465 (472)
T ss_dssp             -----------
T ss_pred             HHHhcCCCCCc
Confidence            88765544444

>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=88.11  E-value=1.9  Score=36.77  Aligned_cols=96  Identities=4%  Similarity=-0.072  Sum_probs=64.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+|+.+-..|.+ |++++|++.|++-.+.--..+..        .--..+++-+-..|.+.|++++|...|++..+..+.
T Consensus       117 ~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~--------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~  187 (307)
T 2ifu_A          117 MALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERL--------RQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKE  187 (307)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCH--------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCCh--------hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            567888888888 99999999999876521000000        011456888888999999999999999998765322


Q ss_pred             Cc------chhHHh--------hHHHHHHHHHHHHhCCCcCC
Q 044945          185 NT------GAYVIL--------INEALKDLLERMEQEGYVPD  212 (296)
Q Consensus       185 ~~------~~y~~l--------~~~~a~~l~~~M~~~g~~p~  212 (296)
                      +.      .+|..+        ..++|...|++-.   ..|+
T Consensus       188 ~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al---~~p~  226 (307)
T 2ifu_A          188 MENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY---SIPG  226 (307)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSTT
T ss_pred             cCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh---CCCC
Confidence            11      122222        5788888888766   4565

>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=88.00  E-value=0.76  Score=38.89  Aligned_cols=88  Identities=10%  Similarity=0.003  Sum_probs=73.5

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|..+-..|.+.|+.++|.+.|++..+..  |            .+...|..+-..|.+.|++++|...+++..+..|.
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~   70 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRN--P------------LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ   70 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--S------------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC
Confidence            567778888999999999999999987742  2            36778888999999999999999999999988887


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHh
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +...|..+        .+++|...|.+..+
T Consensus        71 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           71 SVKAHFFLGQCQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            87777766        67888888877655

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=87.99  E-value=2.1  Score=33.13  Aligned_cols=94  Identities=12%  Similarity=-0.011  Sum_probs=63.9

Q ss_pred             eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--
Q 044945          104 AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI--  181 (296)
Q Consensus       104 ~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~--  181 (296)
                      ..+|+.+-..|...|++++|.+.|++..+.--..+..        .....+++.+-..|...|++++|...+++..+.  
T Consensus        26 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~--------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~   97 (203)
T 3gw4_A           26 SGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDH--------TAEHRALHQVGMVERMAGNWDAARRCFLEERELLA   97 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCH--------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCc--------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            3678889999999999999999999876621100000        124567888888999999999999999987654  


Q ss_pred             -CCCCc----chhHHh--------hHHHHHHHHHHHH
Q 044945          182 -EPNNT----GAYVIL--------INEALKDLLERME  205 (296)
Q Consensus       182 -~~~~~----~~y~~l--------~~~~a~~l~~~M~  205 (296)
                       .+.+.    ..+..+        .+++|...+++-.
T Consensus        98 ~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  134 (203)
T 3gw4_A           98 SLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSL  134 (203)
T ss_dssp             HSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence             22121    222222        5677777776654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=87.87  E-value=2.9  Score=35.20  Aligned_cols=65  Identities=14%  Similarity=0.076  Sum_probs=50.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ..+-.+-..+.+.|+.++|.+.|++..+..  |            -+...+..|-..|.+.|++++|...+++..+..|
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P------------~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p  182 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS--N------------QNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQ  182 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--T------------SCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGC
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC--C------------cchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhc
Confidence            456677788899999999999999987743  2            3556677777788888888888888887766555

>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=87.79  E-value=2.3  Score=41.00  Aligned_cols=96  Identities=7%  Similarity=-0.133  Sum_probs=68.0

Q ss_pred             cccCCH---HHHHhhccc------CCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccC
Q 044945           80 SRSGSV---RKVFEIMAV------RDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAG  149 (296)
Q Consensus        80 ~k~g~~---~~~f~~M~~------~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~  149 (296)
                      ...|+.   .+.|++..+      ...   .| +...|..+-..|.+.|+.++|.+.|++..+..  |            
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~---~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p------------  464 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD---FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV--G------------  464 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C---CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--C------------
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc---cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC--c------------
Confidence            456776   566666541      111   23 33578888899999999999999999987742  2            


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      -+...|..+=..|.+.|++++|...|++..+..|.+...|..+
T Consensus       465 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~l  507 (681)
T 2pzi_A          465 WRWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPGELAPKLAL  507 (681)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCSHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHH
Confidence            3556677777777788888888888888877777676666655

>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=87.62  E-value=6.4  Score=34.74  Aligned_cols=74  Identities=11%  Similarity=-0.026  Sum_probs=62.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|+-+-..|.+.|+.++|++.+++-.+..  |            .+...|..+=.+|.+.|++++|...|++..+..|.
T Consensus       274 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~  339 (370)
T 1ihg_A          274 SCVLNIGACKLKMSDWQGAVDSCLEALEID--P------------SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE  339 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHHhC--c------------hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            678889999999999999999999987632  2            35677888888999999999999999999998887


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      +...+..+
T Consensus       340 ~~~~~~~l  347 (370)
T 1ihg_A          340 DKAIQAEL  347 (370)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            76665555

>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=86.68  E-value=2.3  Score=33.09  Aligned_cols=91  Identities=15%  Similarity=0.154  Sum_probs=66.4

Q ss_pred             eeHHHHHHHHhccCCh----------hHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhc---------
Q 044945          105 ISRNSITAGCGQNGPF----------DEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVH---------  165 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~----------~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~---------  165 (296)
                      ..|+-+=.++.+.|++          ++|+..|++-.+-.  |            -+...|..|=.+|...         
T Consensus        37 ea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld--P------------~~~~A~~~LG~ay~~lg~l~P~~~~  102 (158)
T 1zu2_A           37 DNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--P------------KKDEAVWCIGNAYTSFAFLTPDETE  102 (158)
T ss_dssp             HHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHHHHHCCCHHH
T ss_pred             HHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC--c------------CcHHHHHHHHHHHHHhcccCcchhh
Confidence            5566555566666554          58888887776632  2            2456777777777766         


Q ss_pred             --CCHHHHHHHHHHHHhcCCCCcchhHHh-hHHHHHHHHHHHHhCCC
Q 044945          166 --RNVELAEKVADMILMIEPNNTGAYVIL-INEALKDLLERMEQEGY  209 (296)
Q Consensus       166 --g~~~~A~~~~~~m~~~~~~~~~~y~~l-~~~~a~~l~~~M~~~g~  209 (296)
                        |++++|...|++..+..|.+...+..+ ..++|-+++-+....|.
T Consensus       103 a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~~~ka~el~~~~~~~~~  149 (158)
T 1zu2_A          103 AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLHAEAYKQGL  149 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHHHHHHHSSS
T ss_pred             hhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhCHhccCccccccc
Confidence              489999999999999999888888777 66888787777766544

>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=86.59  E-value=2.9  Score=38.09  Aligned_cols=79  Identities=13%  Similarity=0.048  Sum_probs=53.3

Q ss_pred             ccCChhHHHHHHHHHHHc---CCccChhhhhhhhccCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCc
Q 044945          116 QNGPFDEGLKFFGQMLMA---KIKARHAPFSRIMHAGSTE-NVWLTLLSACRVHRNVELAEKVADMILMI-----EPNNT  186 (296)
Q Consensus       116 ~~g~~~~A~~l~~~M~~~---g~~pd~~ty~~li~~~p~~-~~~~~Li~~~~~~g~~~~A~~~~~~m~~~-----~~~~~  186 (296)
                      ..|+.++|+.++++-.+.   -+-|+          .|++ .+++.|-..|...|++++|+.++++..+.     ++..+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~----------Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp  379 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDS----------NVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSL  379 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTT----------SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChh----------chHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            357788888888876541   11121          3444 68999999999999999999999988643     33332


Q ss_pred             ---chhHHh--------hHHHHHHHHHHH
Q 044945          187 ---GAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       187 ---~~y~~l--------~~~~a~~l~~~M  204 (296)
                         .+|+-|        .+++|..++++-
T Consensus       380 ~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          380 NVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence               344444        567776666553

>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=86.41  E-value=1.9  Score=39.30  Aligned_cols=68  Identities=9%  Similarity=0.013  Sum_probs=53.8

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA-GSTE-NVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~-~p~~-~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      .++|.|...|...|++++|+.++++...-        |-.++.. .|++ .+++-|=..|...|++++|+.++++..+
T Consensus       330 ~~~~~L~~~y~~~g~~~eA~~~~~~~L~i--------~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          330 KVLDCAMDACINLGLLEEALFYGTRTMEP--------YRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--------HHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHh--------HHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            47999999999999999999999987641        1111111 4554 6788999999999999999999998754

>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=85.66  E-value=8.1  Score=31.56  Aligned_cols=99  Identities=10%  Similarity=-0.025  Sum_probs=59.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhh----hc-----c--------------CCCHHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRI----MH-----A--------------GSTENVWLTLLSA  161 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l----i~-----~--------------~p~~~~~~~Li~~  161 (296)
                      .++..+-..|.+.|+.++|++.|++-.+.|..   ..+..+    ..     .              .-+...+..|=..
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~---~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~   83 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACDLKEN---SGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNL   83 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            45666667778888888888888887763321   111111    00     0              2355666666666


Q ss_pred             HHh----cCCHHHHHHHHHHHHhcCCCCcchhHHh------------hHHHHHHHHHHHHhCC
Q 044945          162 CRV----HRNVELAEKVADMILMIEPNNTGAYVIL------------INEALKDLLERMEQEG  208 (296)
Q Consensus       162 ~~~----~g~~~~A~~~~~~m~~~~~~~~~~y~~l------------~~~~a~~l~~~M~~~g  208 (296)
                      |..    .|+.++|...|++..+.+  +..++..+            ..++|...+++-.+.+
T Consensus        84 ~~~g~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~  144 (273)
T 1ouv_A           84 YYSGQGVSQNTNKALQYYSKACDLK--YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN  144 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HhCCCCcccCHHHHHHHHHHHHHcC--CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC
Confidence            766    777777777777766542  44444444            3466777777666655

>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=85.08  E-value=3.4  Score=29.99  Aligned_cols=54  Identities=17%  Similarity=0.074  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      ..|.-|=..|.+.|++++|...|++..+..|.+...|.-+        .+++|.+.+++-.+
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3455566788999999999999999999988888888776        67888888877654

>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=85.08  E-value=2.1  Score=32.87  Aligned_cols=140  Identities=11%  Similarity=0.019  Sum_probs=86.3

Q ss_pred             HHhhcccHHHHHHHHHHhHhcccC--------------CCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH
Q 044945           20 LAGCNEFMDKANGITDRFEERAVS--------------IGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV   85 (296)
Q Consensus        20 ~~~~~~~~~~A~~~f~~M~~~~~~--------------~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~   85 (296)
                      +...|+ +++|...|++..+....              .|..+.|...+.........+..+...  + .+......+..
T Consensus        16 ~~~~g~-~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~--~-~~~~~~~~~~~   91 (176)
T 2r5s_A           16 LLQQGE-HAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLI--A-KLELHQQAAES   91 (176)
T ss_dssp             HHHTTC-HHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHH--H-HHHHHHHHTSC
T ss_pred             HHHcCC-HHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHH--H-HHHHHhhcccc
Confidence            333465 88888888876554321              566677777776654332211111000  0 00000111111


Q ss_pred             --HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHH
Q 044945           86 --RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSAC  162 (296)
Q Consensus        86 --~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~  162 (296)
                        ...|++..+.     .| +...|..+-..|.+.|+.++|.+.|++..+..  |+          .++...+..|...|
T Consensus        92 ~a~~~~~~al~~-----~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~--p~----------~~~~~a~~~l~~~~  154 (176)
T 2r5s_A           92 PELKRLEQELAA-----NPDNFELACELAVQYNQVGRDEEALELLWNILKVN--LG----------AQDGEVKKTFMDIL  154 (176)
T ss_dssp             HHHHHHHHHHHH-----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TT----------TTTTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHh-----CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC--cc----------cChHHHHHHHHHHH
Confidence              3444444332     33 23678889999999999999999999987753  21          12466888999999


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 044945          163 RVHRNVELAEKVADMILM  180 (296)
Q Consensus       163 ~~~g~~~~A~~~~~~m~~  180 (296)
                      ...|+.++|...|++...
T Consensus       155 ~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          155 SALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHCSSCHHHHHHHHHHH
T ss_pred             HHhCCCCcHHHHHHHHHH
Confidence            999999999999987643

>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=5.3  Score=27.92  Aligned_cols=76  Identities=12%  Similarity=0.031  Sum_probs=57.8

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      -+-.|=..+.+.|+.+.|...|++-.+.--.++.       .+.+...++..|-.+|.+.|+++.|...+++..+..|.+
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~-------~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~   79 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEI-------STIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEH   79 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCC-------CSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCC-------CcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCC
Confidence            3445667788999999999999987653111110       124567788999999999999999999999999888876


Q ss_pred             cch
Q 044945          186 TGA  188 (296)
Q Consensus       186 ~~~  188 (296)
                      ...
T Consensus        80 ~~~   82 (104)
T 2v5f_A           80 QRA   82 (104)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=84.10  E-value=3.4  Score=36.09  Aligned_cols=92  Identities=13%  Similarity=0.032  Sum_probs=61.8

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE--  182 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~--  182 (296)
                      ..+..+-..+.+.|+.++|.+.|++..+.+  |+...        .-...|..+-..|...|++++|...+++..+..  
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~--------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~  118 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLR--------TLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKS  118 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHH--------HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChh--------HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence            345556678899999999999999998853  21100        002467888888999999999999999876541  


Q ss_pred             ----CCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          183 ----PNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       183 ----~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                          +....+|..+        .+++|...+++..+
T Consensus       119 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  154 (411)
T 4a1s_A          119 MNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLT  154 (411)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                1123334333        56677666665543

>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=83.64  E-value=4.9  Score=36.48  Aligned_cols=85  Identities=8%  Similarity=-0.044  Sum_probs=58.8

Q ss_pred             HHHHHhccCChhHHHHHHHHHHHcC---CccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----
Q 044945          110 ITAGCGQNGPFDEGLKFFGQMLMAK---IKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMI----  181 (296)
Q Consensus       110 li~~~~~~g~~~~A~~l~~~M~~~g---~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~----  181 (296)
                      .+..+.+.|+.++|++++++..+.-   +.|+          .|+ ..+++.|...|...|++++|+.++++..+.    
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~----------h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~  362 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDI----------NIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIF  362 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTT----------SHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCcc----------chHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHH
Confidence            3566778899999999998887521   1121          232 468999999999999999999999988643    


Q ss_pred             -CCCCc---chhHHh--------hHHHHHHHHHHH
Q 044945          182 -EPNNT---GAYVIL--------INEALKDLLERM  204 (296)
Q Consensus       182 -~~~~~---~~y~~l--------~~~~a~~l~~~M  204 (296)
                       ++..+   .+|+-|        .+++|..++++-
T Consensus       363 lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~A  397 (429)
T 3qwp_A          363 FPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLA  397 (429)
T ss_dssp             SCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence             33222   334444        567777666553

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=83.45  E-value=2.1  Score=37.39  Aligned_cols=94  Identities=10%  Similarity=0.019  Sum_probs=67.4

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCc--eeeHHHHHHHHhccCChhHHHHHHHHHHHcCCc-cChhhhhhhhccCC
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDY--AISRNSITAGCGQNGPFDEGLKFFGQMLMAKIK-ARHAPFSRIMHAGS  150 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~--~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~-pd~~ty~~li~~~p  150 (296)
                      ..|.+.|++   ...|++..+.+-.  .|+  ...|..+-..|...|+.++|.+.|++..+.--. .+.         ..
T Consensus        56 ~~~~~~g~~~~A~~~~~~al~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~---------~~  124 (411)
T 4a1s_A           56 ERLCNAGDCRAGVAFFQAAIQAGTE--DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDR---------LG  124 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCS--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH---------HH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHhccc--ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCc---------hH
Confidence            567778888   7777776553220  011  136888999999999999999999997653100 000         23


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          151 TENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       151 ~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                      ...+|..+-..|...|++++|...+++..+.
T Consensus       125 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  155 (411)
T 4a1s_A          125 EAKSSGNLGNTLKVMGRFDEAAICCERHLTL  155 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            4567888889999999999999999988654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=83.16  E-value=5.1  Score=33.16  Aligned_cols=65  Identities=12%  Similarity=0.070  Sum_probs=47.6

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      .+...-..+.+.|++++|.+.|++..+..  |+...        .-...|..+-..|...|++++|...+++..+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~--------~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   71 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLK--------TLSAIYSQLGNAYFYLHDYAKALEYHHHDLT   71 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHH--------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHH--------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555677889999999999999998853  32100        0135677888888888999999888887654

>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=82.84  E-value=6.1  Score=33.03  Aligned_cols=121  Identities=6%  Similarity=-0.101  Sum_probs=76.1

Q ss_pred             cccccccCCH---HHHHhhcccCCcccCCCce----eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhcc
Q 044945           76 GLRPSRSGSV---RKVFEIMAVRDFLEYCDYA----ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHA  148 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~~~~~~~~p~~----~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~  148 (296)
                      +..+.+.|+.   .+++++..+...  ..|+.    ..|..+...|...|+.++|++.|.+..+.....+..        
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~--------  151 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEE--YHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDV--------  151 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCC--CCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCT--------
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcccc--CChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccH--------
Confidence            4566777888   666666554221  02332    234456677778889999999999988743221100        


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCCC----cchhHHh--------hHHHHHHHHHHHHh
Q 044945          149 GSTENVWLTLLSACRVHRNVELAEKVADMILMI---EPNN----TGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       149 ~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~---~~~~----~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .-...+|+.+-..|...|++++|...|++..+.   .+.+    ..+|..+        ..++|...+++-.+
T Consensus       152 ~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~  224 (293)
T 3u3w_A          152 YQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIE  224 (293)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            001346889999999999999999999998742   1112    1223333        56777777765543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=82.84  E-value=3.2  Score=30.19  Aligned_cols=66  Identities=14%  Similarity=0.084  Sum_probs=38.8

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCc-cChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIK-ARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~-pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      +|+.+-..|...|++++|.+.|++..+..-. ++.         ..-..++..+-..|...|++++|...+++..+
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~---------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~   77 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK---------AAERIAYSNLGNAYIFLGEFETASEYYKKTLL   77 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH---------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCc---------hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4666666777777777777777776542110 000         00123556666666777777777777776554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=82.32  E-value=2.9  Score=34.70  Aligned_cols=68  Identities=13%  Similarity=0.099  Sum_probs=47.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCc-cChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIK-ARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~-pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                      .+|..+-..|...|+.++|.+.|++..+..-. ++.         .....+|..+-..|...|++++|...+++..+.
T Consensus       184 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~---------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  252 (338)
T 3ro2_A          184 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK---------AAERRAYSNLGNAYIFLGEFETASEYYKKTLLL  252 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH---------HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCCh---------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            58888999999999999999999887653211 111         123455666677777777777777777766543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=81.68  E-value=3.2  Score=28.01  Aligned_cols=49  Identities=14%  Similarity=0.125  Sum_probs=40.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCcc-hhHHh--------hHHHHHHHHHHHHhC
Q 044945          159 LSACRVHRNVELAEKVADMILMIEPNNTG-AYVIL--------INEALKDLLERMEQE  207 (296)
Q Consensus       159 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~-~y~~l--------~~~~a~~l~~~M~~~  207 (296)
                      -..+.+.|++++|...|++..+..|.+.. .|..+        ..++|.+.|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34677899999999999999998887776 66666        678898888887754

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=81.45  E-value=3.3  Score=35.74  Aligned_cols=93  Identities=13%  Similarity=0.060  Sum_probs=64.2

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCc-cChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIK-ARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~-pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      .+|+.+-..|...|+.++|.+.|++..+..-. ++.         .....+|..+-..|...|++++|...+++..+..+
T Consensus       188 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~---------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  258 (406)
T 3sf4_A          188 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK---------AAERRAYSNLGNAYIFLGEFETASEYYKKTLLLAR  258 (406)
T ss_dssp             HHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCH---------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCc---------HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            46888899999999999999999998653110 100         11234788888899999999999999998765422


Q ss_pred             C--C----cchhHHh--------hHHHHHHHHHHHHh
Q 044945          184 N--N----TGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       184 ~--~----~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      .  +    ..+|..+        .+++|...+++..+
T Consensus       259 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          259 QLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            1  1    2233333        56777777766543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=81.32  E-value=3.9  Score=35.62  Aligned_cols=55  Identities=15%  Similarity=0.026  Sum_probs=37.7

Q ss_pred             cccccccCCH---HHHHhhccc----CCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHc
Q 044945           76 GLRPSRSGSV---RKVFEIMAV----RDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMA  133 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~----~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~  133 (296)
                      -..|.+.|+.   .+.|++-.+    .+.   .....++..+-..|.+.|+.++|.+.+++-.+.
T Consensus       229 g~~y~~~~~~~~A~~~~~~al~~~~~~~~---~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  290 (378)
T 3q15_A          229 ANSYDRSGDDQMAVEHFQKAAKVSREKVP---DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDH  290 (378)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHCG---GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHhhCC---hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3567777877   444444332    111   112367888889999999999999999998764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=81.08  E-value=24  Score=31.19  Aligned_cols=84  Identities=13%  Similarity=-0.016  Sum_probs=52.5

Q ss_pred             HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHc--CCccChhhhhhhhccCC-CHHHHHHHHHHH
Q 044945           86 RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMA--KIKARHAPFSRIMHAGS-TENVWLTLLSAC  162 (296)
Q Consensus        86 ~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~--g~~pd~~ty~~li~~~p-~~~~~~~Li~~~  162 (296)
                      .++.......+.   ..-...||.|=..|...|+.++|++.|++=.+-  ...++        ...| ..++|+-+=..|
T Consensus        36 ~~~~~~~~~~~~---~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~--------~~~~~~~~~~~nla~~y  104 (472)
T 4g1t_A           36 DKVFYRTEFQNR---EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHAD--------QAEIRSLVTWGNYAWVY  104 (472)
T ss_dssp             HHHHHHTTSCC------CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGG--------GCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC---hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCcc--------ccchHHHHHHHHHHHHH
Confidence            444444433333   333457999999999999999999999875431  00000        0022 345677777777


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 044945          163 RVHRNVELAEKVADMILM  180 (296)
Q Consensus       163 ~~~g~~~~A~~~~~~m~~  180 (296)
                      ...|++++|...+++..+
T Consensus       105 ~~~g~~~~A~~~~~ka~~  122 (472)
T 4g1t_A          105 YHMGRLSDVQIYVDKVKH  122 (472)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHH
Confidence            788888888777776654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=80.86  E-value=3.2  Score=36.21  Aligned_cols=53  Identities=13%  Similarity=0.056  Sum_probs=37.3

Q ss_pred             cccccccCCH---HHHHhhccc-----CCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHH
Q 044945           76 GLRPSRSGSV---RKVFEIMAV-----RDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLM  132 (296)
Q Consensus        76 i~~y~k~g~~---~~~f~~M~~-----~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~  132 (296)
                      -..|.+.|+.   .+.|++-.+     .+    .| ...++..+-..|.+.|+.++|.+.|++-.+
T Consensus       231 g~~y~~~g~~~~A~~~~~~al~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          231 GLCKNSQSQYEDAIPYFKRAIAVFEESNI----LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTC----GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHhhcc----chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3567778888   444444332     22    12 235688899999999999999999998765

>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=80.82  E-value=2.5  Score=32.87  Aligned_cols=80  Identities=14%  Similarity=0.079  Sum_probs=61.9

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHH
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVW----LTLLSACRVHRNVELAEKVADMIL  179 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~----~~Li~~~~~~g~~~~A~~~~~~m~  179 (296)
                      ..|+-+=.++.+.|+.++|+..|++-.+.        ||--+...|| ...|    .-.=.++...|++++|...|++..
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l--------~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHY--------FNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------HHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--------hhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            47899999999999999999999998763        3333333443 4566    777778999999999999999998


Q ss_pred             hcCCCCcchhHHh
Q 044945          180 MIEPNNTGAYVIL  192 (296)
Q Consensus       180 ~~~~~~~~~y~~l  192 (296)
                      +..|.|...+.-+
T Consensus       130 el~p~d~~~~~~~  142 (159)
T 2hr2_A          130 EMIEERKGETPGK  142 (159)
T ss_dssp             HHHHHCCSCCTTH
T ss_pred             hcCCCcHHHHHHH
Confidence            8776665555444

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=80.54  E-value=4.3  Score=35.32  Aligned_cols=93  Identities=6%  Similarity=0.028  Sum_probs=64.4

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCc-cChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIK-ARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMI--  181 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~-pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~--  181 (296)
                      .+++.+-..|...|+.++|++.|.+-.+..-. +|.         .....+|+.+=..|...|++++|...|++..+.  
T Consensus       185 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~---------~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~  255 (383)
T 3ulq_A          185 QCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQP---------QLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFE  255 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH---------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCCh---------HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            57888889999999999999999987652111 110         112346778888999999999999999988763  


Q ss_pred             ---C-CCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          182 ---E-PNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       182 ---~-~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                         . +....++..+        ..++|...+++-.+
T Consensus       256 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          256 ESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               2 2233334444        56777777766543

>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=80.18  E-value=13  Score=31.31  Aligned_cols=71  Identities=10%  Similarity=-0.095  Sum_probs=52.7

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      .+|+.+-..|.+.|+.++|++.|++..+.-  |+...       .++ ...|..+...+...|++++|...|++.. ..|
T Consensus       156 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~-------~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p  225 (307)
T 2ifu_A          156 ELIGKASRLLVRQQKFDEAAASLQKEKSMY--KEMEN-------YPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIP  225 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHTTC-------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TST
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--HHcCC-------hhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCC
Confidence            578888999999999999999999987621  10000       111 2367777778888899999999999988 655


Q ss_pred             CC
Q 044945          184 NN  185 (296)
Q Consensus       184 ~~  185 (296)
                      ..
T Consensus       226 ~~  227 (307)
T 2ifu_A          226 GF  227 (307)
T ss_dssp             TS
T ss_pred             CC
Confidence            43

---

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	296
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.51
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	97.24
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.19
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.56
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.54
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	96.52
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	96.43
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	96.23
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.19
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	96.06
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	95.75
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	95.71
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	95.43
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	95.27
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	95.19
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	95.07
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	95.04
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	94.5
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	94.41
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	94.05
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	93.98
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	93.71
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	93.65
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	93.53
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	93.48
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	93.47
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	93.39
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	92.46
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	91.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	91.56
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	91.51
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	91.46
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	91.41
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	91.01
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	90.41
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	90.0
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	86.26
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	84.9
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	82.53

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.51  E-value=0.00021  Score=60.46  Aligned_cols=83  Identities=7%  Similarity=0.035  Sum_probs=56.0

Q ss_pred             hhcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCcc
Q 044945           22 GCNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDFL   98 (296)
Q Consensus        22 ~~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~   98 (296)
                      +.|+ +++|.+.|++..+...  ... ++                     +..+-..|.+.|++   ...|++..+.   
T Consensus        11 ~~G~-~~~A~~~~~~~l~~~p--~~~-~~---------------------~~~la~~~~~~~~~~~A~~~~~~al~~---   62 (388)
T d1w3ba_          11 QAGD-FEAAERHCMQLWRQEP--DNT-GV---------------------LLLLSSIHFQCRRLDRSAHFSTLAIKQ---   62 (388)
T ss_dssp             HHTC-HHHHHHHHHHHHHHCT--TCH-HH---------------------HHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HcCC-HHHHHHHHHHHHHhCC--CCH-HH---------------------HHHHHHHHHHcCCHHHHHHHHHHHHHh---
Confidence            3466 9999999999877531  110 10                     11123466777888   6677765543   


Q ss_pred             cCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcC
Q 044945           99 EYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAK  134 (296)
Q Consensus        99 ~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g  134 (296)
                        .| +..+|..+...|.+.|+.++|.+.+....+..
T Consensus        63 --~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~   97 (388)
T d1w3ba_          63 --NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK   97 (388)
T ss_dssp             --CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             --CCCCHHHHHHHHHHhhhhccccccccccccccccc
Confidence              22 22678889999999999999999998887643

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=0.0013  Score=55.21  Aligned_cols=56  Identities=16%  Similarity=0.032  Sum_probs=31.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHH
Q 044945          150 STENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERME  205 (296)
Q Consensus       150 p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~  205 (296)
                      .+...+..+...|.+.|++++|...|++..+..|.+..+|..+        ..++|...|++-.
T Consensus       303 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al  366 (388)
T d1w3ba_         303 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAI  366 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             ccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445555666666666666666666666655555555444444        4455555555544

>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=97.19  E-value=0.0044  Score=51.41  Aligned_cols=157  Identities=10%  Similarity=-0.002  Sum_probs=107.2

Q ss_pred             hcccHHHHHHHHHHhHhcccCCCccccHHHHHhcCCCccCCceehhhhhcccccccccccCCH---HHHHhhcccCCccc
Q 044945           23 CNEFMDKANGITDRFEERAVSIGHYADLDGISDQLPSSSGGRQVDIHFDGGVDGLRPSRSGSV---RKVFEIMAVRDFLE   99 (296)
Q Consensus        23 ~~~~~~~A~~~f~~M~~~~~~~g~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~i~~y~k~g~~---~~~f~~M~~~~~~~   99 (296)
                      -|+ +++|...|++..+....  . ++                     .+..+-..|.+.|++   ...|++..+.    
T Consensus        32 ~g~-~~~A~~~~~~al~~~P~--~-~~---------------------a~~~lg~~~~~~~~~~~A~~~~~~al~~----   82 (323)
T d1fcha_          32 EGD-LPNAVLLFEAAVQQDPK--H-ME---------------------AWQYLGTTQAENEQELLAISALRRCLEL----   82 (323)
T ss_dssp             TTC-HHHHHHHHHHHHHSCTT--C-HH---------------------HHHHHHHHHHHTTCHHHHHHHHHHHHHH----
T ss_pred             cCC-HHHHHHHHHHHHHhCCC--C-HH---------------------HHHHHHHHHHHcCChHHHHHHHHhhhcc----
Confidence            376 99999999998875421  1 01                     111123466777887   5556554432    


Q ss_pred             CCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhh---------------------------------
Q 044945          100 YCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRI---------------------------------  145 (296)
Q Consensus       100 ~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~l---------------------------------  145 (296)
                       .| +...|..+...|.+.|+.++|.+.+.+.....  |+.......                                 
T Consensus        83 -~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  159 (323)
T d1fcha_          83 -KPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELF  159 (323)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHH
T ss_pred             -ccccccccccccccccccccccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHH
Confidence             22 22678888899999999999999999987632  221111100                                 


Q ss_pred             ---hcc---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHhCCCcC
Q 044945          146 ---MHA---GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQEGYVP  211 (296)
Q Consensus       146 ---i~~---~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p  211 (296)
                         +..   .++..+|..+-..+...|++++|...|++..+..|.+...|..+        ..++|.+.|++..+.  .|
T Consensus       160 ~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p  237 (323)
T d1fcha_         160 LAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QP  237 (323)
T ss_dssp             HHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHH--hh
Confidence               000   34567888888899999999999999999988888777777766        678998988887653  46


Q ss_pred             CC
Q 044945          212 DT  213 (296)
Q Consensus       212 ~~  213 (296)
                      +.
T Consensus       238 ~~  239 (323)
T d1fcha_         238 GY  239 (323)
T ss_dssp             TC
T ss_pred             cc
Confidence            53

>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=96.56  E-value=0.014  Score=40.96  Aligned_cols=81  Identities=15%  Similarity=0.092  Sum_probs=68.1

Q ss_pred             HHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchh
Q 044945          110 ITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAY  189 (296)
Q Consensus       110 li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y  189 (296)
                      +-..+-+.|++++|...|++-.+..  |            -+...|..+=..|.+.|++++|...|++..+..|.+..+|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~--p------------~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~   87 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE--P------------EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVH   87 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc--c------------ccchhhhhhhhhhhhhhhHHHhhcccccccccccccccch
Confidence            4456788999999999999987753  2            3678899999999999999999999999999999888887


Q ss_pred             HHh--------hHHHHHHHHHHH
Q 044945          190 VIL--------INEALKDLLERM  204 (296)
Q Consensus       190 ~~l--------~~~~a~~l~~~M  204 (296)
                      ..+        ..++|.+.+++.
T Consensus        88 ~~la~~y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          88 AALAVSHTNEHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHH
Confidence            777        678888877764

>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=96.54  E-value=0.01  Score=41.93  Aligned_cols=86  Identities=12%  Similarity=0.067  Sum_probs=71.0

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      ..+.+.|++++|+..|.+..+..              +-+...|+.+=.+|.+.|++++|...++...+..|.+...|..
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~--------------p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~   76 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD--------------PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSR   76 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC--------------CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHH
Confidence            45778899999999999987743              3467789888899999999999999999999998888877777


Q ss_pred             h--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          192 L--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       192 l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      +        .+++|...+++-.+  ..|+.
T Consensus        77 ~g~~~~~~~~~~~A~~~~~~a~~--~~p~~  104 (117)
T d1elwa_          77 KAAALEFLNRFEEAKRTYEEGLK--HEANN  104 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHT--TCTTC
T ss_pred             HHHHHHHccCHHHHHHHHHHHHH--hCCCC
Confidence            6        68899888887765  35554

>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=96.52  E-value=0.0096  Score=45.60  Aligned_cols=81  Identities=11%  Similarity=0.027  Sum_probs=67.2

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      ..|.+.|++++|++.|.+..+..  |            -+...|+-+=.+|.+.|++++|...|++..+..|.+..+|..
T Consensus        12 n~~~~~g~~~~Ai~~~~kal~~~--p------------~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~   77 (201)
T d2c2la1          12 NRLFVGRKYPEAAACYGRAITRN--P------------LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFF   77 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--S------------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--C------------CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHH
Confidence            57889999999999999987643  3            467788888889999999999999999999888888877776


Q ss_pred             h--------hHHHHHHHHHHHHh
Q 044945          192 L--------INEALKDLLERMEQ  206 (296)
Q Consensus       192 l--------~~~~a~~l~~~M~~  206 (296)
                      +        .+++|...|++..+
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            6        67888888876554

>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=96.43  E-value=0.014  Score=43.40  Aligned_cols=86  Identities=13%  Similarity=0.038  Sum_probs=72.0

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      ..|.+.|++++|+..|.+..+..              +-+...|.-+-..|.+.|++++|...|++..+..|.+..+|..
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~--------------p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~   83 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN--------------PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYR   83 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc--------------hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHH
Confidence            46789999999999999988743              2467888899999999999999999999999998888877776


Q ss_pred             h--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          192 L--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       192 l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      +        .+++|...+++-...  .|+.
T Consensus        84 ~g~~~~~~g~~~eA~~~~~~a~~~--~p~~  111 (159)
T d1a17a_          84 RAASNMALGKFRAALRDYETVVKV--KPHD  111 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc--CCCC
Confidence            6        788998888887764  3553

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.23  E-value=0.011  Score=49.04  Aligned_cols=97  Identities=8%  Similarity=0.037  Sum_probs=72.3

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|...+..+-+.|..++|..+|+++.+.  .|           .....+|..++..+.+.|+.+.|..+|+...+..|.
T Consensus       100 ~l~~~ya~~~~~~~~~~~a~~i~~~~l~~--~~-----------~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~  166 (308)
T d2onda1         100 LLYFAYADYEESRMKYEKVHSIYNRLLAI--ED-----------IDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART  166 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SS-----------SCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHH--hc-----------CChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            56888888889999999999999998753  22           122457889999999999999999999998887766


Q ss_pred             CcchhHHh---------hHHHHHHHHHHHHhCCCcCCCccc
Q 044945          185 NTGAYVIL---------INEALKDLLERMEQEGYVPDTKEV  216 (296)
Q Consensus       185 ~~~~y~~l---------~~~~a~~l~~~M~~~g~~p~~~t~  216 (296)
                      +...|...         ..+.|.++|+...+.  .|+...+
T Consensus       167 ~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~  205 (308)
T d2onda1         167 RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEY  205 (308)
T ss_dssp             CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHH
T ss_pred             cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHH
Confidence            55544443         357788888887764  4554433

>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=96.19  E-value=0.013  Score=41.37  Aligned_cols=96  Identities=13%  Similarity=0.043  Sum_probs=75.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      +.+.+.|++   ...|++..+.+-    -+...|+.+=.+|-+.|+.++|++.+.+..+..              +.+..
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p----~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--------------p~~~~   72 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDP----HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--------------PDWGK   72 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT----TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--------------TTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC----cchhhhhcccccccccccccccchhhhhHHHhc--------------cchhh
Confidence            345667777   666666544321    133679999999999999999999999988754              35778


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      .|..+-.+|...|++++|...|++..+..|.+...+.
T Consensus        73 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~  109 (117)
T d1elwa_          73 GYSRKAAALEFLNRFEEAKRTYEEGLKHEANNPQLKE  109 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            8999999999999999999999999998887764443

>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=96.06  E-value=0.031  Score=41.45  Aligned_cols=98  Identities=7%  Similarity=-0.031  Sum_probs=76.6

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      +.|.+.|++   ...|.+..+.+-    -+...|+-+-..|-+.|++++|.+.|+...+..              +-+..
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~p----~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--------------p~~~~   79 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELNP----SNAIYYGNRSLAYLRTECYGYALGDATRAIELD--------------KKYIK   79 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccch----hhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--------------ccchH
Confidence            356677777   666665544321    133778999999999999999999999998753              24668


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      .|..+-.+|...|++++|...+++..+..|.+...+..+
T Consensus        80 a~~~~g~~~~~~g~~~eA~~~~~~a~~~~p~~~~~~~~l  118 (159)
T d1a17a_          80 GYYRRAASNMALGKFRAALRDYETVVKVKPHDKDAKMKY  118 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            899999999999999999999999999888776555444

>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=95.75  E-value=0.033  Score=45.74  Aligned_cols=90  Identities=12%  Similarity=0.096  Sum_probs=73.8

Q ss_pred             ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          103 YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       103 ~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +...|..+-..+.+.|+.++|...|++.....  |            -+...|..+-..|.+.|++++|...|++..+..
T Consensus       171 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p------------~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  236 (323)
T d1fcha_         171 DPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR--P------------NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ  236 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             ccccchhhHHHHHHHHHHhhhhcccccccccc--c------------ccccchhhhhhcccccccchhHHHHHHHHHHHh
Confidence            34567888889999999999999999876642  2            356788888999999999999999999999888


Q ss_pred             CCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          183 PNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       183 ~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      |.+..+|..+        ..++|...|++-.+
T Consensus       237 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         237 PGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8787777666        67888888876554

>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=95.71  E-value=0.021  Score=40.90  Aligned_cols=80  Identities=8%  Similarity=0.076  Sum_probs=62.1

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      ..|.+.|++++|++.|.+-.+..              +.+...|.-+=.+|.+.|++++|...+++..+..|.+...|..
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~--------------p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~   77 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELD--------------PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQ   77 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--------------cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHH
Confidence            46788999999999999988753              2467889999999999999999999999998876555444433


Q ss_pred             h---------------hHHHHHHHHHHHH
Q 044945          192 L---------------INEALKDLLERME  205 (296)
Q Consensus       192 l---------------~~~~a~~l~~~M~  205 (296)
                      +               .+++|...|.+=.
T Consensus        78 ~a~~~~~lg~~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          78 IAKAYARIGNSYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            2               5677777775543

>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=95.43  E-value=0.03  Score=42.89  Aligned_cols=104  Identities=9%  Similarity=0.036  Sum_probs=76.7

Q ss_pred             HHHhccCChhHHHHHHHHHHHc--CCccChhhhhhhhcc------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMA--KIKARHAPFSRIMHA------GSTENVWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~--g~~pd~~ty~~li~~------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      ......|++++|.+.|.+-...  |-..........+..      .-....+..+...+.+.|++++|...++...+..|
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P   98 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEHP   98 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCC
Confidence            5678899999999999997762  321111111111111      22446788899999999999999999999999999


Q ss_pred             CCcchhHHh--------hHHHHHHHHHHH-----HhCCCcCCCcc
Q 044945          184 NNTGAYVIL--------INEALKDLLERM-----EQEGYVPDTKE  215 (296)
Q Consensus       184 ~~~~~y~~l--------~~~~a~~l~~~M-----~~~g~~p~~~t  215 (296)
                      .+...|..+        ..++|.+.|++.     .+.|+.|...+
T Consensus        99 ~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          99 YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            888888887        678888888876     34799998544

>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=95.27  E-value=0.12  Score=42.46  Aligned_cols=103  Identities=7%  Similarity=-0.023  Sum_probs=64.4

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCC-ccChhhhhhhhcc----
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKI-KARHAPFSRIMHA----  148 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~-~pd~~ty~~li~~----  148 (296)
                      ..+-+.|+.   +.+|+++.+...   ......|...+..+-+.|..++|.++|....+.+- .+......+.+..    
T Consensus       107 ~~~~~~~~~~~a~~i~~~~l~~~~---~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~~~~~~~~~a~~e~~~~~  183 (308)
T d2onda1         107 DYEESRMKYEKVHSIYNRLLAIED---IDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSK  183 (308)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSSS---SCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSC
T ss_pred             HHHHhcccHHHHHHHHHHHHHHhc---CChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcc
Confidence            445566777   788887765322   11224689999999999999999999999876542 1222222222110    


Q ss_pred             ----------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          149 ----------------GSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       149 ----------------~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                                      +.+...|...++.+.+.|+++.|..+|++..+..
T Consensus       184 ~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         184 DKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             CHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence                            3345566667777777777777777777665543

>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=95.19  E-value=0.13  Score=38.42  Aligned_cols=74  Identities=19%  Similarity=0.120  Sum_probs=63.1

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+|+-+-.+|.+.|++++|++.+++-.+..  |            -++..|.-+-.+|...|++++|...|++..+..|.
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~--p------------~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~  128 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD--S------------NNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN  128 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc--c------------cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC
Confidence            457778889999999999999999887743  2            37788888999999999999999999999999888


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      |......+
T Consensus       129 n~~~~~~l  136 (170)
T d1p5qa1         129 NKAAKTQL  136 (170)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            77666655

>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=95.07  E-value=0.12  Score=40.56  Aligned_cols=71  Identities=17%  Similarity=0.032  Sum_probs=40.3

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      +|.-+=..|-+.|+.++|.+.|++-.+.  .|+            +..+|+.+=..|.+.|++++|...|++..+..|.+
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~------------~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  104 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAI--RPD------------MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTY  104 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCC------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCC------------CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhh
Confidence            4555556777788888888888877653  232            33444444455555555555555555555544444


Q ss_pred             cchhH
Q 044945          186 TGAYV  190 (296)
Q Consensus       186 ~~~y~  190 (296)
                      ..+|.
T Consensus       105 ~~a~~  109 (259)
T d1xnfa_         105 NYAHL  109 (259)
T ss_dssp             THHHH
T ss_pred             hhhHH
Confidence            43333

>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=95.04  E-value=0.085  Score=43.81  Aligned_cols=93  Identities=12%  Similarity=0.054  Sum_probs=74.4

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+|+-+-..+.+.|+.++|++.|.+..+..              +-+...|+-+-..|.+.|++++|...+++..+..|.
T Consensus       113 ~a~~~~~~~~~~l~~~~eAl~~~~kal~~d--------------p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~  178 (315)
T d2h6fa1         113 QVWHHRRVLVEWLRDPSQELEFIADILNQD--------------AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR  178 (315)
T ss_dssp             HHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT
T ss_pred             hHHHHHhHHHHhhccHHHHHHHHhhhhhhh--------------hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc
Confidence            788888889999999999999999988742              246788999999999999999999999999998888


Q ss_pred             CcchhHHh--------------hHHHHHHHHHHHHhCCCcCCC
Q 044945          185 NTGAYVIL--------------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       185 ~~~~y~~l--------------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      |..+|+-+              ..++|...+.+..+.  .|+.
T Consensus       179 n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~--~P~~  219 (315)
T d2h6fa1         179 NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHN  219 (315)
T ss_dssp             CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTC
T ss_pred             cHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHh--CCCc
Confidence            88877654              346676666655543  4553

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=94.50  E-value=0.27  Score=36.39  Aligned_cols=74  Identities=12%  Similarity=0.080  Sum_probs=62.8

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|+-+-.+|.+.|+.++|++.+.+-.+..              +.+...|.-+-.+|...|++++|...|+...+..|.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~--------------p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~  130 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD--------------SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ  130 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc--------------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            456667788999999999999999977642              357788888899999999999999999999999888


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      |...+..+
T Consensus       131 n~~~~~~l  138 (168)
T d1kt1a1         131 NKAARLQI  138 (168)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            87777666

>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=94.41  E-value=0.089  Score=39.44  Aligned_cols=99  Identities=11%  Similarity=0.064  Sum_probs=70.1

Q ss_pred             HHHhccCChhHHHHHHHHHHHcC-CccChh-hhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchh
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAK-IKARHA-PFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAY  189 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g-~~pd~~-ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y  189 (296)
                      ..|.+.|++++|.+.|.+-.+.- -.++.. .....+. ..-..+|+-+-.+|.+.|++++|...++...+..|.++.+|
T Consensus        21 ~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~-~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~   99 (170)
T d1p5qa1          21 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQ-ALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGL   99 (170)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhc-hhHHHHHHHHHHHHHhhhhcccccchhhhhhhccccchhhh
Confidence            46888999999999999877531 111000 0000000 11234677777889999999999999999999999888777


Q ss_pred             HHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          190 VIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       190 ~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      ..+        .+++|...|++..+.  .|+.
T Consensus       100 ~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n  129 (170)
T d1p5qa1         100 SRRGEAHLAVNDFELARADFQKVLQL--YPNN  129 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSC
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHh--CCCC
Confidence            776        789999999988764  4653

>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=94.05  E-value=0.075  Score=40.79  Aligned_cols=78  Identities=12%  Similarity=0.082  Sum_probs=64.1

Q ss_pred             HHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHH
Q 044945          112 AGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVI  191 (296)
Q Consensus       112 ~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~  191 (296)
                      ..+...|++++|++.|.+.     .            .|+..+|.-+=..|.+.|++++|...|++-.+..|.+...|..
T Consensus        13 ~~~~~~~d~~~Al~~~~~i-----~------------~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~   75 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV-----Q------------DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQ   75 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS-----S------------SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhc-----C------------CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHH
Confidence            3567889999999999752     2            3677778888889999999999999999999999988888877


Q ss_pred             h--------hHHHHHHHHHHHHh
Q 044945          192 L--------INEALKDLLERMEQ  206 (296)
Q Consensus       192 l--------~~~~a~~l~~~M~~  206 (296)
                      +        ..++|.+.|++-..
T Consensus        76 ~g~~~~~~g~~~~A~~~~~kAl~   98 (192)
T d1hh8a_          76 RGMLYYQTEKYDLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHH
Confidence            7        67888877776554

>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=93.98  E-value=0.15  Score=37.35  Aligned_cols=74  Identities=12%  Similarity=0.061  Sum_probs=63.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .+|+-+-.+|.+.|+.++|++.+.+-.+..              +.++..|.-+-.+|...|++++|...|+...+..|.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~--------------p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~  133 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID--------------KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  133 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc--------------chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            578888899999999999999999977643              247789999999999999999999999999999888


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      |......+
T Consensus       134 n~~~~~~l  141 (153)
T d2fbna1         134 NLDIRNSY  141 (153)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            77665544

>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=93.71  E-value=0.14  Score=38.80  Aligned_cols=62  Identities=10%  Similarity=0.070  Sum_probs=55.7

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      ..+..+...+.+.|+.++|+..+++..+..              +-+...|..|+.+|.+.|+.++|.+.|+++.+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~--------------P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH--------------PYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--------------TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC--------------CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            678889999999999999999999998743              25788999999999999999999999999854

>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=93.65  E-value=0.21  Score=36.50  Aligned_cols=104  Identities=16%  Similarity=0.096  Sum_probs=72.8

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcCC----ccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 044945          107 RNSITAGCGQNGPFDEGLKFFGQMLMAKI----KARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIE  182 (296)
Q Consensus       107 ~n~li~~~~~~g~~~~A~~l~~~M~~~g~----~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~  182 (296)
                      +.--=..+.+.|++.+|+..|.+..+.-.    .++........  .....+|+-+-.+|.+.|++++|...++...+..
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~--~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~   97 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKK--NIEISCNLNLATCYNKNKDYPKAIDHASKVLKID   97 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhh--hHHHHHHhhHHHHHHHhcccchhhhhhhcccccc
Confidence            44444677899999999999998775211    11111111110  2234567778889999999999999999999999


Q ss_pred             CCCcchhHHh--------hHHHHHHHHHHHHhCCCcCCCc
Q 044945          183 PNNTGAYVIL--------INEALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       183 ~~~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~  214 (296)
                      |.++.+|.-+        .+++|...|++-.+.  .|+..
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~  135 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNL  135 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCH
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCH
Confidence            9888777766        678888888776654  46543

>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=93.53  E-value=0.099  Score=43.38  Aligned_cols=92  Identities=10%  Similarity=0.050  Sum_probs=66.5

Q ss_pred             eHHHHHHHHhccCC-hhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          106 SRNSITAGCGQNGP-FDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       106 t~n~li~~~~~~g~-~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      .|+..-..+-..|+ .++|++.++.-.+..              +-+..+|+-+=..+.+.|+.++|...+++..+..|.
T Consensus        79 a~~~r~~~l~~l~~~~~eal~~~~~al~~~--------------p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~dp~  144 (315)
T d2h6fa1          79 VWHFRRVLLKSLQKDLHEEMNYITAIIEEQ--------------PKNYQVWHHRRVLVEWLRDPSQELEFIADILNQDAK  144 (315)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--------------TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhCcCHHHHHHHHHHHHHHH--------------HhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhhhc
Confidence            45555555555443 566666665554432              236788998888999999999999999999999998


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      +...|.-+        .+++|.+.+++..+.  .|+.
T Consensus       145 n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n  179 (315)
T d2h6fa1         145 NYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRN  179 (315)
T ss_dssp             CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTC
T ss_pred             chHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCcc
Confidence            88888777        567888888888764  4543

>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=93.48  E-value=0.46  Score=36.92  Aligned_cols=95  Identities=17%  Similarity=0.046  Sum_probs=73.8

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTE  152 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~  152 (296)
                      ..|.+.|+.   .+.|++-.+.     .| +..+|+.+=..|.+.|+.++|++.|++..+..  |            -+.
T Consensus        45 ~~y~~~g~~~~A~~~~~~al~l-----~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p------------~~~  105 (259)
T d1xnfa_          45 VLYDSLGLRALARNDFSQALAI-----RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--P------------TYN  105 (259)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-----CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------TCT
T ss_pred             HHHHHCCCHHHHHHHHHHhhcc-----CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH--h------------hhh
Confidence            567788888   6666665432     22 23679999999999999999999999988742  2            245


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhH
Q 044945          153 NVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYV  190 (296)
Q Consensus       153 ~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~  190 (296)
                      .+|..+-..|...|+.++|...|+...+..|.+...+.
T Consensus       106 ~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  143 (259)
T d1xnfa_         106 YAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSL  143 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHhhccccHHHHH
Confidence            67778888899999999999999999988876654433

>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=93.47  E-value=0.18  Score=40.86  Aligned_cols=64  Identities=11%  Similarity=0.131  Sum_probs=54.8

Q ss_pred             hccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          115 GQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       115 ~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      -+.|++++|++.+++-++..              +-|...+..|...|+..|++++|...++...+..|.+...+..+
T Consensus         7 L~~G~l~eAl~~l~~al~~~--------------P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l   70 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS--------------PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQL   70 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC--------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC--------------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHH
Confidence            46799999999999988754              35789999999999999999999999999998887666666555

>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=93.39  E-value=0.059  Score=40.81  Aligned_cols=89  Identities=8%  Similarity=-0.094  Sum_probs=69.3

Q ss_pred             ccccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           77 LRPSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        77 ~~y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      +.|.+.|++   ...|.+..+.+-    -+...|+-+-.+|.+.|++++|++.|..-.+  +.|            -+..
T Consensus        12 n~~~~~g~~~~Ai~~~~kal~~~p----~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p------------~~~~   73 (201)
T d2c2la1          12 NRLFVGRKYPEAAACYGRAITRNP----LVAVYYTNRALCYLKMQQPEQALADCRRALE--LDG------------QSVK   73 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCS----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCT------------TCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC----CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCC------------CcHH
Confidence            567788888   677766543321    1336799999999999999999999998755  323            2567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      +|.-+=.+|.+.|++++|...|++..+..|
T Consensus        74 a~~~lg~~~~~l~~~~~A~~~~~~al~l~p  103 (201)
T d2c2la1          74 AHFFLGQCQLEMESYDEAIANLQRAYSLAK  103 (201)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            788899999999999999999998876544

>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=92.46  E-value=0.8  Score=34.56  Aligned_cols=82  Identities=11%  Similarity=-0.034  Sum_probs=63.3

Q ss_pred             ccccCCH---HHHHhhcccCCcccCCCceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHH
Q 044945           79 PSRSGSV---RKVFEIMAVRDFLEYCDYAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVW  155 (296)
Q Consensus        79 y~k~g~~---~~~f~~M~~~~~~~~~p~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~  155 (296)
                      +...|++   .+.|.++..++       ..+|.-+=..|.+.|++++|++.|++-.+..              +-+...|
T Consensus        15 ~~~~~d~~~Al~~~~~i~~~~-------~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--------------p~~~~a~   73 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQDPH-------SRICFNIGCMYTILKNMTEAEKAFTRSINRD--------------KHLAVAY   73 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSSSCC-------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhcCCCC-------HHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--------------hhhhhhH
Confidence            3455566   55566554333       3678888899999999999999999987642              2467788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhc
Q 044945          156 LTLLSACRVHRNVELAEKVADMILMI  181 (296)
Q Consensus       156 ~~Li~~~~~~g~~~~A~~~~~~m~~~  181 (296)
                      +-+=..|.+.|+.++|..-|++-.+.
T Consensus        74 ~~~g~~~~~~g~~~~A~~~~~kAl~~   99 (192)
T d1hh8a_          74 FQRGMLYYQTEKYDLAIKDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            88888999999999999999987654

>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=91.70  E-value=0.58  Score=34.38  Aligned_cols=74  Identities=11%  Similarity=-0.026  Sum_probs=62.6

Q ss_pred             eeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          105 ISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      ..|+.+-..|.+.|+.++|+..+.+..+.  .|            .+...|.-+=.+|.+.|++++|...|+...+..|.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p------------~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~  143 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEI--DP------------SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE  143 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CT------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhh--hh------------hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            56777888899999999999999998764  23            46778888999999999999999999999999888


Q ss_pred             CcchhHHh
Q 044945          185 NTGAYVIL  192 (296)
Q Consensus       185 ~~~~y~~l  192 (296)
                      |...+..+
T Consensus       144 n~~~~~~l  151 (169)
T d1ihga1         144 DKAIQAEL  151 (169)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            87666555

>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=91.56  E-value=0.29  Score=34.46  Aligned_cols=27  Identities=11%  Similarity=-0.143  Sum_probs=21.8

Q ss_pred             HHHHHHHhccCChhHHHHHHHHHHHcC
Q 044945          108 NSITAGCGQNGPFDEGLKFFGQMLMAK  134 (296)
Q Consensus       108 n~li~~~~~~g~~~~A~~l~~~M~~~g  134 (296)
                      ..+++.+...+++++|.+.|+.-...+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~   29 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG   29 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC
Confidence            456778888899999999999887744

>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=91.51  E-value=0.22  Score=34.24  Aligned_cols=82  Identities=11%  Similarity=-0.012  Sum_probs=66.1

Q ss_pred             cccccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCCHH
Q 044945           78 RPSRSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGSTEN  153 (296)
Q Consensus        78 ~y~k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~~~  153 (296)
                      .+-+.|++   ...|++..+.     .| +...|.-+-..|.+.|+.++|+..|++..+..              +-+..
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~-----~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--------------p~~~~   85 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQK-----EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--------------PKDIA   85 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH-----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------TTCHH
T ss_pred             HHHHHhhhHHHHHHHhhhccc-----ccccchhhhhhhhhhhhhhhHHHhhcccccccccc--------------ccccc
Confidence            46678888   6666665543     23 24788999999999999999999999976642              24678


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMI  178 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m  178 (296)
                      +|..|-..|...|+.++|.+.|++.
T Consensus        86 a~~~la~~y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          86 VHAALAVSHTNEHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHCCCHHHHHHHHHHH
Confidence            8999999999999999999999874

>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=91.46  E-value=0.45  Score=34.99  Aligned_cols=105  Identities=13%  Similarity=0.012  Sum_probs=72.3

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHcC-CccChhhhhhhhcc-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 044945          107 RNSITAGCGQNGPFDEGLKFFGQMLMAK-IKARHAPFSRIMHA-GSTENVWLTLLSACRVHRNVELAEKVADMILMIEPN  184 (296)
Q Consensus       107 ~n~li~~~~~~g~~~~A~~l~~~M~~~g-~~pd~~ty~~li~~-~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~  184 (296)
                      +...-..+.+.|++++|++.|.+..+.- .............. +.+...|+-+=..|.+.|++++|...+++..+..|.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~  109 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS  109 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh
Confidence            3444556788999999999998875420 00000001111111 234556777778899999999999999999999888


Q ss_pred             CcchhHHh--------hHHHHHHHHHHHHhCCCcCCC
Q 044945          185 NTGAYVIL--------INEALKDLLERMEQEGYVPDT  213 (296)
Q Consensus       185 ~~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~  213 (296)
                      ++.+|..+        .+++|...|.+..+.  .|+.
T Consensus       110 ~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n  144 (169)
T d1ihga1         110 NTKALYRRAQGWQGLKEYDQALADLKKAQEI--APED  144 (169)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             hhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCC
Confidence            88777777        688998888877763  5653

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.41  E-value=0.86  Score=30.02  Aligned_cols=74  Identities=14%  Similarity=0.033  Sum_probs=55.2

Q ss_pred             HHHHhccCChhHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcchh
Q 044945          111 TAGCGQNGPFDEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTGAY  189 (296)
Q Consensus       111 i~~~~~~g~~~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y  189 (296)
                      =..+.+.|+.++|.+.|++-.+..  |+..      ...++ ..+++-|=.+|.+.|++++|...+++..+..|.+..++
T Consensus        12 G~~~~~~g~y~~A~~~~~~Al~~~--~~~~------~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~   83 (95)
T d1tjca_          12 GKVAYTEADYYHTELWMEQALRQL--DEGE------ISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (95)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH--HTTC------CCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHH--hhhh------ccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHH
Confidence            356788999999999999866521  1100      00222 46788899999999999999999999999998877665


Q ss_pred             HHh
Q 044945          190 VIL  192 (296)
Q Consensus       190 ~~l  192 (296)
                      +-+
T Consensus        84 ~Nl   86 (95)
T d1tjca_          84 GNL   86 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=91.01  E-value=0.32  Score=34.23  Aligned_cols=73  Identities=16%  Similarity=0.071  Sum_probs=54.0

Q ss_pred             eeHHHHHHHHhccCCh---hHHHHHHHHHHHcCCccChhhhhhhhccCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 044945          105 ISRNSITAGCGQNGPF---DEGLKFFGQMLMAKIKARHAPFSRIMHAGST-ENVWLTLLSACRVHRNVELAEKVADMILM  180 (296)
Q Consensus       105 ~t~n~li~~~~~~g~~---~~A~~l~~~M~~~g~~pd~~ty~~li~~~p~-~~~~~~Li~~~~~~g~~~~A~~~~~~m~~  180 (296)
                      -++.-+-.++.+.++.   ++|.++|++.....-.             |+ ..+|..|=.+|.+.|++++|.+.|++..+
T Consensus        34 ~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~-------------~~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          34 STQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSK-------------EEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCH-------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCC-------------chHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            5666677778775555   4699999988664321             22 23566677789999999999999999999


Q ss_pred             cCCCCcchhH
Q 044945          181 IEPNNTGAYV  190 (296)
Q Consensus       181 ~~~~~~~~y~  190 (296)
                      ..|.+.....
T Consensus       101 ~~P~~~~A~~  110 (122)
T d1nzna_         101 TEPQNNQAKE  110 (122)
T ss_dssp             HCTTCHHHHH
T ss_pred             hCcCCHHHHH
Confidence            9887764443

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=90.41  E-value=0.46  Score=38.29  Aligned_cols=100  Identities=13%  Similarity=0.047  Sum_probs=66.4

Q ss_pred             ccCCH---HHHHhhcccCCcccCCC-ceeeHHHHHHHHhccCChhHHHHHHHHHHHcCCccChh----hhhhhhcc----
Q 044945           81 RSGSV---RKVFEIMAVRDFLEYCD-YAISRNSITAGCGQNGPFDEGLKFFGQMLMAKIKARHA----PFSRIMHA----  148 (296)
Q Consensus        81 k~g~~---~~~f~~M~~~~~~~~~p-~~~t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd~~----ty~~li~~----  148 (296)
                      +.|++   ...+++-.+.     .| |...+..+...|++.|+.++|.+.|+...+.  .|+..    .|..++.+    
T Consensus         8 ~~G~l~eAl~~l~~al~~-----~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~   80 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKA-----SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQAR   80 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHT-----CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH-----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhcccc
Confidence            44666   4444444332     33 3478999999999999999999999998874  34332    23333333    


Q ss_pred             --------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCcc
Q 044945          149 --------------GS-TENVWLTLLSACRVHRNVELAEKVADMILMIEPNNTG  187 (296)
Q Consensus       149 --------------~p-~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  187 (296)
                                    .| +...+......+.+.|+.++|..++++..+..|....
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~  134 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  134 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             HHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCc
Confidence                          22 3344445556677889999999998888776654443

>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=90.00  E-value=0.44  Score=34.40  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHhcCCCCcchhHHh
Q 044945          168 VELAEKVADMILMIEPNNTGAYVIL  192 (296)
Q Consensus       168 ~~~A~~~~~~m~~~~~~~~~~y~~l  192 (296)
                      +++|...|++..+..|.+..+|..+
T Consensus        57 ~~~Ai~~~~kAl~l~P~~~~a~~~l   81 (145)
T d1zu2a1          57 IQEAITKFEEALLIDPKKDEAVWCI   81 (145)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcchhhHHHhhH
Confidence            3445555555554444444444333

>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=86.26  E-value=3.3  Score=29.99  Aligned_cols=102  Identities=14%  Similarity=0.084  Sum_probs=68.7

Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHc---CCccChhhhhhhhccCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 044945          109 SITAGCGQNGPFDEGLKFFGQMLMA---KIKARHAPFSRIMHAGSTENVWLTLLSACRVHRNVELAEKVADMILMIEPNN  185 (296)
Q Consensus       109 ~li~~~~~~g~~~~A~~l~~~M~~~---g~~pd~~ty~~li~~~p~~~~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~~~  185 (296)
                      -.=..+.+.|++.+|...|.+-...   -..++...... .. .-...+|+-+-.+|.+.|++++|...++...+..|.+
T Consensus        20 e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~-~~-~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~   97 (168)
T d1kt1a1          20 EKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKA-SE-SFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSAN   97 (168)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHH-HH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhh-cc-hhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcccch
Confidence            3445678899999999999875431   11110000000 00 0122345556667899999999999999999998888


Q ss_pred             cchhHHh--------hHHHHHHHHHHHHhCCCcCCCc
Q 044945          186 TGAYVIL--------INEALKDLLERMEQEGYVPDTK  214 (296)
Q Consensus       186 ~~~y~~l--------~~~~a~~l~~~M~~~g~~p~~~  214 (296)
                      ..+|..+        .+++|...|.+....  .|+..
T Consensus        98 ~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~  132 (168)
T d1kt1a1          98 EKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNK  132 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCH
Confidence            8777666        789999999988764  56643

>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=84.90  E-value=0.94  Score=31.57  Aligned_cols=47  Identities=15%  Similarity=0.118  Sum_probs=40.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCcchhHHh--------hHHHHHHHHHHHHh
Q 044945          160 SACRVHRNVELAEKVADMILMIEPNNTGAYVIL--------INEALKDLLERMEQ  206 (296)
Q Consensus       160 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~y~~l--------~~~~a~~l~~~M~~  206 (296)
                      +.|.+.|++++|...|++..+..|.+..+|..+        .+++|...+++..+
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            468899999999999999999988888777766        78999998888765

>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=82.53  E-value=7.2  Score=30.33  Aligned_cols=78  Identities=6%  Similarity=-0.176  Sum_probs=46.1

Q ss_pred             eHHHHHHHHhccCChhHHHHHHHHHHHcCCccC----hhhhhhhhcc----------------------------CCCHH
Q 044945          106 SRNSITAGCGQNGPFDEGLKFFGQMLMAKIKAR----HAPFSRIMHA----------------------------GSTEN  153 (296)
Q Consensus       106 t~n~li~~~~~~g~~~~A~~l~~~M~~~g~~pd----~~ty~~li~~----------------------------~p~~~  153 (296)
                      .+..+-..|...|+.++|...+.......-..+    ..++..+...                            .....
T Consensus       135 ~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~  214 (366)
T d1hz4a_         135 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISN  214 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHH
T ss_pred             HHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHH
Confidence            455556777888888888888888766322111    1111111000                            11234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 044945          154 VWLTLLSACRVHRNVELAEKVADMILMIEP  183 (296)
Q Consensus       154 ~~~~Li~~~~~~g~~~~A~~~~~~m~~~~~  183 (296)
                      .+..+...+...|+.++|...++...+..+
T Consensus       215 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  244 (366)
T d1hz4a_         215 ANKVRVIYWQMTGDKAAAANWLRHTAKPEF  244 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHSCCCCC
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            566666777888888888888887665443