Citrus Sinensis ID: 020202

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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-------300-------310-------320-------33
Protein Sequence
MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRSV
Secondary Structure (PSIPRED)
cHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mwktielmkpynlsvspQTLSLIIEEFGKHGLVDNAVEVFNKctafncqqCVLLYNSLLFALCEVKLFHGAYALIRRMIRkgfvpdkrTYAILVNAWCSSGKMREAQEFLQEMsdkgfnppvrgRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKlglcadvstykILIPAVSKAGMIDEAFRLLHNLvedghkpfpslyaPIIKgmfrrgqfddafcffsemkikghppnrpvYTMLITMCGRGGRFVEAANYLVEMTemgltpisrcFDLVTdglkncgkhdlAEKIELLEVSLRSV
Flexible Loop (DISEMBL)
mwktielmkpynlsvSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEmkikghppnrPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGkhdlaekiellevslrsv
Low Complexity Region (SEG)
MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRSV
Disordered region (IsUnstruct)
****IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG********************VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLE******
Disordered Region (DISOPRED)
MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS*
Disordered Region (DISEMBL)
MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRSV
Disordered Region (DISPRO)
MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRSV
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	329	2.2.26 [Sep-21-2011]
Q94JX6	459	Pentatricopeptide repeat-	yes	no	1.0	0.716	0.754	1e-149
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.945	0.416	0.282	7e-34
Q9S7R4	482	Pentatricopeptide repeat-	no	no	0.978	0.668	0.257	8e-32
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.917	0.505	0.262	1e-31
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.765	0.407	0.274	2e-31
Q9LSL9	915	Pentatricopeptide repeat-	no	no	0.896	0.322	0.304	4e-31
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.826	0.360	0.291	5e-31
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.881	0.397	0.309	7e-31
P0C8A0	638	Pentatricopeptide repeat-	no	no	0.942	0.485	0.268	9e-31
Q9SAJ5	780	Pentatricopeptide repeat-	no	no	0.969	0.408	0.263	3e-30

>sp|Q94JX6|PP391_ARATH Pentatricopeptide repeat-containing protein At5g18390, mitochondrial OS=Arabidopsis thaliana GN=At5g18390 PE=2 SV=2

 Score =  527 bits (1357), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 249/330 (75%), Positives = 280/330 (84%), Gaps = 1/330 (0%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKC-TAFNCQQCVLLYNSLL 59
           MWK ++ MK  +L +S +TL  IIE++GK+G VD AVE+FN       CQQ V +YNSLL
Sbjct: 130 MWKILKQMKDLSLDISGETLCFIIEQYGKNGHVDQAVELFNGVPKTLGCQQTVDVYNSLL 189

Query: 60  FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
            ALC+VK+FHGAYALIRRMIRKG  PDKRTYAILVN WCS+GKM+EAQEFL EMS +GFN
Sbjct: 190 HALCDVKMFHGAYALIRRMIRKGLKPDKRTYAILVNGWCSAGKMKEAQEFLDEMSRRGFN 249

Query: 120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM 179
           PP RGRDLL++GLLNAGYLESAK+MV+KM K GFV D++TFN LIE I KSGEVEFC+EM
Sbjct: 250 PPARGRDLLIEGLLNAGYLESAKEMVSKMTKGGFVPDIQTFNILIEAISKSGEVEFCIEM 309

Query: 180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR 239
           YY+ CKLGLC D+ TYK LIPAVSK G IDEAFRLL+N VEDGHKPFPSLYAPIIKGM R
Sbjct: 310 YYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAPIIKGMCR 369

Query: 240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRC 299
            G FDDAF FFS+MK+K HPPNRPVYTMLITMCGRGG+FV+AANYLVEMTEMGL PISRC
Sbjct: 370 NGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMGLVPISRC 429

Query: 300 FDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
           FD+VTDGLKN GKHDLA +IE LEV LR V
Sbjct: 430 FDMVTDGLKNGGKHDLAMRIEQLEVQLRGV 459

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  144 bits (364), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 89/315 (28%), Positives = 154/315 (48%), Gaps = 4/315 (1%)

Query: 15  VSPQ--TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAY 72
           VSP   T +++I  F   G +D A+ +F+K     C   V+ YN+L+   C+++     +
Sbjct: 201 VSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGF 260

Query: 73  ALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGL 132
            L+R M  KG  P+  +Y +++N  C  G+M+E    L EM+ +G++      + L++G 
Sbjct: 261 KLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGY 320

Query: 133 LNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADV 192
              G    A  M  +M++ G    + T+ SLI ++CK+G +   +E    +   GLC + 
Sbjct: 321 CKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNE 380

Query: 193 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSE 252
            TY  L+   S+ G ++EA+R+L  + ++G  P    Y  +I G    G+ +DA     +
Sbjct: 381 RTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLED 440

Query: 253 MKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGK 312
           MK KG  P+   Y+ +++   R     EA     EM E G+ P +  +  +  G   C +
Sbjct: 441 MKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGF--CEQ 498

Query: 313 HDLAEKIELLEVSLR 327
               E  +L E  LR
Sbjct: 499 RRTKEACDLYEEMLR 513

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7R4|PP125_ARATH Pentatricopeptide repeat-containing protein At1g74900, mitochondrial OS=Arabidopsis thaliana GN=OTP43 PE=2 SV=1

 Score =  137 bits (346), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 93/361 (25%), Positives = 164/361 (45%), Gaps = 39/361 (10%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLF 60
           +W  I  M+   +  SP+T +++ E +   G  D AV++F       C Q +  +N++L 
Sbjct: 110 VWSLIHRMRSLRIGPSPKTFAIVAERYASAGKPDKAVKLFLNMHEHGCFQDLASFNTILD 169

Query: 61  ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNP 120
            LC+ K    AY L R  +R  F  D  TY +++N WC   +  +A E L+EM ++G NP
Sbjct: 170 VLCKSKRVEKAYELFR-ALRGRFSVDTVTYNVILNGWCLIKRTPKALEVLKEMVERGINP 228

Query: 121 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMY 180
            +   + +++G   AG +  A +   +M K+   +D+ T+ +++     +GE++    ++
Sbjct: 229 NLTTYNTMLKGFFRAGQIRHAWEFFLEMKKRDCEIDVVTYTTVVHGFGVAGEIKRARNVF 288

Query: 181 YSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR 240
             + + G+   V+TY  +I  + K   ++ A  +   +V  G++P  + Y  +I+G+F  
Sbjct: 289 DEMIREGVLPSVATYNAMIQVLCKKDNVENAVVMFEEMVRRGYEPNVTTYNVLIRGLFHA 348

Query: 241 GQFDDAFCFFSEMKIKGHPPNRPVYTMLI---TMC-------------GRG--------- 275
           G+F         M+ +G  PN   Y M+I   + C             G G         
Sbjct: 349 GEFSRGEELMQRMENEGCEPNFQTYNMMIRYYSECSEVEKALGLFEKMGSGDCLPNLDTY 408

Query: 276 -----GRFVE--------AANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELL 322
                G FV         A   L+EM E G  P    F+ V +GL   G    A++I  L
Sbjct: 409 NILISGMFVRKRSEDMVVAGKLLLEMVERGFIPRKFTFNRVLNGLLLTGNQAFAKEILRL 468

Query: 323 E 323
           +
Sbjct: 469 Q 469

Required for the trans-splicing of intron 1 of the mitochondrial nad1 transcript encoding the ND1 subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I).

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score =  137 bits (344), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 80/305 (26%), Positives = 149/305 (48%)

Query: 3   KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFAL 62
           K ++ M+    +    T ++++    K G +D A++  N   +  CQ  V+ +N +L ++
Sbjct: 260 KLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSM 319

Query: 63  CEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPV 122
           C    +  A  L+  M+RKGF P   T+ IL+N  C  G +  A + L++M   G  P  
Sbjct: 320 CSTGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNS 379

Query: 123 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS 182
              + L+ G      ++ A + + +M+ +G   D+ T+N+++  +CK G+VE  VE+   
Sbjct: 380 LSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQ 439

Query: 183 VCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQ 242
           +   G    + TY  +I  ++KAG   +A +LL  +     KP    Y+ ++ G+ R G+
Sbjct: 440 LSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGK 499

Query: 243 FDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDL 302
            D+A  FF E +  G  PN   +  ++    +  +   A ++LV M   G  P    + +
Sbjct: 500 VDEAIKFFHEFERMGIRPNAVTFNSIMLGLCKSRQTDRAIDFLVFMINRGCKPNETSYTI 559

Query: 303 VTDGL 307
           + +GL
Sbjct: 560 LIEGL 564

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score =  137 bits (344), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 80/291 (27%), Positives = 143/291 (49%)

Query: 19  TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRM 78
           T S +I+ F K G +  A E++N+          + YNSL+   C+    H A  +   M
Sbjct: 317 TFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLM 376

Query: 79  IRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL 138
           + KG  PD  TY+IL+N++C + ++ +     +E+S KG  P     + LV G   +G L
Sbjct: 377 VSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKL 436

Query: 139 ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKIL 198
            +AK++  +M+ +G    + T+  L++ +C +GE+   +E++  + K  +   +  Y I+
Sbjct: 437 NAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNII 496

Query: 199 IPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH 258
           I  +  A  +D+A+ L  +L + G KP    Y  +I G+ ++G   +A   F +MK  G 
Sbjct: 497 IHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGC 556

Query: 259 PPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKN 309
            P+   Y +LI     G   + +   + EM   G +  S    +V D L +
Sbjct: 557 TPDDFTYNILIRAHLGGSGLISSVELIEEMKVCGFSADSSTIKMVIDMLSD 607

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSL9|PP445_ARATH Pentatricopeptide repeat-containing protein At5g65560 OS=Arabidopsis thaliana GN=At5g65560 PE=2 SV=1

 Score =  135 bits (340), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 90/296 (30%), Positives = 142/296 (47%), Gaps = 1/296 (0%)

Query: 5   IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE 64
           +ELM+   LS + +T + +I+ + K   V  A+ V NK         V+ YNSL+   C 
Sbjct: 416 VELMESRKLSPNTRTYNELIKGYCKSN-VHKAMGVLNKMLERKVLPDVVTYNSLIDGQCR 474

Query: 65  VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRG 124
              F  AY L+  M  +G VPD+ TY  ++++ C S ++ EA +    +  KG NP V  
Sbjct: 475 SGNFDSAYRLLSLMNDRGLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVM 534

Query: 125 RDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVC 184
              L+ G   AG ++ A  M+ KM+ +  + +  TFN+LI  +C  G+++    +   + 
Sbjct: 535 YTALIDGYCKAGKVDEAHLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMV 594

Query: 185 KLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFD 244
           K+GL   VST  ILI  + K G  D A+     ++  G KP    Y   I+   R G+  
Sbjct: 595 KIGLQPTVSTDTILIHRLLKDGDFDHAYSRFQQMLSSGTKPDAHTYTTFIQTYCREGRLL 654

Query: 245 DAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF 300
           DA    ++M+  G  P+   Y+ LI   G  G+   A + L  M + G  P    F
Sbjct: 655 DAEDMMAKMRENGVSPDLFTYSSLIKGYGDLGQTNFAFDVLKRMRDTGCEPSQHTF 710

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  135 bits (340), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 80/274 (29%), Positives = 140/274 (51%), Gaps = 2/274 (0%)

Query: 36  AVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN 95
           A+E+F +  +  C+     YN L+ +LC       A  ++++M   G      TY  L++
Sbjct: 419 AMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLID 478

Query: 96  AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVL 155
            +C + K REA+E   EM   G +      + L+ GL  +  +E A Q++++MI +G   
Sbjct: 479 GFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKP 538

Query: 156 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLL 215
           D  T+NSL+   C+ G+++   ++  ++   G   D+ TY  LI  + KAG ++ A +LL
Sbjct: 539 DKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLL 598

Query: 216 HNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-PPNRPVYTMLIT-MCG 273
            ++   G    P  Y P+I+G+FR+ +  +A   F EM  +   PP+   Y ++   +C 
Sbjct: 599 RSIQMKGINLTPHAYNPVIQGLFRKRKTTEAINLFREMLEQNEAPPDAVSYRIVFRGLCN 658

Query: 274 RGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGL 307
            GG   EA ++LVE+ E G  P      ++ +GL
Sbjct: 659 GGGPIREAVDFLVELLEKGFVPEFSSLYMLAEGL 692

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score =  134 bits (338), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 90/291 (30%), Positives = 140/291 (48%), Gaps = 1/291 (0%)

Query: 23  IIEEFGKHGLVDNAVEVFNK-CTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK 81
           +I  F  HG +D+A  V +   T++     V  YNSL++   +  L   A  ++  M  K
Sbjct: 359 LIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNK 418

Query: 82  GFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESA 141
           G  P+  +Y ILV+ +C  GK+ EA   L EMS  G  P   G + L+        +  A
Sbjct: 419 GCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEA 478

Query: 142 KQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA 201
            ++  +M ++G   D+ TFNSLI  +C+  E++  + +   +   G+ A+  TY  LI A
Sbjct: 479 VEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINA 538

Query: 202 VSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPN 261
             + G I EA +L++ +V  G       Y  +IKG+ R G+ D A   F +M   GH P+
Sbjct: 539 FLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPS 598

Query: 262 RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGK 312
                +LI    R G   EA  +  EM   G TP    F+ + +GL   G+
Sbjct: 599 NISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGR 649

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8A0|PP275_ARATH Pentatricopeptide repeat-containing protein At3g49730 OS=Arabidopsis thaliana GN=At3g49730 PE=2 SV=1

 Score =  134 bits (337), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 84/313 (26%), Positives = 155/313 (49%), Gaps = 3/313 (0%)

Query: 1   MWKTIELMKPYNLS-VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLL 59
           +W  IE M+  N   + P+   +++  F    +V  AVEV ++   +  +    ++  LL
Sbjct: 150 VWGLIEEMRKTNPELIEPELFVVLMRRFASANMVKKAVEVLDEMPKYGLEPDEYVFGCLL 209

Query: 60  FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
            ALC+      A  +   M R+ F P+ R +  L+  WC  GK+ EA+E L +M + G  
Sbjct: 210 DALCKNGSVKEASKVFEDM-REKFPPNLRYFTSLLYGWCREGKLMEAKEVLVQMKEAGLE 268

Query: 120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE-VEFCVE 178
           P +     L+ G  +AG +  A  ++N M K+GF  ++  +  LI+ +C++ + ++  + 
Sbjct: 269 PDIVVFTNLLSGYAHAGKMADAYDLMNDMRKRGFEPNVNCYTVLIQALCRTEKRMDEAMR 328

Query: 179 MYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMF 238
           ++  + + G  AD+ TY  LI    K GMID+ + +L ++ + G  P    Y  I+    
Sbjct: 329 VFVEMERYGCEADIVTYTALISGFCKWGMIDKGYSVLDDMRKKGVMPSQVTYMQIMVAHE 388

Query: 239 RRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISR 298
           ++ QF++      +MK +G  P+  +Y ++I +  + G   EA     EM   GL+P   
Sbjct: 389 KKEQFEECLELIEKMKRRGCHPDLLIYNVVIRLACKLGEVKEAVRLWNEMEANGLSPGVD 448

Query: 299 CFDLVTDGLKNCG 311
            F ++ +G  + G
Sbjct: 449 TFVIMINGFTSQG 461

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SAJ5|PP133_ARATH Pentatricopeptide repeat-containing protein At1g79540 OS=Arabidopsis thaliana GN=At1g79540 PE=2 SV=1

 Score =  132 bits (333), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 94/357 (26%), Positives = 158/357 (44%), Gaps = 38/357 (10%)

Query: 2   WKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFA 61
           W+T+E +K   +SV      ++I  + K G+ + AVE F +   F+C+  V  YN +L  
Sbjct: 112 WQTLEELKSGGVSVDSYCFCVLISAYAKMGMAEKAVESFGRMKEFDCRPDVFTYNVILRV 171

Query: 62  LCEVKLFHG-AYALIRRMIR-----------------------------------KGFVP 85
           +   ++F   A+A+   M++                                   +G  P
Sbjct: 172 MMREEVFFMLAFAVYNEMLKCNCSPNLYTFGILMDGLYKKGRTSDAQKMFDDMTGRGISP 231

Query: 86  DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMV 145
           ++ TY IL++  C  G   +A++   EM   G  P     + L+ G    G +  A +++
Sbjct: 232 NRVTYTILISGLCQRGSADDARKLFYEMQTSGNYPDSVAHNALLDGFCKLGRMVEAFELL 291

Query: 146 NKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA 205
               K GFVL L  ++SLI+ + ++       E+Y ++ K  +  D+  Y ILI  +SKA
Sbjct: 292 RLFEKDGFVLGLRGYSSLIDGLFRARRYTQAFELYANMLKKNIKPDIILYTILIQGLSKA 351

Query: 206 GMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVY 265
           G I++A +LL ++   G  P    Y  +IK +  RG  ++      EM      P+   +
Sbjct: 352 GKIEDALKLLSSMPSKGISPDTYCYNAVIKALCGRGLLEEGRSLQLEMSETESFPDACTH 411

Query: 266 TMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELL 322
           T+LI    R G   EA     E+ + G +P    F+ + DGL  C   +L E   LL
Sbjct: 412 TILICSMCRNGLVREAEEIFTEIEKSGCSPSVATFNALIDGL--CKSGELKEARLLL 466

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	329
224144668	422	predicted protein [Populus trichocarpa]	0.993	0.774	0.773	1e-154
255562047	451	pentatricopeptide repeat-containing prot	1.0	0.729	0.752	1e-149
449449535	455	PREDICTED: pentatricopeptide repeat-cont	1.0	0.723	0.736	1e-147
15238810	459	pentatricopeptide repeat-containing prot	1.0	0.716	0.754	1e-147
297807861	459	pentatricopeptide repeat-containing prot	1.0	0.716	0.751	1e-147
225430658	454	PREDICTED: pentatricopeptide repeat-cont	0.987	0.715	0.730	1e-145
356510681	450	PREDICTED: pentatricopeptide repeat-cont	0.996	0.728	0.676	1e-134
125562258	465	hypothetical protein OsI_29963 [Oryza sa	0.990	0.701	0.567	1e-112
125604075	461	hypothetical protein OsJ_28005 [Oryza sa	0.990	0.707	0.567	1e-112
413921612	456	hypothetical protein ZEAMMB73_526638 [Ze	0.984	0.710	0.553	1e-109

>gi|224144668|ref|XP_002325369.1| predicted protein [Populus trichocarpa] gi|222862244|gb|EEE99750.1| predicted protein [Populus trichocarpa]

 Score =  551 bits (1419), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 256/331 (77%), Positives = 292/331 (88%), Gaps = 4/331 (1%)

Query: 1   MWKTIELMKPY---NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCT-AFNCQQCVLLYN 56
           MWK I  +K       SVS  T+  IIEE+GKHGL+D AVEVFNKC+ + NCQ  V +YN
Sbjct: 91  MWKLIAQVKDNLGDKFSVSSDTVCSIIEEYGKHGLIDQAVEVFNKCSRSLNCQHNVCVYN 150

Query: 57  SLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK 116
           SLLFALCEVK+FHGAYAL+RRMIRKG VPDKRTY +LVN WCSSGK+REA+ FL+EMS K
Sbjct: 151 SLLFALCEVKMFHGAYALVRRMIRKGIVPDKRTYGVLVNGWCSSGKLREAKGFLEEMSKK 210

Query: 117 GFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFC 176
           GFNPPVRGRDLL++GLLNAGYLESAK MV +M+K+G V D+ TFNS++E IC +GEV+FC
Sbjct: 211 GFNPPVRGRDLLIEGLLNAGYLESAKDMVRRMMKEGLVPDVNTFNSMVEAICNAGEVDFC 270

Query: 177 VEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKG 236
           V+MY+SVCKLG C D+++YKILIPAVSK G IDEAFRLLHNL+EDGHKPFPSLYAPIIKG
Sbjct: 271 VDMYHSVCKLGFCPDINSYKILIPAVSKVGRIDEAFRLLHNLIEDGHKPFPSLYAPIIKG 330

Query: 237 MFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI 296
           MFRRGQFDDAFCFFSEMK+KGHPPNRPVYTM+ITMCGRGG+ VEAANYLVEMTE+GL PI
Sbjct: 331 MFRRGQFDDAFCFFSEMKVKGHPPNRPVYTMMITMCGRGGKHVEAANYLVEMTEIGLVPI 390

Query: 297 SRCFDLVTDGLKNCGKHDLAEKIELLEVSLR 327
           SRCFD+VTDGLKNCGKHDLA++IE LEVSLR
Sbjct: 391 SRCFDMVTDGLKNCGKHDLAKRIEQLEVSLR 421

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255562047|ref|XP_002522032.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223538836|gb|EEF40436.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  535 bits (1378), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 249/331 (75%), Positives = 288/331 (87%), Gaps = 2/331 (0%)

Query: 1   MWKTIELMKPYN--LSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSL 58
           MWK I  MK  N   S+S +T+  IIEE+G+ GL+D AVEVFN+C + NC+Q V +YNSL
Sbjct: 121 MWKLITQMKDQNPQFSISSETVRSIIEEYGRSGLIDQAVEVFNQCNSLNCEQNVDIYNSL 180

Query: 59  LFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF 118
           LFALCEVKLFHGAYAL+RR+IRKG  P+K TY++LVN WCS+GK +EAQ FL+EMS KGF
Sbjct: 181 LFALCEVKLFHGAYALVRRLIRKGLAPNKTTYSVLVNGWCSNGKFKEAQLFLEEMSKKGF 240

Query: 119 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVE 178
           NPPVRGRDLL++GLLNAGY ESAK+MV KM K+GFV D+ TFN LIE IC SGEV+FCV+
Sbjct: 241 NPPVRGRDLLIEGLLNAGYFESAKEMVFKMSKEGFVPDVNTFNCLIEAICNSGEVDFCVD 300

Query: 179 MYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMF 238
           MYYS+ KLG C D+++YKILIPAVSK G IDEAF+LL+N +EDGHKPFP LYAPIIKGM 
Sbjct: 301 MYYSLRKLGFCPDINSYKILIPAVSKVGKIDEAFKLLNNSIEDGHKPFPGLYAPIIKGMC 360

Query: 239 RRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISR 298
           RRGQFDDAFCFF EMK+KGHPPNRPVYTMLITMCGRGG++VEAANYLVEMTEMGLTPISR
Sbjct: 361 RRGQFDDAFCFFGEMKVKGHPPNRPVYTMLITMCGRGGKYVEAANYLVEMTEMGLTPISR 420

Query: 299 CFDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
           CFD+VTDGLKNCGKHDLA++IE LEVS+ SV
Sbjct: 421 CFDMVTDGLKNCGKHDLAKRIEQLEVSVCSV 451

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449535|ref|XP_004142520.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Cucumis sativus] gi|449518358|ref|XP_004166209.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Cucumis sativus]

 Score =  528 bits (1360), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 243/330 (73%), Positives = 284/330 (86%), Gaps = 1/330 (0%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCT-AFNCQQCVLLYNSLL 59
           MWK +  MK  NL +SP+T+S II+E+GK GLVDNAV +FN+C+ + +C Q V +YN+LL
Sbjct: 126 MWKVLLQMKTQNLKISPETISFIIQEYGKQGLVDNAVTIFNQCSKSIDCPQTVEVYNALL 185

Query: 60  FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
           FALCEVK+FHGAYALIRRMIRKG  PDK+TY  LV  WCS+GKM+EAQEFL+EMS KGFN
Sbjct: 186 FALCEVKMFHGAYALIRRMIRKGVTPDKKTYGTLVTGWCSAGKMKEAQEFLEEMSQKGFN 245

Query: 120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM 179
           PP+RGRDLLV+GLLNAGYLESAK MV KM K+G V D+ TFNSLI+ IC SGEV+FC+ +
Sbjct: 246 PPLRGRDLLVEGLLNAGYLESAKDMVRKMTKEGSVPDIGTFNSLIDVICNSGEVDFCINI 305

Query: 180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR 239
           ++ VCKLGLC D++TYKILIPA SK G IDEAFRLLH  +EDGH PFPSLY PI+KGM +
Sbjct: 306 FHEVCKLGLCPDINTYKILIPATSKVGRIDEAFRLLHCCIEDGHVPFPSLYGPILKGMCK 365

Query: 240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRC 299
           RGQFDDAFCFF +MK KGHPPNRPVYTMLITMCGRGGRFV+AANYL+EM E+GL PISRC
Sbjct: 366 RGQFDDAFCFFGDMKHKGHPPNRPVYTMLITMCGRGGRFVDAANYLMEMAELGLPPISRC 425

Query: 300 FDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
           FD+VTDGLKNCGKHDLA+KIE LEVS+R +
Sbjct: 426 FDMVTDGLKNCGKHDLAKKIEQLEVSIRGI 455

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15238810|ref|NP_197340.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635760|sp|Q94JX6.2|PP391_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g18390, mitochondrial; Flags: Precursor gi|332005166|gb|AED92549.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  527 bits (1357), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 249/330 (75%), Positives = 280/330 (84%), Gaps = 1/330 (0%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKC-TAFNCQQCVLLYNSLL 59
           MWK ++ MK  +L +S +TL  IIE++GK+G VD AVE+FN       CQQ V +YNSLL
Sbjct: 130 MWKILKQMKDLSLDISGETLCFIIEQYGKNGHVDQAVELFNGVPKTLGCQQTVDVYNSLL 189

Query: 60  FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
            ALC+VK+FHGAYALIRRMIRKG  PDKRTYAILVN WCS+GKM+EAQEFL EMS +GFN
Sbjct: 190 HALCDVKMFHGAYALIRRMIRKGLKPDKRTYAILVNGWCSAGKMKEAQEFLDEMSRRGFN 249

Query: 120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM 179
           PP RGRDLL++GLLNAGYLESAK+MV+KM K GFV D++TFN LIE I KSGEVEFC+EM
Sbjct: 250 PPARGRDLLIEGLLNAGYLESAKEMVSKMTKGGFVPDIQTFNILIEAISKSGEVEFCIEM 309

Query: 180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR 239
           YY+ CKLGLC D+ TYK LIPAVSK G IDEAFRLL+N VEDGHKPFPSLYAPIIKGM R
Sbjct: 310 YYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAPIIKGMCR 369

Query: 240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRC 299
            G FDDAF FFS+MK+K HPPNRPVYTMLITMCGRGG+FV+AANYLVEMTEMGL PISRC
Sbjct: 370 NGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMGLVPISRC 429

Query: 300 FDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
           FD+VTDGLKN GKHDLA +IE LEV LR V
Sbjct: 430 FDMVTDGLKNGGKHDLAMRIEQLEVQLRGV 459

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297807861|ref|XP_002871814.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297317651|gb|EFH48073.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  526 bits (1354), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 248/330 (75%), Positives = 280/330 (84%), Gaps = 1/330 (0%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKC-TAFNCQQCVLLYNSLL 59
           MWK ++ MK  +L +S +TL  IIE++GK+G VD AVE+FN       CQQ V +YN+LL
Sbjct: 130 MWKILKQMKDLSLDISGETLCFIIEQYGKNGHVDQAVELFNGVPKTLGCQQTVDVYNALL 189

Query: 60  FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
            ALC+VK+FHGAYALIRRMIRKG  PDKRTYAILVN WCS+GKM+EAQEFL EMS KGFN
Sbjct: 190 HALCDVKMFHGAYALIRRMIRKGLKPDKRTYAILVNGWCSAGKMKEAQEFLDEMSRKGFN 249

Query: 120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM 179
           PP RGRDLL++GLLNAGYLESAK++V+KM K GFV D+ TFN+LIE I KSGEVEFC+EM
Sbjct: 250 PPARGRDLLIEGLLNAGYLESAKEIVDKMTKGGFVPDILTFNTLIEAISKSGEVEFCIEM 309

Query: 180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR 239
           YY+ CKLGLC D+ TYK LIPAVSK G IDEAFRLL+N VEDGHKPFPSLYAPIIKGM R
Sbjct: 310 YYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAPIIKGMCR 369

Query: 240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRC 299
            G FDDAF FFS+MK+K HPPNRPVYTMLITMCGRGG+FV+AANYLVEMTEMGL PISRC
Sbjct: 370 NGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMGLVPISRC 429

Query: 300 FDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
           FD+VTDGLKN GKHDLA +IE LEV LR V
Sbjct: 430 FDMVTDGLKNSGKHDLAMRIEQLEVQLRGV 459

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430658|ref|XP_002268375.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial [Vitis vinifera] gi|296085168|emb|CBI28663.3| unnamed protein product [Vitis vinifera]

 Score =  520 bits (1339), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 241/330 (73%), Positives = 280/330 (84%), Gaps = 5/330 (1%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKC-TAFNCQQCVLLYNSLL 59
           MWK    M+    ++SP  +S IIEEFGKHGLVD AVEVFNK  +A NC Q + +YNSLL
Sbjct: 129 MWKIAHQMQ----TLSPTVVSSIIEEFGKHGLVDQAVEVFNKAKSALNCPQTIEVYNSLL 184

Query: 60  FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
           FALCEVK FHGAYALIRRMIRKG  P+K+TY++LVN WC++GKM+EAQ+FL+EMS KGFN
Sbjct: 185 FALCEVKYFHGAYALIRRMIRKGVTPNKQTYSVLVNGWCAAGKMKEAQDFLEEMSRKGFN 244

Query: 120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM 179
           PPVRGRDLLV GLLNAGYLE+AK+MV KM K+G   D+ET NS++E ICK+GE EFC+++
Sbjct: 245 PPVRGRDLLVDGLLNAGYLEAAKEMVRKMTKEGCAPDVETLNSMLEAICKAGEAEFCIDI 304

Query: 180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR 239
           Y  VC+LG+  +V TYKI+IPA  K G IDEAFR+LH  +EDGH+PFPSLYAPIIK + R
Sbjct: 305 YNDVCRLGVSPNVGTYKIMIPAACKEGRIDEAFRILHRSIEDGHRPFPSLYAPIIKALCR 364

Query: 240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRC 299
            GQFDDAFCFFS+MK+KGHPPNRPVYTMLITMCGRGGRFV+AANYLVEMTE+ LTPISRC
Sbjct: 365 NGQFDDAFCFFSDMKVKGHPPNRPVYTMLITMCGRGGRFVDAANYLVEMTELNLTPISRC 424

Query: 300 FDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
           FD+VTDGLKNCGKHDLA KIE LEVSLR V
Sbjct: 425 FDMVTDGLKNCGKHDLARKIEQLEVSLRGV 454

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510681|ref|XP_003524064.1| PREDICTED: pentatricopeptide repeat-containing protein At5g18390, mitochondrial-like [Glycine max]

 Score =  484 bits (1245), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 224/331 (67%), Positives = 275/331 (83%), Gaps = 3/331 (0%)

Query: 1   MWKTI-ELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAF-NCQQCVLLYNSL 58
           MW  I ++   + LS+SP  ++ +IE +G +  VD +V+VFNK     NC Q + LYN+L
Sbjct: 121 MWALIRQVTLHHRLSLSPSAVASVIEAYGDNRHVDQSVQVFNKSPLLLNCPQTLPLYNAL 180

Query: 59  LFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF 118
           L +LC  KLFHGAYAL+RRM+RKG  PDK TYA+LVNAWCS+GK+REA+ FL+EMS+KGF
Sbjct: 181 LRSLCHNKLFHGAYALVRRMLRKGLRPDKTTYAVLVNAWCSNGKLREAKLFLEEMSEKGF 240

Query: 119 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVE 178
           NPPVRGRDLLV+GLLNAGY+ESAK MV  MIKQG V D+ TFN+++ET+ K  +V+FCV 
Sbjct: 241 NPPVRGRDLLVEGLLNAGYVESAKGMVRNMIKQGSVPDVGTFNAVVETVSKE-DVQFCVG 299

Query: 179 MYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMF 238
           +Y+ VC LG+  DV+TYKIL+PAVSK+GM+DEAFRLL+N +EDGHKPFPSLYAP+IK + 
Sbjct: 300 LYHEVCALGMAPDVNTYKILVPAVSKSGMVDEAFRLLNNFIEDGHKPFPSLYAPVIKALC 359

Query: 239 RRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISR 298
           RRGQFDDAFCFF +MK K HPPNRP+YTMLITMCGR G+FVEAANY+ EMTEMGL PISR
Sbjct: 360 RRGQFDDAFCFFGDMKAKAHPPNRPLYTMLITMCGRAGKFVEAANYIFEMTEMGLVPISR 419

Query: 299 CFDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
           CFD+VTDGLKNCGKHDLA +++ LEVS+R V
Sbjct: 420 CFDMVTDGLKNCGKHDLARRVQELEVSIRGV 450

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125562258|gb|EAZ07706.1| hypothetical protein OsI_29963 [Oryza sativa Indica Group]

 Score =  409 bits (1052), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 185/326 (56%), Positives = 237/326 (72%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLF 60
           +W     M+   L +SP T S +I  +G+  L D AVEVFN+   F C Q   +YN+LL 
Sbjct: 137 LWSLAADMRALGLPLSPSTFSAVISSYGQSRLTDQAVEVFNRLPRFGCPQTTQVYNALLD 196

Query: 61  ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNP 120
           ALC    F GAY L+RRM RKG  PD+ T++ LV+AWC++GK+REAQ FL +M+++GF+P
Sbjct: 197 ALCANGSFAGAYKLLRRMARKGVAPDRATFSTLVDAWCAAGKLREAQAFLDDMAERGFHP 256

Query: 121 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMY 180
           PVRGRDLLV GL+ AG LE AK    +M K+G + D+ TFNSL E +C SG+VEF V + 
Sbjct: 257 PVRGRDLLVDGLVRAGRLEEAKAFALRMTKEGVLPDVATFNSLAEALCSSGDVEFAVALL 316

Query: 181 YSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR 240
                 GLC D+STYK++IPAV+KAG IDEAFRL +  +EDGH+PFPSLYA IIK + + 
Sbjct: 317 ADASSRGLCPDISTYKVMIPAVAKAGRIDEAFRLFYAALEDGHRPFPSLYAAIIKALCKA 376

Query: 241 GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF 300
           G+F DAF FF +MK KGHPPNRPVY ML+ MC RGGRFVEAANYLVEM+E G  P +  F
Sbjct: 377 GRFADAFAFFGDMKSKGHPPNRPVYVMLVKMCVRGGRFVEAANYLVEMSEAGFAPRAPTF 436

Query: 301 DLVTDGLKNCGKHDLAEKIELLEVSL 326
           + V DGL++CGKHDLA+++E LE+S+
Sbjct: 437 NSVVDGLRHCGKHDLAQRMEQLEMSM 462

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125604075|gb|EAZ43400.1| hypothetical protein OsJ_28005 [Oryza sativa Japonica Group]

 Score =  409 bits (1052), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 185/326 (56%), Positives = 237/326 (72%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLF 60
           +W     M+   L +SP T S +I  +G+  L D AVEVFN+   F C Q   +YN+LL 
Sbjct: 133 LWSLAADMRALGLPLSPSTFSAVISSYGQSRLTDQAVEVFNRLPRFGCPQTTQVYNALLD 192

Query: 61  ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNP 120
           ALC    F GAY L+RRM RKG  PD+ T++ LV+AWC++GK+REAQ FL +M+++GF+P
Sbjct: 193 ALCANGSFAGAYKLLRRMARKGVAPDRATFSTLVDAWCAAGKLREAQAFLDDMAERGFHP 252

Query: 121 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMY 180
           PVRGRDLLV GL+ AG LE AK    +M K+G + D+ TFNSL E +C SG+VEF V + 
Sbjct: 253 PVRGRDLLVDGLVRAGRLEEAKAFALRMTKEGVLPDVATFNSLAEALCSSGDVEFAVALL 312

Query: 181 YSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR 240
                 GLC D+STYK++IPAV+KAG IDEAFRL +  +EDGH+PFPSLYA IIK + + 
Sbjct: 313 ADASSRGLCPDISTYKVMIPAVAKAGRIDEAFRLFYAALEDGHRPFPSLYAAIIKALCKA 372

Query: 241 GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF 300
           G+F DAF FF +MK KGHPPNRPVY ML+ MC RGGRFVEAANYLVEM+E G  P +  F
Sbjct: 373 GRFADAFAFFGDMKSKGHPPNRPVYVMLVKMCVRGGRFVEAANYLVEMSEAGFAPRAPTF 432

Query: 301 DLVTDGLKNCGKHDLAEKIELLEVSL 326
           + V DGL++CGKHDLA+++E LE+S+
Sbjct: 433 NSVVDGLRHCGKHDLAQRMEQLEMSM 458

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413921612|gb|AFW61544.1| hypothetical protein ZEAMMB73_526638 [Zea mays]

 Score =  399 bits (1026), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 181/327 (55%), Positives = 233/327 (71%)

Query: 1   MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLF 60
           +W     M+   L +SP T S +I  +G   L D AVEVFN+   F C Q   +YN+LL 
Sbjct: 128 LWSLASDMRGLGLPLSPTTFSAVISSYGHSRLPDQAVEVFNRLPRFGCPQTTEVYNALLD 187

Query: 61  ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNP 120
           ALC    F GAY L+RRM RKG  PD+ T++ LV++WC++GK++EAQ FL +M+ +G  P
Sbjct: 188 ALCANGNFTGAYKLLRRMARKGVAPDRATFSTLVDSWCAAGKLQEAQAFLDDMAGRGLRP 247

Query: 121 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMY 180
           PVRGRDLLV GL+ AG+LE AK    +M K+G + D+ TFNSL E +C +G+V+F V + 
Sbjct: 248 PVRGRDLLVDGLVRAGHLEQAKAFALRMTKEGILPDVATFNSLAEALCNAGDVDFAVSLL 307

Query: 181 YSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR 240
                 GLC D+STYK+++PAV+K G I+EAFRL +  VEDGH+PFPSLYA IIK + + 
Sbjct: 308 ADASSRGLCPDISTYKVMLPAVAKVGKIEEAFRLFYAAVEDGHRPFPSLYAAIIKALCKA 367

Query: 241 GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF 300
           G+F DAF FF +MK KGHPPNRPVY ML+ MC RGGRFVEAANYLVEM+E G TP +  F
Sbjct: 368 GRFADAFAFFGDMKTKGHPPNRPVYVMLVKMCVRGGRFVEAANYLVEMSEAGFTPRAPTF 427

Query: 301 DLVTDGLKNCGKHDLAEKIELLEVSLR 327
             V DGL++CGKHDLA ++E LEVSL+
Sbjct: 428 SAVVDGLRHCGKHDLARRLEQLEVSLK 454

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

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	329
TAIR|locus:2146288	459	AT5G18390 "AT5G18390" [Arabido	1.0	0.716	0.754	6e-135
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.942	0.414	0.291	1.5e-32
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.963	0.530	0.267	2.2e-32
TAIR|locus:2155730	915	AT5G65560 "AT5G65560" [Arabido	0.896	0.322	0.304	1.6e-31
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.933	0.495	0.270	4.3e-31
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.863	0.376	0.283	1.4e-30
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.878	0.395	0.311	5.6e-30
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.887	0.382	0.275	6.2e-30
TAIR|locus:2097395	638	AT3G49730 [Arabidopsis thalian	0.942	0.485	0.268	7.8e-30
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.896	0.468	0.280	2e-29

TAIR|locus:2146288 AT5G18390 "AT5G18390" [Arabidopsis thaliana (taxid:3702)]

 Score = 1322 (470.4 bits), Expect = 6.0e-135, P = 6.0e-135
 Identities = 249/330 (75%), Positives = 280/330 (84%)

Query:     1 MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCT-AFNCQQCVLLYNSLL 59
             MWK ++ MK  +L +S +TL  IIE++GK+G VD AVE+FN       CQQ V +YNSLL
Sbjct:   130 MWKILKQMKDLSLDISGETLCFIIEQYGKNGHVDQAVELFNGVPKTLGCQQTVDVYNSLL 189

Query:    60 FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
              ALC+VK+FHGAYALIRRMIRKG  PDKRTYAILVN WCS+GKM+EAQEFL EMS +GFN
Sbjct:   190 HALCDVKMFHGAYALIRRMIRKGLKPDKRTYAILVNGWCSAGKMKEAQEFLDEMSRRGFN 249

Query:   120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM 179
             PP RGRDLL++GLLNAGYLESAK+MV+KM K GFV D++TFN LIE I KSGEVEFC+EM
Sbjct:   250 PPARGRDLLIEGLLNAGYLESAKEMVSKMTKGGFVPDIQTFNILIEAISKSGEVEFCIEM 309

Query:   180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR 239
             YY+ CKLGLC D+ TYK LIPAVSK G IDEAFRLL+N VEDGHKPFPSLYAPIIKGM R
Sbjct:   310 YYTACKLGLCVDIDTYKTLIPAVSKIGKIDEAFRLLNNCVEDGHKPFPSLYAPIIKGMCR 369

Query:   240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRC 299
              G FDDAF FFS+MK+K HPPNRPVYTMLITMCGRGG+FV+AANYLVEMTEMGL PISRC
Sbjct:   370 NGMFDDAFSFFSDMKVKAHPPNRPVYTMLITMCGRGGKFVDAANYLVEMTEMGLVPISRC 429

Query:   300 FDLVTDGLKNCGKHDLAEKIELLEVSLRSV 329
             FD+VTDGLKN GKHDLA +IE LEV LR V
Sbjct:   430 FDMVTDGLKNGGKHDLAMRIEQLEVQLRGV 459

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 364 (133.2 bits), Expect = 1.5e-32, P = 1.5e-32
 Identities = 92/316 (29%), Positives = 154/316 (48%)

Query:    15 VSPQ--TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAY 72
             VSP   T +++I  F   G +D A+ +F+K     C   V+ YN+L+   C+++     +
Sbjct:   201 VSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDGF 260

Query:    73 ALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGL 132
              L+R M  KG  P+  +Y +++N  C  G+M+E    L EM+ +G++      + L++G 
Sbjct:   261 KLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGY 320

Query:   133 LNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADV 192
                G    A  M  +M++ G    + T+ SLI ++CK+G +   +E    +   GLC + 
Sbjct:   321 CKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNE 380

Query:   193 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSE 252
              TY  L+   S+ G ++EA+R+L  + ++G  P    Y  +I G    G+ +DA     +
Sbjct:   381 RTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLED 440

Query:   253 MKIKGHPPNRPVY-TMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCG 311
             MK KG  P+   Y T+L   C R     EA     EM E G+ P +  +  +  G   C 
Sbjct:   441 MKEKGLSPDVVSYSTVLSGFC-RSYDVDEALRVKREMVEKGIKPDTITYSSLIQGF--CE 497

Query:   312 KHDLAEKIELLEVSLR 327
             +    E  +L E  LR
Sbjct:   498 QRRTKEACDLYEEMLR 513

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 359 (131.4 bits), Expect = 2.2e-32, P = 2.2e-32
 Identities = 86/321 (26%), Positives = 159/321 (49%)

Query:     3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFAL 62
             K ++ M+    +    T ++++    K G +D A++  N   +  CQ  V+ +N +L ++
Sbjct:   260 KLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSM 319

Query:    63 CEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPV 122
             C    +  A  L+  M+RKGF P   T+ IL+N  C  G +  A + L++M   G  P  
Sbjct:   320 CSTGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNS 379

Query:   123 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS 182
                + L+ G      ++ A + + +M+ +G   D+ T+N+++  +CK G+VE  VE+   
Sbjct:   380 LSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQ 439

Query:   183 VCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQ 242
             +   G    + TY  +I  ++KAG   +A +LL  +     KP    Y+ ++ G+ R G+
Sbjct:   440 LSSKGCSPVLITYNTVIDGLAKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGK 499

Query:   243 FDDAFCFFSEMKIKGHPPNRPVY-TMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFD 301
              D+A  FF E +  G  PN   + ++++ +C +  +   A ++LV M   G  P    + 
Sbjct:   500 VDEAIKFFHEFERMGIRPNAVTFNSIMLGLC-KSRQTDRAIDFLVFMINRGCKPNETSYT 558

Query:   302 LVTDGLKNCGKHDLAEKIELL 322
             ++ +GL   G     E +ELL
Sbjct:   559 ILIEGLAYEGM--AKEALELL 577

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2155730 AT5G65560 "AT5G65560" [Arabidopsis thaliana (taxid:3702)]

 Score = 337 (123.7 bits), Expect = 1.6e-31, Sum P(2) = 1.6e-31
 Identities = 90/296 (30%), Positives = 142/296 (47%)

Query:     5 IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE 64
             +ELM+   LS + +T + +I+ + K   V  A+ V NK         V+ YNSL+   C 
Sbjct:   416 VELMESRKLSPNTRTYNELIKGYCKSN-VHKAMGVLNKMLERKVLPDVVTYNSLIDGQCR 474

Query:    65 VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRG 124
                F  AY L+  M  +G VPD+ TY  ++++ C S ++ EA +    +  KG NP V  
Sbjct:   475 SGNFDSAYRLLSLMNDRGLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVM 534

Query:   125 RDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVC 184
                L+ G   AG ++ A  M+ KM+ +  + +  TFN+LI  +C  G+++    +   + 
Sbjct:   535 YTALIDGYCKAGKVDEAHLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMV 594

Query:   185 KLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFD 244
             K+GL   VST  ILI  + K G  D A+     ++  G KP    Y   I+   R G+  
Sbjct:   595 KIGLQPTVSTDTILIHRLLKDGDFDHAYSRFQQMLSSGTKPDAHTYTTFIQTYCREGRLL 654

Query:   245 DAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF 300
             DA    ++M+  G  P+   Y+ LI   G  G+   A + L  M + G  P    F
Sbjct:   655 DAEDMMAKMRENGVSPDLFTYSSLIKGYGDLGQTNFAFDVLKRMRDTGCEPSQHTF 710

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 348 (127.6 bits), Expect = 4.3e-31, P = 4.3e-31
 Identities = 83/307 (27%), Positives = 148/307 (48%)

Query:     3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFAL 62
             K +  M   N+     T S +I+ F K G +  A E++N+          + YNSL+   
Sbjct:   301 KMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGF 360

Query:    63 CEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPV 122
             C+    H A  +   M+ KG  PD  TY+IL+N++C + ++ +     +E+S KG  P  
Sbjct:   361 CKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNT 420

Query:   123 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS 182
                + LV G   +G L +AK++  +M+ +G    + T+  L++ +C +GE+   +E++  
Sbjct:   421 ITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEK 480

Query:   183 VCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQ 242
             + K  +   +  Y I+I  +  A  +D+A+ L  +L + G KP    Y  +I G+ ++G 
Sbjct:   481 MQKSRMTLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGS 540

Query:   243 FDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDL 302
               +A   F +MK  G  P+   Y +LI     G   + +   + EM   G +  S    +
Sbjct:   541 LSEADMLFRKMKEDGCTPDDFTYNILIRAHLGGSGLISSVELIEEMKVCGFSADSSTIKM 600

Query:   303 VTDGLKN 309
             V D L +
Sbjct:   601 VIDMLSD 607

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 346 (126.9 bits), Expect = 1.4e-30, P = 1.4e-30
 Identities = 81/286 (28%), Positives = 143/286 (50%)

Query:    36 AVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN 95
             A+E+F +  +  C+     YN L+ +LC       A  ++++M   G      TY  L++
Sbjct:   419 AMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARSVITYNTLID 478

Query:    96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVL 155
              +C + K REA+E   EM   G +      + L+ GL  +  +E A Q++++MI +G   
Sbjct:   479 GFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKP 538

Query:   156 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLL 215
             D  T+NSL+   C+ G+++   ++  ++   G   D+ TY  LI  + KAG ++ A +LL
Sbjct:   539 DKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAGRVEVASKLL 598

Query:   216 HNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-PPNRPVYTMLIT-MCG 273
              ++   G    P  Y P+I+G+FR+ +  +A   F EM  +   PP+   Y ++   +C 
Sbjct:   599 RSIQMKGINLTPHAYNPVIQGLFRKRKTTEAINLFREMLEQNEAPPDAVSYRIVFRGLCN 658

Query:   274 RGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKI 319
              GG   EA ++LVE+ E G  P      ++ +GL      +   K+
Sbjct:   659 GGGPIREAVDFLVELLEKGFVPEFSSLYMLAEGLLTLSMEETLVKL 704

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2173403 AT5G64320 "AT5G64320" [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 5.6e-30, P = 5.6e-30
 Identities = 91/292 (31%), Positives = 142/292 (48%)

Query:    23 IIEEFGKHGLVDNAVEVFNKC-TAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK 81
             +I  F  HG +D+A  V +   T++     V  YNSL++   +  L   A  ++  M  K
Sbjct:   359 LIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNK 418

Query:    82 GFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESA 141
             G  P+  +Y ILV+ +C  GK+ EA   L EMS  G  P   G + L+        +  A
Sbjct:   419 GCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEA 478

Query:   142 KQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA 201
              ++  +M ++G   D+ TFNSLI  +C+  E++  + +   +   G+ A+  TY  LI A
Sbjct:   479 VEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINA 538

Query:   202 VSKAGMIDEAFRLLHNLVEDGHKPFPSL-YAPIIKGMFRRGQFDDAFCFFSEMKIKGHPP 260
               + G I EA +L++ +V  G  P   + Y  +IKG+ R G+ D A   F +M   GH P
Sbjct:   539 FLRRGEIKEARKLVNEMVFQG-SPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAP 597

Query:   261 NRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGK 312
             +     +LI    R G   EA  +  EM   G TP    F+ + +GL   G+
Sbjct:   598 SNISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGLCRAGR 649

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 6.2e-30, P = 6.2e-30
 Identities = 81/294 (27%), Positives = 143/294 (48%)

Query:    24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF 83
             ++ +G+ G V  AV VF +   ++C+  V  YN+++  L +   F  A+ +  RM  +G 
Sbjct:    83 MKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSVLVDSGYFDQAHKVYMRMRDRGI 142

Query:    84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQ 143
              PD  ++ I + ++C + +   A   L  MS +G    V     +V G     +     +
Sbjct:   143 TPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEMNVVAYCTVVGGFYEENFKAEGYE 202

Query:   144 MVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVS 203
             +  KM+  G  L L TFN L+  +CK G+V+ C ++   V K G+  ++ TY + I  + 
Sbjct:   203 LFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLDKVIKRGVLPNLFTYNLFIQGLC 262

Query:   204 KAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRP 263
             + G +D A R++  L+E G KP    Y  +I G+ +  +F +A  +  +M  +G  P+  
Sbjct:   263 QRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQEAEVYLGKMVNEGLEPDSY 322

Query:   264 VYTMLITMCGRGGRFVEAANYLV-EMTEMGLTPISRCFDLVTDGLKNCGKHDLA 316
              Y  LI    +GG  V+ A  +V +    G  P    +  + DGL + G+ + A
Sbjct:   323 TYNTLIAGYCKGG-MVQLAERIVGDAVFNGFVPDQFTYRSLIDGLCHEGETNRA 375

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2097395 AT3G49730 [Arabidopsis thaliana (taxid:3702)]

 Score = 337 (123.7 bits), Expect = 7.8e-30, P = 7.8e-30
 Identities = 84/313 (26%), Positives = 155/313 (49%)

Query:     1 MWKTIELMKPYNLS-VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLL 59
             +W  IE M+  N   + P+   +++  F    +V  AVEV ++   +  +    ++  LL
Sbjct:   150 VWGLIEEMRKTNPELIEPELFVVLMRRFASANMVKKAVEVLDEMPKYGLEPDEYVFGCLL 209

Query:    60 FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN 119
              ALC+      A  +   M R+ F P+ R +  L+  WC  GK+ EA+E L +M + G  
Sbjct:   210 DALCKNGSVKEASKVFEDM-REKFPPNLRYFTSLLYGWCREGKLMEAKEVLVQMKEAGLE 268

Query:   120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE-VEFCVE 178
             P +     L+ G  +AG +  A  ++N M K+GF  ++  +  LI+ +C++ + ++  + 
Sbjct:   269 PDIVVFTNLLSGYAHAGKMADAYDLMNDMRKRGFEPNVNCYTVLIQALCRTEKRMDEAMR 328

Query:   179 MYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMF 238
             ++  + + G  AD+ TY  LI    K GMID+ + +L ++ + G  P    Y  I+    
Sbjct:   329 VFVEMERYGCEADIVTYTALISGFCKWGMIDKGYSVLDDMRKKGVMPSQVTYMQIMVAHE 388

Query:   239 RRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISR 298
             ++ QF++      +MK +G  P+  +Y ++I +  + G   EA     EM   GL+P   
Sbjct:   389 KKEQFEECLELIEKMKRRGCHPDLLIYNVVIRLACKLGEVKEAVRLWNEMEANGLSPGVD 448

Query:   299 CFDLVTDGLKNCG 311
              F ++ +G  + G
Sbjct:   449 TFVIMINGFTSQG 461

GO:0005739 "mitochondrion" evidence=ISM

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 333 (122.3 bits), Expect = 2.0e-29, P = 2.0e-29
 Identities = 83/296 (28%), Positives = 146/296 (49%)

Query:    19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRM 78
             T S +I+ F K G +  A +++++    +    ++ Y+SL+   C       A  +   M
Sbjct:   328 TFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAKQMFEFM 387

Query:    79 IRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL 138
             + K   PD  TY  L+  +C   ++ E  E  +EMS +G        ++L+QGL  AG  
Sbjct:   388 VSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGLFQAGDC 447

Query:   139 ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKIL 198
             + A+++  +M+  G   ++ T+N+L++ +CK+G++E  + ++  + +  +   + TY I+
Sbjct:   448 DMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIM 507

Query:   199 IPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH 258
             I  + KAG +++ + L  NL   G KP    Y  +I G  R+G  ++A   F EMK  G 
Sbjct:   508 IEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMISGFCRKGSKEEADALFKEMKEDGT 567

Query:   259 PPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHD 314
              PN   Y  LI    R G    +A  + EM   G    +    LVT+ L + G+ D
Sbjct:   568 LPNSGCYNTLIRARLRDGDREASAELIKEMRSCGFAGDASTIGLVTNMLHD-GRLD 622

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q94JX6	PP391_ARATH	No assigned EC number	0.7545	1.0	0.7167	yes	no

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

Fail to connect to STRING server

---

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	329
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-08
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.004
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.004

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

 Score = 74.5 bits (183), Expect = 1e-14
 Identities = 54/218 (24%), Positives = 96/218 (44%), Gaps = 2/218 (0%)

Query: 29  KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKR 88
             G VD A EV+     +N +    +Y   + +  +   +  A ++   M +KG  PD+ 
Sbjct: 591 NAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650

Query: 89  TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKM 148
            ++ LV+    +G + +A E LQ+   +G          L+    NA   + A ++   +
Sbjct: 651 FFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI 710

Query: 149 IKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI 208
                   + T N+LI  +C+  ++   +E+   + +LGLC +  TY IL+ A  +    
Sbjct: 711 KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDA 770

Query: 209 DEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDA 246
           D    LL    EDG KP   +   I  G+  R +F+ A
Sbjct: 771 DVGLDLLSQAKEDGIKPNLVMCRCIT-GLCLR-RFEKA 806

Length = 1060

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

 Score = 73.8 bits (181), Expect = 2e-14
 Identities = 49/158 (31%), Positives = 73/158 (46%), Gaps = 5/158 (3%)

Query: 157 LETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLH 216
           L TFN L+     S +++  + +   V + GL AD   Y  LI   +K+G +D  F + H
Sbjct: 437 LSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH 496

Query: 217 NLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGG 276
            +V  G +     +  +I G  R GQ   AF  +  M+ K   P+R V+  LI+ CG+ G
Sbjct: 497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG 556

Query: 277 RFVEAANYLVEMTEMGLTPISRCFDLVTDG--LKNCGK 312
               A + L EM      PI    D +T G  +K C  
Sbjct: 557 AVDRAFDVLAEMKAET-HPIDP--DHITVGALMKACAN 591

Length = 1060

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

 Score = 72.2 bits (177), Expect = 7e-14
 Identities = 61/245 (24%), Positives = 100/245 (40%), Gaps = 6/245 (2%)

Query: 55  YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMS 114
           +N L+      +   GA  ++R +   G   D + Y  L++    SGK+    E   EM 
Sbjct: 440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV 499

Query: 115 DKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVE 174
           + G    V     L+ G   AG +  A      M  +    D   FN+LI    +SG V+
Sbjct: 500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVD 559

Query: 175 --FCV--EMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLY 230
             F V  EM      +    D  T   L+ A + AG +D A  +   + E   K  P +Y
Sbjct: 560 RAFDVLAEMKAETHPID--PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY 617

Query: 231 APIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE 290
              +    ++G +D A   + +MK KG  P+   ++ L+ + G  G   +A   L +  +
Sbjct: 618 TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK 677

Query: 291 MGLTP 295
            G+  
Sbjct: 678 QGIKL 682

Length = 1060

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

 Score = 64.9 bits (158), Expect = 2e-11
 Identities = 74/323 (22%), Positives = 123/323 (38%), Gaps = 52/323 (16%)

Query: 23  IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEV----KLFHGAYALIRRM 78
           +I    K G VD   EVF++      +  V  + +L+          K F GAY +   M
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAF-GAYGI---M 533

Query: 79  IRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLL----N 134
             K   PD+  +  L++A   SG +  A + L EM  K    P+    + V  L+    N
Sbjct: 534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEM--KAETHPIDPDHITVGALMKACAN 591

Query: 135 AGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVST 194
           AG ++ AK++   + +       E +   + +  + G+ +F + +Y  + K G+  D   
Sbjct: 592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 195 YKILIPAVSKAGMIDEAFRLLHN-------------------------------LVED-- 221
           +  L+     AG +D+AF +L +                               L ED  
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK 711

Query: 222 --GHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFV 279
               +P  S    +I  +    Q   A    SEMK  G  PN   Y++L+    R     
Sbjct: 712 SIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD 771

Query: 280 EAANYLVEMTEMGLTP---ISRC 299
              + L +  E G+ P   + RC
Sbjct: 772 VGLDLLSQAKEDGIKPNLVMCRC 794

Length = 1060

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

 Score = 63.0 bits (153), Expect = 8e-11
 Identities = 50/203 (24%), Positives = 83/203 (40%), Gaps = 3/203 (1%)

Query: 72  YALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG 131
           Y +I     KG  P+   Y I VN+    G    A     +M  KG  P       LV  
Sbjct: 602 YQMIHEYNIKGT-PE--VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDV 658

Query: 132 LLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCAD 191
             +AG L+ A +++    KQG  L   +++SL+     +   +  +E+Y  +  + L   
Sbjct: 659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPT 718

Query: 192 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFS 251
           VST   LI A+ +   + +A  +L  +   G  P    Y+ ++    R+   D      S
Sbjct: 719 VSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLS 778

Query: 252 EMKIKGHPPNRPVYTMLITMCGR 274
           + K  G  PN  +   +  +C R
Sbjct: 779 QAKEDGIKPNLVMCRCITGLCLR 801

Length = 1060

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

 Score = 50.9 bits (123), Expect = 6e-09
 Identities = 15/48 (31%), Positives = 25/48 (52%)

Query: 51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC 98
           V+ YN+L+   C+      A  L   M ++G  P+  TY+IL++  C
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 55.7 bits (134), Expect = 2e-08
 Identities = 41/151 (27%), Positives = 67/151 (44%), Gaps = 5/151 (3%)

Query: 132 LLNAGYLESAKQMVNKMIKQGFVLDLETFN-SLIETICKSGEVEFCVEMYYSVCKLGLCA 190
           LL  G ++    ++  M K+G +LD++    +     CK    +  V+  +   KL    
Sbjct: 380 LLRDGRIKDCIDLLEDMEKRG-LLDMDKIYHAKFFKACKK---QRAVKEAFRFAKLIRNP 435

Query: 191 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF 250
            +ST+ +L+   + +  ID A R+L  + E G K    LY  +I    + G+ D  F  F
Sbjct: 436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVF 495

Query: 251 SEMKIKGHPPNRPVYTMLITMCGRGGRFVEA 281
            EM   G   N   +  LI  C R G+  +A
Sbjct: 496 HEMVNAGVEANVHTFGALIDGCARAGQVAKA 526

Length = 1060

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

 Score = 48.2 bits (116), Expect = 5e-08
 Identities = 14/42 (33%), Positives = 25/42 (59%)

Query: 233 IIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGR 274
           +I G  ++G+ ++A   F+EMK +G  PN   Y++LI    +
Sbjct: 9   LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 53.7 bits (129), Expect = 5e-08
 Identities = 45/220 (20%), Positives = 92/220 (41%), Gaps = 8/220 (3%)

Query: 55  YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMS 114
           Y++L+ A   +K      A+   +   GF PD+     ++      G + +A+    EM 
Sbjct: 126 YDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP 185

Query: 115 DKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVE 174
           ++     +     ++ GL++AG    A  +  +M + G   +  TF  ++      G   
Sbjct: 186 ERN----LASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR 241

Query: 175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPII 234
              +++  V K G+  D      LI   SK G I++A  +   + E     + S    ++
Sbjct: 242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNS----ML 297

Query: 235 KGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGR 274
            G    G  ++A C + EM+  G   ++  ++++I +  R
Sbjct: 298 AGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR 337

Length = 697

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

 Score = 53.3 bits (128), Expect = 8e-08
 Identities = 64/277 (23%), Positives = 119/277 (42%), Gaps = 31/277 (11%)

Query: 23  IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG 82
           +IE + K   +D A+EVF+     +    V+ + S++  L        A    R+M+   
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIPEKD----VISWTSIIAGLRLNNRCFEALIFFRQMLLT- 484

Query: 83  FVPDKRTYAILVNAWCSSGKMREAQEFLQE-----MSDKGFNPPVRGRDLLVQGLLNAGY 137
             P+  T    ++A    G +   +E         +   GF P     + L+   +  G 
Sbjct: 485 LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP-----NALLDLYVRCGR 539

Query: 138 LESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKI 197
           +  A    N   K     D+ ++N L+      G+    VE++  + + G+  D  T+  
Sbjct: 540 MNYAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFIS 594

Query: 198 LIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSL--YAPIIKGMFRRGQFDDAFCFFSEMKI 255
           L+ A S++GM+ +     H++ E      P+L  YA ++  + R G+  +A+ F ++M I
Sbjct: 595 LLCACSRSGMVTQGLEYFHSMEEKYSIT-PNLKHYACVVDLLGRAGKLTEAYNFINKMPI 653

Query: 256 KGHPPNRPVYTMLITMCGRGGRFVE----AANYLVEM 288
               P+  V+  L+  C R  R VE    AA ++ E+
Sbjct: 654 T---PDPAVWGALLNAC-RIHRHVELGELAAQHIFEL 686

Length = 857

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

 Score = 53.0 bits (127), Expect = 1e-07
 Identities = 55/257 (21%), Positives = 114/257 (44%), Gaps = 24/257 (9%)

Query: 23  IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLL--FALCEVKLFHG----AYALIR 76
           +I+ + K G +++A  VF+       ++  + +NS+L  +AL      HG    A  L  
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYAL------HGYSEEALCLYY 314

Query: 77  RMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG 136
            M   G   D+ T++I++  +     +  A++    +   GF   +     LV      G
Sbjct: 315 EMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWG 374

Query: 137 YLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYK 196
            +E A+ + ++M ++  +    ++N+LI      G     VEM+  +   G+  +  T+ 
Sbjct: 375 RMEDARNVFDRMPRKNLI----SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFL 430

Query: 197 ILIPAVSKAGMIDEAFRLLHNLVED-GHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI 255
            ++ A   +G+ ++ + +  ++ E+   KP    YA +I+ + R G  D+A+        
Sbjct: 431 AVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPF 490

Query: 256 KGHPPNRPVYTMLITMC 272
           K   P   ++  L+T C
Sbjct: 491 K---PTVNMWAALLTAC 504

Length = 697

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 45.8 bits (110), Expect = 3e-07
 Identities = 15/34 (44%), Positives = 20/34 (58%)

Query: 81  KGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMS 114
           KG  PD  TY  L++  C +G++ EA E L EM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

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

 Score = 38.9 bits (92), Expect = 1e-04
 Identities = 14/36 (38%), Positives = 20/36 (55%)

Query: 85  PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNP 120
           PD  TY  L++ +C  GK+ EA +   EM  +G  P
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKP 36

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

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

 Score = 38.9 bits (92), Expect = 1e-04
 Identities = 14/42 (33%), Positives = 26/42 (61%)

Query: 128 LVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK 169
           L+ G    G +E A ++ N+M K+G   ++ T++ LI+ +CK
Sbjct: 9   LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 57/293 (19%), Positives = 109/293 (37%), Gaps = 39/293 (13%)

Query: 29  KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKR 88
           K G++ +A  +F++    N    +  + +++  L +   +  A+AL R M   G   + R
Sbjct: 170 KCGMLIDARRLFDEMPERN----LASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPR 225

Query: 89  TYAILVNAWCSSGKMREAQEF------------------LQEMSDK---------GFN-- 119
           T+ +++ A    G  R  Q+                   L +M  K          F+  
Sbjct: 226 TFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM 285

Query: 120 --PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCV 177
                   + ++ G    GY E A  +  +M   G  +D  TF+ +I    +   +E   
Sbjct: 286 PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK 345

Query: 178 EMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGM 237
           + +  + + G   D+     L+   SK G +++A  +   +     K   S  A +I G 
Sbjct: 346 QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM---PRKNLISWNA-LIAGY 401

Query: 238 FRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE 290
              G+   A   F  M  +G  PN   +  +++ C   G   +       M+E
Sbjct: 402 GNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE 454

Length = 697

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

 Score = 36.7 bits (86), Expect = 5e-04
 Identities = 11/32 (34%), Positives = 19/32 (59%)

Query: 230 YAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPN 261
           Y  +I G+ + G+ ++A   F EMK +G  P+
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 36.7 bits (86), Expect = 5e-04
 Identities = 11/32 (34%), Positives = 16/32 (50%)

Query: 55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPD 86
          YN+L+  LC+      A  L + M  +G  PD
Sbjct: 3  YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 46/198 (23%), Positives = 78/198 (39%), Gaps = 9/198 (4%)

Query: 79  IRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL 138
           ++ GF  D      L+  + S G   EA++    M  K           ++ G    G  
Sbjct: 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKD----AVSWTAMISGYEKNGLP 370

Query: 139 ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKIL 198
           + A +    M +     D  T  S++      G+++  V+++    + GL + V     L
Sbjct: 371 DKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANAL 430

Query: 199 IPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH 258
           I   SK   ID+A  + HN+ E   K   S +  II G+    +  +A  FF +M +   
Sbjct: 431 IEMYSKCKCIDKALEVFHNIPE---KDVIS-WTSIIAGLRLNNRCFEALIFFRQMLLTLK 486

Query: 259 PPNRPVYTMLITMCGRGG 276
            PN       ++ C R G
Sbjct: 487 -PNSVTLIAALSACARIG 503

Length = 857

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

 Score = 34.7 bits (81), Expect = 0.002
 Identities = 13/30 (43%), Positives = 20/30 (66%)

Query: 89  TYAILVNAWCSSGKMREAQEFLQEMSDKGF 118
           TY  L++ +C +GK+ EA E  +EM +KG 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 34.2 bits (80), Expect = 0.003
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 187 GLCADVSTYKILIPAVSKAGMIDEAFRLL 215
           GL  DV TY  LI  + +AG +DEA  LL
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELL 30

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 14/35 (40%), Positives = 20/35 (57%)

Query: 191 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP 225
           DV TY  LI    K G ++EA +L + + + G KP
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKP 36

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

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

 Score = 34.3 bits (80), Expect = 0.004
 Identities = 18/46 (39%), Positives = 30/46 (65%)

Query: 159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK 204
           T+N+LI+  CK G+VE  ++++  + K G+  +V TY ILI  + K
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	329
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.95
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.95
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.94
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.89
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.85
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.84
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.84
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.82
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.81
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.81
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.8
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
PRK14574	822	hmsH outer membrane protein; Provisional	99.76
KOG1126	638	consensus DNA-binding cell division cycle control	99.75
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.75
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.75
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.73
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.72
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.71
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.7
KOG2076	895	consensus RNA polymerase III transcription factor	99.7
KOG1126	638	consensus DNA-binding cell division cycle control	99.7
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.69
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.69
PRK12370	553	invasion protein regulator; Provisional	99.66
KOG2076	895	consensus RNA polymerase III transcription factor	99.65
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.65
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.64
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.62
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.61
KOG2003	840	consensus TPR repeat-containing protein [General f	99.61
PRK12370	553	invasion protein regulator; Provisional	99.6
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.6
KOG1129	478	consensus TPR repeat-containing protein [General f	99.56
KOG1129	478	consensus TPR repeat-containing protein [General f	99.56
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.56
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.55
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.55
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.54
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.53
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.51
KOG2003	840	consensus TPR repeat-containing protein [General f	99.48
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.48
PF13041	50	PPR_2: PPR repeat family	99.48
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.48
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.47
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.46
PF13041	50	PPR_2: PPR repeat family	99.46
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.43
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.43
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.42
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.41
PRK11189	296	lipoprotein NlpI; Provisional	99.4
PRK11189	296	lipoprotein NlpI; Provisional	99.4
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.39
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.39
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.38
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.37
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.37
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.3
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.29
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.27
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.27
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.27
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.2
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.19
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.18
PLN02789	320	farnesyltranstransferase	99.16
PLN02789	320	farnesyltranstransferase	99.15
KOG1125	579	consensus TPR repeat-containing protein [General f	99.11
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.07
PRK04841	903	transcriptional regulator MalT; Provisional	99.06
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.06
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.03
PRK14720	906	transcript cleavage factor/unknown domain fusion p	99.03
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.03
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.03
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.03
KOG1125	579	consensus TPR repeat-containing protein [General f	99.02
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.02
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.0
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.95
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.95
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.94
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.92
PF12854	34	PPR_1: PPR repeat	98.91
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.91
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.9
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.9
PRK15359	144	type III secretion system chaperone protein SscB;	98.89
PF12854	34	PPR_1: PPR repeat	98.89
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.87
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.87
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.87
PRK04841	903	transcriptional regulator MalT; Provisional	98.87
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.85
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.84
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.83
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.82
PRK15359	144	type III secretion system chaperone protein SscB;	98.8
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.8
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.76
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.72
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.72
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.71
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.68
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.68
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.64
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.62
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.6
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.58
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.57
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.57
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.56
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.55
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.54
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.54
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.51
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.49
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.48
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.46
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.45
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.44
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.43
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.42
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.42
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.41
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.4
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.39
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.37
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.34
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.32
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.3
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.29
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.27
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.25
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.23
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.21
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.18
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.16
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.16
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.15
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.15
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.15
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.15
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.13
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.13
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.1
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.09
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.08
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.07
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.05
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.05
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.04
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.03
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.02
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.01
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.01
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.96
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.96
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.93
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.9
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.89
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.88
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.85
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.84
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.83
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.83
PF12688	120	TPR_5: Tetratrico peptide repeat	97.78
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.78
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.75
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.72
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.72
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.71
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.71
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.7
KOG0553	304	consensus TPR repeat-containing protein [General f	97.68
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.67
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.66
KOG0553	304	consensus TPR repeat-containing protein [General f	97.65
PF12688	120	TPR_5: Tetratrico peptide repeat	97.65
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.63
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.61
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.59
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.59
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.55
PRK10803	263	tol-pal system protein YbgF; Provisional	97.52
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.51
PF13371	73	TPR_9: Tetratricopeptide repeat	97.51
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.47
PRK10803	263	tol-pal system protein YbgF; Provisional	97.47
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.41
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.36
PRK15331	165	chaperone protein SicA; Provisional	97.34
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.29
PF13371	73	TPR_9: Tetratricopeptide repeat	97.23
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.19
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.17
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.15
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.14
PRK15331	165	chaperone protein SicA; Provisional	97.12
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.96
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.91
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.9
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.89
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.88
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.84
PF13428	44	TPR_14: Tetratricopeptide repeat	96.82
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.82
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.63
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.57
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.54
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.51
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.49
PRK11906	458	transcriptional regulator; Provisional	96.45
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.45
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.43
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.41
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.39
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.38
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.36
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.35
KOG1585	308	consensus Protein required for fusion of vesicles	96.33
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.29
KOG4555	175	consensus TPR repeat-containing protein [Function	96.27
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.25
KOG3941	406	consensus Intermediate in Toll signal transduction	96.21
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.18
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.16
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.16
KOG1585	308	consensus Protein required for fusion of vesicles	96.15
KOG3941	406	consensus Intermediate in Toll signal transduction	96.14
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.14
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.12
PRK11906	458	transcriptional regulator; Provisional	96.06
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.89
PF13512	142	TPR_18: Tetratricopeptide repeat	95.87
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.86
KOG4555	175	consensus TPR repeat-containing protein [Function	95.85
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.81
PF13428	44	TPR_14: Tetratricopeptide repeat	95.8
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.74
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.74
PF13512	142	TPR_18: Tetratricopeptide repeat	95.72
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.63
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.53
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.46
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.38
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.37
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.37
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.28
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.26
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.2
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.14
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.09
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.08
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.07
PF13431	34	TPR_17: Tetratricopeptide repeat	94.99
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.94
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.92
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.76
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.66
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.39
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	94.34
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.34
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.25
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.24
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.2
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.05
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.9
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.81
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.78
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.73
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.72
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.58
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.58
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.26
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.24
COG4455	273	ImpE Protein of avirulence locus involved in tempe	93.18
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	92.95
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.85
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.79
KOG4234	271	consensus TPR repeat-containing protein [General f	92.78
PF13431	34	TPR_17: Tetratricopeptide repeat	92.55
PF13929	292	mRNA_stabil: mRNA stabilisation	92.5
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.38
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	92.27
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.19
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.12
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.1
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.99
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.97
COG3947	361	Response regulator containing CheY-like receiver a	91.91
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.86
KOG1258	577	consensus mRNA processing protein [RNA processing	91.71
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.35
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.11
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.01
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.89
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.8
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.79
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.74
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	90.5
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	90.44
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.37
KOG2471	696	consensus TPR repeat-containing protein [General f	90.29
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.19
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.11
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	89.98
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	89.88
COG1747	711	Uncharacterized N-terminal domain of the transcrip	89.88
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	89.64
PF13762	145	MNE1: Mitochondrial splicing apparatus component	89.58
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.18
PF13929	292	mRNA_stabil: mRNA stabilisation	89.07
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	89.04
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.74
KOG4234	271	consensus TPR repeat-containing protein [General f	88.74
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.3
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.21
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	87.32
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.13
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	86.5
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	86.3
PRK09687	280	putative lyase; Provisional	85.35
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	84.76
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	84.47
KOG1586	288	consensus Protein required for fusion of vesicles	84.44
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	84.41
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	84.39
PF12926	88	MOZART2: Mitotic-spindle organizing gamma-tubulin	83.38
KOG4648	536	consensus Uncharacterized conserved protein, conta	83.29
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.41
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	82.34
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	81.55
PHA02875	413	ankyrin repeat protein; Provisional	81.13
PRK09462	148	fur ferric uptake regulator; Provisional	80.73
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.59
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	80.52
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	80.39

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.6e-59  Score=415.29  Aligned_cols=325  Identities=20%  Similarity=0.300  Sum_probs=316.9

Q ss_pred             ChHHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202            1 MWKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus         1 ~~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      ++++++.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+
T Consensus       456 A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~  535 (1060)
T PLN03218        456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS  535 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            36889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHh--CCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHH
Q 020202           81 KGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSD--KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLE  158 (329)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  158 (329)
                      .|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|++++.+|++.|++++|.++|++|.+.|+.|+..
T Consensus       536 ~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~  615 (1060)
T PLN03218        536 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPE  615 (1060)
T ss_pred             cCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChH
Confidence            99999999999999999999999999999999976  5789999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMF  238 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  238 (329)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|+..+|+.+|.+|+
T Consensus       616 tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~  695 (1060)
T PLN03218        616 VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACS  695 (1060)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHH
Q 020202          239 RRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEK  318 (329)
Q Consensus       239 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  318 (329)
                      +.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+
T Consensus       696 k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~  775 (1060)
T PLN03218        696 NAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD  775 (1060)
T ss_pred             hCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhh
Q 020202          319 IELLEVS  325 (329)
Q Consensus       319 ~~~~~~~  325 (329)
                      +++.|.+
T Consensus       776 l~~~M~k  782 (1060)
T PLN03218        776 LLSQAKE  782 (1060)
T ss_pred             HHHHHHH
Confidence            9998865

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.6e-57  Score=403.27  Aligned_cols=311  Identities=16%  Similarity=0.259  Sum_probs=305.3

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      ||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            78899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHH--cCCccCHHhHHHHHHHHHccCC
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIK--QGFVLDLETFNSLIETICKSGE  172 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~  172 (329)
                      .+|++.|++++|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999986  6789999999999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHH
Q 020202          173 VEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSE  252 (329)
Q Consensus       173 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  252 (329)
                      +++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|..+|++|.+.|+.||..+|+.++.+|++.|++++|.+++++
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          253 MKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       253 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      |.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.|+.+|++.|++++|.++++.|..
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~  747 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR  747 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998865

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

Probab=100.00  E-value=2.6e-52  Score=368.65  Aligned_cols=310  Identities=17%  Similarity=0.262  Sum_probs=224.4

Q ss_pred             hHHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202            2 WKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus         2 ~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      .+++..|.+.|+.||+.+|+.++..|++.|++++|.++|++|.+    ||..+||.++.+|++.|++++|.++|++|.+.
T Consensus       143 ~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~  218 (697)
T PLN03081        143 KAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWED  218 (697)
T ss_pred             HHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            46778888888888888999999999999999999999988864    67888999999999999999999999999887


Q ss_pred             CCccChHHHH-----------------------------------HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHH
Q 020202           82 GFVPDKRTYA-----------------------------------ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRD  126 (329)
Q Consensus        82 ~~~~~~~~~~-----------------------------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  126 (329)
                      |+.||..+|+                                   .++.+|++.|++++|.++|+.|.    .+|..+|+
T Consensus       219 g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n  294 (697)
T PLN03081        219 GSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWN  294 (697)
T ss_pred             CCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHH
Confidence            7777666554                                   44555555555666666665553    24556666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAG  206 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  206 (329)
                      .++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|+.++.+|++.|
T Consensus       295 ~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G  374 (697)
T PLN03081        295 SMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWG  374 (697)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCC
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHH
Q 020202          207 MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLV  286 (329)
Q Consensus       207 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  286 (329)
                      ++++|.++|++|.+    ||..+|+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+
T Consensus       375 ~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~  450 (697)
T PLN03081        375 RMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQ  450 (697)
T ss_pred             CHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHH
Confidence            66666666666642    46667777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHh-CCCCCChhhHHHHHHHHHhCCchhHHHHHHHHH
Q 020202          287 EMTE-MGLTPISRCFDLVTDGLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       287 ~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  323 (329)
                      .|.+ .|+.|+..+|+.++++|++.|++++|.++++.+
T Consensus       451 ~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        451 SMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             HHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC
Confidence            7764 567777777777777777777777777766543

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

Probab=100.00  E-value=5.2e-51  Score=360.38  Aligned_cols=304  Identities=18%  Similarity=0.271  Sum_probs=218.1

Q ss_pred             hhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChH
Q 020202            9 KPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKR   88 (329)
Q Consensus         9 ~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   88 (329)
                      .+.|+.||..+|+.|+..|++.|++++|.++|+.|..    +|..+||.++.+|++.|++++|.++|++|.+.|+.||..
T Consensus       251 ~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~  326 (697)
T PLN03081        251 LKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQF  326 (697)
T ss_pred             HHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            3344444555556666777777777777777777643    456777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                      ||+.++.+|++.|++++|.++++.|.+.|++|+..+++.++.+|++.|++++|.++|++|.+    ||..+|+.++.+|+
T Consensus       327 t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~  402 (697)
T PLN03081        327 TFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYG  402 (697)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777777777777653    46677777777777


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCChhhHHHHHHHHHccCChhHHH
Q 020202          169 KSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE-DGHKPFPSLYAPIIKGMFRRGQFDDAF  247 (329)
Q Consensus       169 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~  247 (329)
                      +.|+.++|.++|++|.+.|+.||..||+.++.+|++.|..++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~  482 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY  482 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHH
Confidence            7777777777777777777777777777777777777777777777777764 467777777777777777777777777


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          248 CFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTP-ISRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      +++++|   +..|+..+|+.++.+|...|+++.|..+++++.+.  .| +..+|..|+..|.+.|++++|.++++.|.+
T Consensus       483 ~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~  556 (697)
T PLN03081        483 AMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR  556 (697)
T ss_pred             HHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            776654   35677777777777777777777777777776543  33 356777777777777777777777777654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.9e-50  Score=361.98  Aligned_cols=314  Identities=17%  Similarity=0.213  Sum_probs=228.5

Q ss_pred             hHHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202            2 WKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus         2 ~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      +++|++|.+.|+.||..+|+.++.+|++.|+.+.|.+++..+.+.|+.||..+||.|+.+|++.|++++|.++|++|.  
T Consensus       273 l~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~--  350 (857)
T PLN03077        273 LELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME--  350 (857)
T ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC--
Confidence            466777777777777777777777777777777777777777777777777777777777777777777777776664  


Q ss_pred             CCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHH
Q 020202           82 GFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFN  161 (329)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  161 (329)
                        .||..+|+.++.+|.+.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+
T Consensus       351 --~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n  428 (857)
T PLN03077        351 --TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVAN  428 (857)
T ss_pred             --CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHH
Confidence              346666777777777777777777777777666666777777777777766666666666666666666666666666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh---------------------
Q 020202          162 SLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE---------------------  220 (329)
Q Consensus       162 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------------------  220 (329)
                      .++.+|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|..+|++|..                     
T Consensus       429 ~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~  504 (857)
T PLN03077        429 ALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGA  504 (857)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhch
Confidence            666666666666666666666543    3344444444444444444444444444432                     


Q ss_pred             -------------CCC------------------------------CCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 020202          221 -------------DGH------------------------------KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG  257 (329)
Q Consensus       221 -------------~~~------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  257 (329)
                                   .|+                              .||..+|+.+|.+|++.|+.++|.++|++|.+.|
T Consensus       505 l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g  584 (857)
T PLN03077        505 LMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESG  584 (857)
T ss_pred             HHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence                         111                              3456677888888888999999999999999999


Q ss_pred             CCCChhhHHHHHHHHhccCCHHHHHHHHHHHH-hCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHH
Q 020202          258 HPPNRPVYTMLITMCGRGGRFVEAANYLVEMT-EMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  323 (329)
                      +.||..||+.++.+|.+.|++++|.++|+.|. +.|+.|+..+|+.++++|.+.|++++|.++++.|
T Consensus       585 ~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        585 VNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             CCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            99999999999999999999999999999998 6889999999999999999999999999998876

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5e-50  Score=361.95  Aligned_cols=315  Identities=17%  Similarity=0.159  Sum_probs=220.5

Q ss_pred             HhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc
Q 020202            5 IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV   84 (329)
Q Consensus         5 ~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   84 (329)
                      +..|.+.|+.||+.+|+.|+.+|++.|++++|.++|+.|..    ||..+||++|.+|++.|++++|+++|.+|.+.|+.
T Consensus       210 ~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~  285 (857)
T PLN03077        210 HAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVD  285 (857)
T ss_pred             HHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            33444444445555556667777777777777777777753    45677777777777777777777777777777777


Q ss_pred             cChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHH
Q 020202           85 PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLI  164 (329)
Q Consensus        85 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  164 (329)
                      ||..||+.++.+|++.|+.+.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .||..+|+.++
T Consensus       286 Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li  361 (857)
T PLN03077        286 PDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMI  361 (857)
T ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHH
Confidence            77777777777777777777777777777777777777666666666666666666666666664    24556666666


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChh
Q 020202          165 ETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFD  244 (329)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  244 (329)
                      .+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|+.+|++.|+++
T Consensus       362 ~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~  441 (857)
T PLN03077        362 SGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCID  441 (857)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHH
Confidence            66666666666666666666666666666666666666666666666666666665555555555555555555555555


Q ss_pred             HHHHHHHHHHHc------------------------------CC------------------------------------
Q 020202          245 DAFCFFSEMKIK------------------------------GH------------------------------------  258 (329)
Q Consensus       245 ~a~~~~~~~~~~------------------------------~~------------------------------------  258 (329)
                      +|.++|++|.+.                              ++                                    
T Consensus       442 ~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~  521 (857)
T PLN03077        442 KALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIG  521 (857)
T ss_pred             HHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCC
Confidence            555544443221                              23                                    


Q ss_pred             -----------------------------CCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 020202          259 -----------------------------PPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKN  309 (329)
Q Consensus       259 -----------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  309 (329)
                                                   .||..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+
T Consensus       522 ~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~  601 (857)
T PLN03077        522 FDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR  601 (857)
T ss_pred             ccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhh
Confidence                                         345566788888889999999999999999999999999999999999999


Q ss_pred             CCchhHHHHHHHHHhhhc
Q 020202          310 CGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       310 ~g~~~~a~~~~~~~~~~~  327 (329)
                      .|.+++|.++++.|.+..
T Consensus       602 ~g~v~ea~~~f~~M~~~~  619 (857)
T PLN03077        602 SGMVTQGLEYFHSMEEKY  619 (857)
T ss_pred             cChHHHHHHHHHHHHHHh
Confidence            999999999999987543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.95  E-value=3.4e-24  Score=178.66  Aligned_cols=296  Identities=13%  Similarity=0.074  Sum_probs=247.8

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC---hHHHHHHHHHHHh
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD---KRTYAILVNAWCS   99 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~   99 (329)
                      ....+...|++++|...|+++.+.+ |.+..++..+...+...|++++|..+++.+...+..++   ..++..+...+..
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            3445678899999999999999886 67788999999999999999999999999987542222   2567888999999


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCH----HhHHHHHHHHHccCCHHH
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDL----ETFNSLIETICKSGEVEF  175 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~  175 (329)
                      .|++++|..+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++
T Consensus       120 ~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  198 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDA  198 (389)
T ss_pred             CCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHH
Confidence            999999999999998764 456788999999999999999999999999887544322    245567778889999999


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          176 CVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       176 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      |...++++.+... .+...+..+...+.+.|++++|.++++++.+.+......+++.++.+|...|++++|...++++.+
T Consensus       199 A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        199 ARALLKKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999987653 346678888899999999999999999998764433356788899999999999999999999987


Q ss_pred             cCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh---CCchhHHHHHHHHHhh
Q 020202          256 KGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKN---CGKHDLAEKIELLEVS  325 (329)
Q Consensus       256 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~  325 (329)
                      .  .|+...+..++..+.+.|++++|..+++++.+.  .|+...+..++..+..   .|+.+++..+++.+.+
T Consensus       278 ~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        278 E--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             h--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHH
Confidence            6  467777788999999999999999999998875  5888888888887764   5688898888776654

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

Probab=99.95  E-value=1.1e-23  Score=193.97  Aligned_cols=301  Identities=14%  Similarity=0.060  Sum_probs=215.7

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      +.++..|..+...+...|++++|...|+.+.+.+ +.+...+..+..++...|++++|...|+++.+.. +.+..++..+
T Consensus       598 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  675 (899)
T TIGR02917       598 PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGL  675 (899)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            4456666666666666677777777666666554 4556666666666666677777777776666543 2245566666


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      ...+...|++++|.++++.+.+.. +.+...+..+...+...|++++|.+.++++...+  |+..++..+..++.+.|++
T Consensus       676 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~  752 (899)
T TIGR02917       676 AQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNT  752 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCH
Confidence            677777777777777777766654 4455666667777777777777777777777663  3345666677777777777


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHH
Q 020202          174 EFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEM  253 (329)
Q Consensus       174 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  253 (329)
                      ++|.+.++.+.+..+ .+...+..+...|...|++++|...|+++.+..+ .+..+++.+...+...|+ ++|+..++++
T Consensus       753 ~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~-~~A~~~~~~~  829 (899)
T TIGR02917       753 AEAVKTLEAWLKTHP-NDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAP-DNAVVLNNLAWLYLELKD-PRALEYAEKA  829 (899)
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCc-HHHHHHHHHH
Confidence            777777777776543 5666777777788888888888888888777643 366777778888888888 7788888887


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          254 KIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       254 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      .... +.+..++..+...+...|++++|.++++++.+.+.. +..++..+..++.+.|++++|.++++.+.
T Consensus       830 ~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       830 LKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7652 335566777788888889999999999999887643 78888889999999999999999888764

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=8.4e-24  Score=176.31  Aligned_cols=290  Identities=15%  Similarity=0.103  Sum_probs=240.6

Q ss_pred             hHHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCc---cHHHHHHHHHHHHhcchHHHHHHHHHHH
Q 020202            2 WKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQ---CVLLYNSLLFALCEVKLFHGAYALIRRM   78 (329)
Q Consensus         2 ~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~   78 (329)
                      .+.|+.+.+.+ +.+..++..+...+...|++++|..+++.+......+   ....+..+...|.+.|++++|..+|+++
T Consensus        55 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~  133 (389)
T PRK11788         55 IDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQL  133 (389)
T ss_pred             HHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            45677777664 4567889999999999999999999999998754222   1356888999999999999999999999


Q ss_pred             HHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC----cccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc
Q 020202           79 IRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPP----VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV  154 (329)
Q Consensus        79 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (329)
                      .+.. +++..++..++..+...|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|.+.++++.+... 
T Consensus       134 l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-  211 (389)
T PRK11788        134 VDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADP-  211 (389)
T ss_pred             HcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCc-
Confidence            8763 34678899999999999999999999999987652221    12345677788899999999999999988743 


Q ss_pred             cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 020202          155 LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPII  234 (329)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  234 (329)
                      .+...+..+...+.+.|++++|.+.++++...++.....++..++.+|...|++++|...++++.+..  |+...+..++
T Consensus       212 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la  289 (389)
T PRK11788        212 QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALA  289 (389)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHH
Confidence            25667888889999999999999999999876543345678899999999999999999999998864  5666678899


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhc---cCCHHHHHHHHHHHHhCCCCCChh
Q 020202          235 KGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGR---GGRFVEAANYLVEMTEMGLTPISR  298 (329)
Q Consensus       235 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~  298 (329)
                      ..+.+.|++++|..+++++.+.  .|+..+++.++..+..   .|+.+++..++++|.+.++.|++.
T Consensus       290 ~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        290 QLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999998876  6888899988887664   568999999999999877777655

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

Probab=99.94  E-value=1.4e-22  Score=186.72  Aligned_cols=304  Identities=14%  Similarity=0.054  Sum_probs=165.1

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      +.++.++..+...+...|++++|.+.|+++.+.+ +.+...+..+...+...|++++|.+.++++...+. .+..++..+
T Consensus       462 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l  539 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDP-KNLRAILAL  539 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHH
Confidence            4566677777777777777777777777776654 45556666666666666777777777766665432 245555556


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      ...+.+.|+.++|..+++++...+ +.+...+..++..+.+.|++++|..+++++.+.. +.+...|..+..++...|++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH
Confidence            666666666666666666554443 3334444455555555555555555555555432 22444555555555555555


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC------------------------------
Q 020202          174 EFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH------------------------------  223 (329)
Q Consensus       174 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------------------------------  223 (329)
                      ++|...|+.+.+..+ .+...+..+..++.+.|++++|...++++.+...                              
T Consensus       618 ~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  696 (899)
T TIGR02917       618 NKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQ  696 (899)
T ss_pred             HHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555555544322 2334444455555555555555555555444321                              


Q ss_pred             ---CCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhH
Q 020202          224 ---KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF  300 (329)
Q Consensus       224 ---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  300 (329)
                         +.+...+..+...+...|++++|...++.+...  .|+..++..+..++.+.|++++|.+.++.+.+.. +.+...+
T Consensus       697 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~  773 (899)
T TIGR02917       697 KQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLR  773 (899)
T ss_pred             hhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence               123334444444455555555555555554443  2333444445555555555555555555555432 2345555


Q ss_pred             HHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          301 DLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       301 ~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      ..+...|...|++++|.+.++....
T Consensus       774 ~~la~~~~~~g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       774 TALAELYLAQKDYDKAIKHYRTVVK  798 (899)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            5555556666666666666555544

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=2e-20  Score=163.73  Aligned_cols=306  Identities=15%  Similarity=0.094  Sum_probs=250.6

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      +-++..+..++......|++++|.+.|+++.... |.+...+..+...+...|++++|...++++.... +.+...+..+
T Consensus        73 p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~l  150 (656)
T PRK15174         73 KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALH  150 (656)
T ss_pred             CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            4456667777788888999999999999999887 7788899999999999999999999999998763 3356788889


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      ..++...|++++|...++.+.... +.+...+..+ ..+...|++++|...++.+.+....++......+..++...|++
T Consensus       151 a~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~  228 (656)
T PRK15174        151 LRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKY  228 (656)
T ss_pred             HHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCH
Confidence            999999999999999999887654 2333334333 35788999999999999988775444555556667888999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHH
Q 020202          174 EFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDE----AFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCF  249 (329)
Q Consensus       174 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  249 (329)
                      ++|...+++.....+ .+...+..+...+...|++++    |...++++.+..+. +...+..+...+...|++++|...
T Consensus       229 ~eA~~~~~~al~~~p-~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~  306 (656)
T PRK15174        229 QEAIQTGESALARGL-DGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPL  306 (656)
T ss_pred             HHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999988754 457788889999999999985    89999999886533 677889999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          250 FSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPIS-RCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      +++..... +.+...+..+..++.+.|++++|...++.+.+..  |+. ..+..+..++...|++++|.+.++...+.++
T Consensus       307 l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        307 LQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            99998863 3356677888899999999999999999998754  443 3444567789999999999999998776653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=2e-19  Score=157.47  Aligned_cols=300  Identities=8%  Similarity=0.009  Sum_probs=248.9

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      ...++..+.+.|++++|..+++...... |-+...+..++.+....|++++|...++++....+ .+...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P-~~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNV-CQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHH
Confidence            4456677889999999999999998876 66677788888888899999999999999998743 366788889999999


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHH
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM  179 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  179 (329)
                      .|++++|...+++..+.. +.+...+..+...+...|++++|...++.+...... +...+..+ ..+...|++++|...
T Consensus       123 ~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~  199 (656)
T PRK15174        123 SKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDL  199 (656)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHH
Confidence            999999999999998864 456778888999999999999999999988776443 33334333 347889999999999


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhH----HHHHHHHHHH
Q 020202          180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDD----AFCFFSEMKI  255 (329)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~  255 (329)
                      ++.+.+....++...+..+..++...|++++|...++++.+.... +...+..+...+...|++++    |...+++...
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~  278 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ  278 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh
Confidence            999887654455555666678889999999999999999887533 57778889999999999986    8999999987


Q ss_pred             cCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          256 KGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       256 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      .. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++.+.|++++|.+.++......
T Consensus       279 l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~  348 (656)
T PRK15174        279 FN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK  348 (656)
T ss_pred             hC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            63 4467788999999999999999999999998764 2346678888999999999999999988776543

>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=99.89  E-value=1.7e-18  Score=151.90  Aligned_cols=309  Identities=15%  Similarity=0.055  Sum_probs=208.3

Q ss_pred             CCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHH--------------
Q 020202           13 LSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRM--------------   78 (329)
Q Consensus        13 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------------   78 (329)
                      +.|++..|..+..+|.+.|++++|++.++...+.+ |.+...|..+..++...|++++|+.-|...              
T Consensus       156 ~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~  234 (615)
T TIGR00990       156 CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQA  234 (615)
T ss_pred             cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHH
Confidence            45677788888888888899999998888888776 666777777887887778777776543222              


Q ss_pred             --------------------------------------------------------------------------------
Q 020202           79 --------------------------------------------------------------------------------   78 (329)
Q Consensus        79 --------------------------------------------------------------------------------   78 (329)
                                                                                                      
T Consensus       235 ~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~  314 (615)
T TIGR00990       235 VERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAA  314 (615)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHH
Confidence                                                                                            


Q ss_pred             ------HHcC-Ccc-ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHH
Q 020202           79 ------IRKG-FVP-DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIK  150 (329)
Q Consensus        79 ------~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  150 (329)
                            ...+ ..| ....+..+...+...|++++|+..+++..... +.....|..+...+...|++++|...+++..+
T Consensus       315 ~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  393 (615)
T TIGR00990       315 RAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALK  393 (615)
T ss_pred             HHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                  1111 011 12234444455556677777777777776653 22344666677777777777777777777766


Q ss_pred             cCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhH
Q 020202          151 QGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLY  230 (329)
Q Consensus       151 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  230 (329)
                      .... +..++..+...+...|++++|...|++..+..+ .+...+..+..++.+.|++++|...|++..+... .+...+
T Consensus       394 ~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~  470 (615)
T TIGR00990       394 LNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQYKEGSIASSMATFRRCKKNFP-EAPDVY  470 (615)
T ss_pred             hCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHH
Confidence            6432 566777777777778888888888877776543 3455666777777788888888888887776532 246677


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHHcCCCCChh------hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 020202          231 APIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRP------VYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVT  304 (329)
Q Consensus       231 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  304 (329)
                      +.+...+...|++++|...|++........+..      .++.....+...|++++|.+++++..+.. +.+...+..+.
T Consensus       471 ~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la  549 (615)
T TIGR00990       471 NYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMA  549 (615)
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            777788888888888888888877652211111      11112222334688888888888877654 22345678888


Q ss_pred             HHHHhCCchhHHHHHHHHHhhhc
Q 020202          305 DGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       305 ~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ..+.+.|++++|.+.++...++.
T Consensus       550 ~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       550 QLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHccCHHHHHHHHHHHHHHh
Confidence            89999999999998888776653

>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=99.87  E-value=1e-17  Score=147.11  Aligned_cols=302  Identities=12%  Similarity=0.000  Sum_probs=239.8

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      .+......+.+.|++++|+..|++.....  |+...|..+..+|.+.|++++|++.++...+... .+...+..+..++.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~--p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECK--PDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence            35567788899999999999999998764  6788999999999999999999999999998643 25678888999999


Q ss_pred             hcCchhHHHHHHHHHHhCC-----------------------------CCCCcccHHHHHHH------------------
Q 020202           99 SSGKMREAQEFLQEMSDKG-----------------------------FNPPVRGRDLLVQG------------------  131 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~-----------------------------~~~~~~~~~~l~~~------------------  131 (329)
                      ..|++++|+..+......+                             .+++...+..+...                  
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccc
Confidence            9999999987654432111                             01111111111110                  


Q ss_pred             ------------H------HhcCChHHHHHHHHHHHHcC-Ccc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc
Q 020202          132 ------------L------LNAGYLESAKQMVNKMIKQG-FVL-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCAD  191 (329)
Q Consensus       132 ------------~------~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  191 (329)
                                  .      ...+++++|.+.|++..+.+ ..| ....+..+...+...|++++|...+++.....+ ..
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P-~~  364 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP-RV  364 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-Cc
Confidence                        0      11257889999999988764 223 456788888889999999999999999987643 34


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 020202          192 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITM  271 (329)
Q Consensus       192 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  271 (329)
                      ...|..+...+...|++++|...|+++.+... .+...+..+...+...|++++|...|++..... +.+...+..+..+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~  442 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVT  442 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHH
Confidence            66888889999999999999999999987643 357888999999999999999999999998863 3466778888899


Q ss_pred             HhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          272 CGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       272 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      +.+.|++++|...+++..+.. +.+...+..+..++...|++++|.+.++....+.
T Consensus       443 ~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~  497 (615)
T TIGR00990       443 QYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE  497 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            999999999999999988653 3357889999999999999999999998877764

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.85  E-value=7.1e-17  Score=150.78  Aligned_cols=305  Identities=13%  Similarity=0.063  Sum_probs=158.3

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCc-cHHHHH------------HHHHHHHhcchHHHHHHHHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQ-CVLLYN------------SLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      |-++..+..+...+.+.|++++|...|++..+..... ....|.            .....+.+.|++++|...|+++.+
T Consensus       300 P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~  379 (1157)
T PRK11447        300 PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQ  379 (1157)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3356677777777777777777777777776544111 111111            123345566777777777777776


Q ss_pred             cCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH--------------------------------
Q 020202           81 KGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL--------------------------------  128 (329)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------------------------  128 (329)
                      ... .+...+..+..++...|++++|++.|++..+.. +.+...+..+                                
T Consensus       380 ~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~  457 (1157)
T PRK11447        380 VDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIER  457 (1157)
T ss_pred             hCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            532 245556667777777777777777777776543 2222222222                                


Q ss_pred             ----------HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHH
Q 020202          129 ----------VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKIL  198 (329)
Q Consensus       129 ----------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  198 (329)
                                ...+...|++++|.+.+++..+.... +...+..+...|.+.|++++|...++++.+..+ .+...+..+
T Consensus       458 ~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~  535 (1157)
T PRK11447        458 SLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQKP-NDPEQVYAY  535 (1157)
T ss_pred             HhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHH
Confidence                      22334567777777777777666433 455666677777777777777777777665332 111111111


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC---------------------------------------CCCCChhhHHHHHHHHHc
Q 020202          199 IPAVSKAGMIDEAFRLLHNLVED---------------------------------------GHKPFPSLYAPIIKGMFR  239 (329)
Q Consensus       199 ~~~~~~~~~~~~a~~~~~~~~~~---------------------------------------~~~~~~~~~~~l~~~~~~  239 (329)
                      ...+...++.++|...++.+...                                       ..+.+...+..+...+.+
T Consensus       536 al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~~  615 (1157)
T PRK11447        536 GLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQQ  615 (1157)
T ss_pred             HHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHHH
Confidence            11112222222222222111000                                       011222333444455555


Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHH
Q 020202          240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKI  319 (329)
Q Consensus       240 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  319 (329)
                      .|++++|+..|++..+.. +.+...+..+...+...|++++|.+.++...+.. +.+...+..+..++...|++++|.++
T Consensus       616 ~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~  693 (1157)
T PRK11447        616 RGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRT  693 (1157)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHH
Confidence            555555555555555442 2244455555555555555555555555544321 11233444455555555555555555


Q ss_pred             HHHHh
Q 020202          320 ELLEV  324 (329)
Q Consensus       320 ~~~~~  324 (329)
                      ++...
T Consensus       694 ~~~al  698 (1157)
T PRK11447        694 FNRLI  698 (1157)
T ss_pred             HHHHh
Confidence            55443

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

Probab=99.84  E-value=3.5e-18  Score=139.40  Aligned_cols=306  Identities=13%  Similarity=0.114  Sum_probs=183.6

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHH-HH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTY-AI   92 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~   92 (329)
                      +--.++|..+.+.+...|++++|+..++.+.+.. |..+..|..+..++...|+.+.|.+.|.+.++.  .|+.... +.
T Consensus       113 ~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~  189 (966)
T KOG4626|consen  113 PQGAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSD  189 (966)
T ss_pred             chHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhhcc
Confidence            3346789999999999999999999999999887 778899999999999999999999999888765  3433222 22


Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCC-------------------
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGF-------------------  153 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------------  153 (329)
                      +.......|+.++|...+.+..+.. +--...|+.|.-.+...|+...|++.|++..+...                   
T Consensus       190 lgnLlka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~  268 (966)
T KOG4626|consen  190 LGNLLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIF  268 (966)
T ss_pred             hhHHHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcc
Confidence            2333334455555555554444432 11233444444444444444444444444443311                   


Q ss_pred             -------------cc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 020202          154 -------------VL-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLV  219 (329)
Q Consensus       154 -------------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  219 (329)
                                   .| ....+..+...|...|..+-|+..|++..+..+ .-...|+.|..++-..|+..+|.+.|.+..
T Consensus       269 d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P-~F~~Ay~NlanALkd~G~V~ea~~cYnkaL  347 (966)
T KOG4626|consen  269 DRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQP-NFPDAYNNLANALKDKGSVTEAVDCYNKAL  347 (966)
T ss_pred             hHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCC-CchHHHhHHHHHHHhccchHHHHHHHHHHH
Confidence                         11 233444444445555555555555555554322 124456666666666666666666666655


Q ss_pred             hCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC-hh
Q 020202          220 EDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI-SR  298 (329)
Q Consensus       220 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~  298 (329)
                      ..... .....+.|...|...|.++.|..+|....+. .+--...++.|...|-+.|++++|+..+++.+.  +.|+ ..
T Consensus       348 ~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v-~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAd  423 (966)
T KOG4626|consen  348 RLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEV-FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFAD  423 (966)
T ss_pred             HhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhh-ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHH
Confidence            54221 3445555666666666666666666665553 111234556666666666666666666666653  4455 45


Q ss_pred             hHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          299 CFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       299 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      .|+.+...|...|+.+.|.+-+......++
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nP  453 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINP  453 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCc
Confidence            666666666666666666666666655543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.84  E-value=9.1e-17  Score=150.05  Aligned_cols=300  Identities=11%  Similarity=-0.001  Sum_probs=194.0

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--------cC
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV--------PD   86 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~   86 (329)
                      .++..+..+...+...|++++|.+.|+++.+.. |.+...+..+...+. .++.++|..+++.+......        ..
T Consensus       383 ~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~  460 (1157)
T PRK11447        383 TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQ  460 (1157)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhh
Confidence            345556666667777777777777777766654 444444444444432 22334444443332211000        00


Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHH---
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSL---  163 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---  163 (329)
                      ...+..+...+...|++++|.+.+++..+.. +-+...+..+...|.+.|++++|...++++.+.... +...+..+   
T Consensus       461 ~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~  538 (1157)
T PRK11447        461 NDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLY  538 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHH
Confidence            1122333444555667777777777666653 334455556666667777777777777666654321 22222222   


Q ss_pred             -----------------------------------------HHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 020202          164 -----------------------------------------IETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAV  202 (329)
Q Consensus       164 -----------------------------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  202 (329)
                                                               ...+...|+.++|..+++.     .+.+...+..+...+
T Consensus       539 l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~  613 (1157)
T PRK11447        539 LSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWA  613 (1157)
T ss_pred             HHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHH
Confidence                                                     3334455555555555541     224556677888999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHH
Q 020202          203 SKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAA  282 (329)
Q Consensus       203 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  282 (329)
                      .+.|++++|...|+++.+..+. +...+..++..+...|++++|.+.++.+... -+.+...+..+..++...|++++|.
T Consensus       614 ~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~-~p~~~~~~~~la~~~~~~g~~~eA~  691 (1157)
T PRK11447        614 QQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPAT-ANDSLNTQRRVALAWAALGDTAAAQ  691 (1157)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-CCCChHHHHHHHHHHHhCCCHHHHH
Confidence            9999999999999999987543 6788899999999999999999999988765 2235566777888899999999999


Q ss_pred             HHHHHHHhCCCC--C---ChhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          283 NYLVEMTEMGLT--P---ISRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       283 ~~~~~~~~~~~~--p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      ++++.+......  |   +...+..+...+...|++++|.+.++....
T Consensus       692 ~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        692 RTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999999864322  2   234667778899999999999999887753

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

Probab=99.83  E-value=4.7e-18  Score=138.72  Aligned_cols=314  Identities=14%  Similarity=0.115  Sum_probs=237.6

Q ss_pred             HHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCC---------------------------------Cc
Q 020202            4 TIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNC---------------------------------QQ   50 (329)
Q Consensus         4 ~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------------------------------~~   50 (329)
                      +++.+.+.. +-..+.|-.+..++...|+.+.|.+.|....+.+.                                 |-
T Consensus       138 ~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~  216 (966)
T KOG4626|consen  138 LYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQPC  216 (966)
T ss_pred             HHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHHHHHHhhCCc
Confidence            344444433 23456677777777777777777777776665540                                 11


Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC-hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD-KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      -...|..|...+-.+|+...|++.|++.....  |+ ...|-.|...|...+.+++|...+.+..... +.....+..+.
T Consensus       217 fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla  293 (966)
T KOG4626|consen  217 FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLA  293 (966)
T ss_pred             eeeeehhcchHHhhcchHHHHHHHHHHhhcCC--CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceE
Confidence            12234444445555666666666666665542  22 3456677777777777777777777776553 33455666667


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMID  209 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  209 (329)
                      -.|...|..+-|+..+++..+.... =...|+.|..++-..|++.+|.+.|.+.....+ ......+.|...|...|.++
T Consensus       294 ~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~~~~e  371 (966)
T KOG4626|consen  294 CIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQGKIE  371 (966)
T ss_pred             EEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhccch
Confidence            7778889999999999998887432 367899999999999999999999999987643 34678889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHH
Q 020202          210 EAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR-PVYTMLITMCGRGGRFVEAANYLVEM  288 (329)
Q Consensus       210 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~  288 (329)
                      .|..+|....+-... -...++.|...|-+.|++++|+..+++..+.  .|+. ..|+.+...|-..|+.+.|.+.+.+.
T Consensus       372 ~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rA  448 (966)
T KOG4626|consen  372 EATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRA  448 (966)
T ss_pred             HHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHH
Confidence            999999998875322 3567899999999999999999999999874  5654 68999999999999999999999999


Q ss_pred             HhCCCCCC-hhhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          289 TEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       289 ~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      +..+  |. ...++.|...|..+|...+|+.-++....+++
T Consensus       449 I~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  449 IQIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HhcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            8654  54 67899999999999999999999998887764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.82  E-value=7.9e-16  Score=137.81  Aligned_cols=308  Identities=11%  Similarity=0.064  Sum_probs=181.6

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      +.+...+..+...+...|++++|.++|+...+.. |.+...+..+...+...|++++|...++++.+.. +.+.. +..+
T Consensus        46 ~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~l  122 (765)
T PRK10049         46 QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLAL  122 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHH
Confidence            3445567777777888888888888888877765 5666777777777777888888888888777653 22444 6677


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHH---------------------------
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVN---------------------------  146 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~---------------------------  146 (329)
                      ..++...|+.++|+..++++.+.. +.+...+..+..++...+..+.|++.++                           
T Consensus       123 a~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~  201 (765)
T PRK10049        123 AYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMP  201 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhccc
Confidence            777777788888888887777654 3334444455555555555444443333                           


Q ss_pred             -------------------HHHHc-CCccCHH-hHH----HHHHHHHccCCHHHHHHHHHHHHHcCCC-CchhhHHHHHH
Q 020202          147 -------------------KMIKQ-GFVLDLE-TFN----SLIETICKSGEVEFCVEMYYSVCKLGLC-ADVSTYKILIP  200 (329)
Q Consensus       147 -------------------~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~  200 (329)
                                         .+.+. ...|+.. .+.    ..+..+...|++++|+..|+.+.+.+.. |+. ....+..
T Consensus       202 ~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~  280 (765)
T PRK10049        202 TRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVAS  280 (765)
T ss_pred             ccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHH
Confidence                               22221 1111111 010    0122334556777777777777665431 221 2222455


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-----------CCCh---h
Q 020202          201 AVSKAGMIDEAFRLLHNLVEDGHKP---FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-----------PPNR---P  263 (329)
Q Consensus       201 ~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~---~  263 (329)
                      +|...|++++|...|+++.+.....   .......+..++...|++++|..+++.+.....           .|+.   .
T Consensus       281 ~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~  360 (765)
T PRK10049        281 AYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQ  360 (765)
T ss_pred             HHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHH
Confidence            6777777777777777765542211   123344455566677777777777777665410           1121   2


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      .+..+...+...|++++|+++++++.... +.+...+..+...+...|++++|++.++....++
T Consensus       361 a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~  423 (765)
T PRK10049        361 GQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEVLE  423 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence            33445556666777777777777766543 3345666666666777777777777766665544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.82  E-value=7.6e-16  Score=137.92  Aligned_cols=318  Identities=8%  Similarity=-0.049  Sum_probs=234.9

Q ss_pred             HHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202            3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      ++++...+.. |.++..+..+...+...|++++|+..++++.+.. |.+.. +..+..++...|+.++|+..++++.+..
T Consensus        70 ~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~  146 (765)
T PRK10049         70 TLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA  146 (765)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            3444444333 5567888899999999999999999999998875 67777 8899999999999999999999999874


Q ss_pred             CccChHHHHHHHHHHHhcCchhHHH----------------------------------------------HHHHHHHhC
Q 020202           83 FVPDKRTYAILVNAWCSSGKMREAQ----------------------------------------------EFLQEMSDK  116 (329)
Q Consensus        83 ~~~~~~~~~~l~~~~~~~~~~~~a~----------------------------------------------~~~~~~~~~  116 (329)
                      +. +...+..+..++...+..+.|+                                              +.++.+.+.
T Consensus       147 P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~  225 (765)
T PRK10049        147 PQ-TQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEAL  225 (765)
T ss_pred             CC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhh
Confidence            33 4555555666665555555444                                              334444322


Q ss_pred             -CCCCCcc-cHH----HHHHHHHhcCChHHHHHHHHHHHHcCCc-cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 020202          117 -GFNPPVR-GRD----LLVQGLLNAGYLESAKQMVNKMIKQGFV-LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC  189 (329)
Q Consensus       117 -~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  189 (329)
                       ...|+.. .+.    ..+..+...|++++|+..|+++.+.+.. |+. ....+..+|...|++++|...|+++.+....
T Consensus       226 ~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~  304 (765)
T PRK10049        226 WHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPET  304 (765)
T ss_pred             cccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCC
Confidence             1112211 111    1133456779999999999999987532 322 2233577899999999999999998765432


Q ss_pred             C---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CCC---hhhHHHHHHHHHccCChhHHHHHHHH
Q 020202          190 A---DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH-----------KPF---PSLYAPIIKGMFRRGQFDDAFCFFSE  252 (329)
Q Consensus       190 ~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~  252 (329)
                      .   .......+..++...|++++|..+++.+.+...           .|+   ...+..+...+...|++++|+..+++
T Consensus       305 ~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~  384 (765)
T PRK10049        305 IADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARE  384 (765)
T ss_pred             CCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            1   134566677788999999999999999887532           123   22455677888999999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          253 MKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       253 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      +... .+.+...+..+...+...|++++|++.+++..+.. +-+...+......+.+.|++++|+++++...+..
T Consensus       385 al~~-~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        385 LAYN-APGNQGLRIDYASVLQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             HHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            9876 45577888999999999999999999999998754 2346677778888999999999999998877654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.81  E-value=4.6e-16  Score=121.85  Aligned_cols=308  Identities=17%  Similarity=0.220  Sum_probs=213.9

Q ss_pred             CCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHH
Q 020202           13 LSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAI   92 (329)
Q Consensus        13 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (329)
                      .|-++.+|..+|..+++--..+.|.+++++......+.+..+||.+|.+-.-..    ..+++.+|......||..|+|.
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHH
Confidence            466889999999999999999999999999987777999999999987755432    3788999999999999999999


Q ss_pred             HHHHHHhcCchhH----HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH-HHHHHHHHHH----cCCcc----CHHh
Q 020202           93 LVNAWCSSGKMRE----AQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLES-AKQMVNKMIK----QGFVL----DLET  159 (329)
Q Consensus        93 l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~~~----~~~~  159 (329)
                      ++++..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ |..++.++..    ..+.|    |...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            9999999998765    56788899999999999999999999999888754 4444444443    22222    4455


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcC----CCCc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHH
Q 020202          160 FNSLIETICKSGEVEFCVEMYYSVCKLG----LCAD---VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAP  232 (329)
Q Consensus       160 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  232 (329)
                      |...+..|.+..+.+-|.++..-+....    +.|+   ..-|..+....|.....+.-...|+.|+-.-.-|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            6677778888888887777765553221    1222   12345556666666677777777777776656666676666


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCC-----------------------------------------------------
Q 020202          233 IIKGMFRRGQFDDAFCFFSEMKIKGHP-----------------------------------------------------  259 (329)
Q Consensus       233 l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------------------------------------------------  259 (329)
                      ++++....|.++-.-++|.++...|..                                                     
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~  518 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ  518 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc
Confidence            777666666666666666665554421                                                     


Q ss_pred             -CChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC----CCChhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          260 -PNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGL----TPISRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       260 -~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                       ......+.+.-.+.+.|+.++|.+++..+.+.+-    .|.......+++.-.+......|..+++.+.
T Consensus       519 ~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~  588 (625)
T KOG4422|consen  519 DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLAS  588 (625)
T ss_pred             cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence             1222334444455667777777777766643322    1222333355555566666666666666553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.81  E-value=9.2e-16  Score=127.19  Aligned_cols=284  Identities=10%  Similarity=0.034  Sum_probs=220.5

Q ss_pred             cCchhHHHHHHHHhhhcCCCccHHHHH-HHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHH--HHHHHHHhcCchhHH
Q 020202           30 HGLVDNAVEVFNKCTAFNCQQCVLLYN-SLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYA--ILVNAWCSSGKMREA  106 (329)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  106 (329)
                      .|+++.|.+......+..  +++..+. ....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            599999998888766542  2333333 3345558899999999999999875  45543333  346788899999999


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCH-------HhHHHHHHHHHccCCHHHHHHH
Q 020202          107 QEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDL-------ETFNSLIETICKSGEVEFCVEM  179 (329)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~  179 (329)
                      .+.++.+.+.. |-++.....+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999998876 567788899999999999999999999999988655322       1233334444445566677777


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 020202          180 YYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHP  259 (329)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  259 (329)
                      ++.+.+. .+.++.....+...+...|+.++|..++++..+.  .|+...  .++.+....++.+++.+..+...+. .+
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~-~P  325 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ-HG  325 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh-CC
Confidence            7766443 2357778889999999999999999999998874  344432  2344445669999999999998876 34


Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          260 PNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       260 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      -|...+..+...|.+.+++++|.+.|+...+.  .|+...+..+..++.+.|+.++|.+.++....+
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46677889999999999999999999999975  589999999999999999999999999876543

>TIGR00540 hemY_coli hemY protein

Probab=99.80  E-value=1.5e-15  Score=126.50  Aligned_cols=292  Identities=10%  Similarity=0.017  Sum_probs=214.0

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHH
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      ..|+++.|.+.+....+.. +.....+-....+....|+++.|.+.+.+..+....++..........+...|+++.|..
T Consensus        96 ~~g~~~~A~~~l~~~~~~~-~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA-AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            5799999999998887764 223344455567788899999999999998765323222334445788889999999999


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHH-HHHHHH---HccCCHHHHHHHHHHHH
Q 020202          109 FLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFN-SLIETI---CKSGEVEFCVEMYYSVC  184 (329)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~~  184 (329)
                      .++.+.+.. |-++.....+...+...|++++|.+.+..+.+.+.. +...+. .-..++   ...+..+++.+.+..+.
T Consensus       175 ~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       175 GVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            999999886 557778889999999999999999999999998755 333332 111211   22233333344555554


Q ss_pred             HcCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh-HHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 020202          185 KLGLC---ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSL-YAPIIKGMFRRGQFDDAFCFFSEMKIKGHPP  260 (329)
Q Consensus       185 ~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  260 (329)
                      +..+.   .+...+..+...+...|+.++|.+++++..+......... ...........++.+.+.+.++...+. .+-
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~-~p~  331 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN-VDD  331 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh-CCC
Confidence            43321   3778888999999999999999999999988643322111 111222234457788899999888765 233


Q ss_pred             Ch--hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          261 NR--PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       261 ~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      |+  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++++...
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44  56678899999999999999999964444557898889999999999999999999988753

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.

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

Probab=99.80  E-value=8.4e-19  Score=139.08  Aligned_cols=258  Identities=15%  Similarity=0.155  Sum_probs=61.4

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcC-CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFN-CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      +...+.+.|++++|.++++...... .+.+...|..+.......++++.|.+.++++...+.. +...+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            3455555555555555553332221 1333444444444444555555555555555544322 33344444444 4555


Q ss_pred             chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcC-CccCHHhHHHHHHHHHccCCHHHHHHHH
Q 020202          102 KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG-FVLDLETFNSLIETICKSGEVEFCVEMY  180 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~  180 (329)
                      ++++|.++++...+..  +++..+...+..+.+.++++++.++++.+.... ...+...|..+...+.+.|+.++|.+.+
T Consensus        92 ~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5555555554443322  333444445555555555555555555544321 1223444444445555555555555555


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 020202          181 YSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPP  260 (329)
Q Consensus       181 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  260 (329)
                      ++..+..+ .|......++..+...|+.+++..++....+.. +.++..+..+..++...|+.++|..++++.... .+.
T Consensus       170 ~~al~~~P-~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~p~  246 (280)
T PF13429_consen  170 RKALELDP-DDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-NPD  246 (280)
T ss_dssp             HHHHHH-T-T-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-STT
T ss_pred             HHHHHcCC-CCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc-ccc
Confidence            55544332 233444444444555555555444444444332 223334444455555555555555555554443 122


Q ss_pred             ChhhHHHHHHHHhccCCHHHHHHHHHH
Q 020202          261 NRPVYTMLITMCGRGGRFVEAANYLVE  287 (329)
Q Consensus       261 ~~~~~~~l~~~~~~~~~~~~a~~~~~~  287 (329)
                      |+.....+..++...|+.++|.++.++
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~  273 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQ  273 (280)
T ss_dssp             -HHHHHHHHHHHT--------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            444444455555555555555544443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=8.5e-16  Score=120.41  Aligned_cols=304  Identities=14%  Similarity=0.111  Sum_probs=234.1

Q ss_pred             HHhhhhhCCCCCCHHHHHHHHHHHHccC--chhHH-HHHHHHhhhcC-------------------CCccHHHHHHHHHH
Q 020202            4 TIELMKPYNLSVSPQTLSLIIEEFGKHG--LVDNA-VEVFNKCTAFN-------------------CQQCVLLYNSLLFA   61 (329)
Q Consensus         4 ~~~~m~~~g~~~~~~~~~~l~~~~~~~~--~~~~a-~~~~~~~~~~~-------------------~~~~~~~~~~l~~~   61 (329)
                      +++.|++.|++.++..-..|++.-+-.+  ++.-| .+.|-.|.+.|                   .|.+..++..+|.+
T Consensus       137 lY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~PKT~et~s~mI~G  216 (625)
T KOG4422|consen  137 LYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETLPKTDETVSIMIAG  216 (625)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhcCCCchhHHHHHHH
Confidence            5788999999999988777766544222  22111 12222222221                   35677899999999


Q ss_pred             HHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH-
Q 020202           62 LCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLES-  140 (329)
Q Consensus        62 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-  140 (329)
                      +++--..+.|.++|++-.....+.+..+||.+|.+..-..+    .+++.+|.+..+.||..|+|+++++..+.|+++. 
T Consensus       217 l~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~a  292 (625)
T KOG4422|consen  217 LCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDA  292 (625)
T ss_pred             HHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHH
Confidence            99999999999999999888778899999999977554333    6788999999999999999999999999998765 


Q ss_pred             ---HHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHH-HHHHHHHHHHc----CCCC----chhhHHHHHHHHHhcCCH
Q 020202          141 ---AKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEF-CVEMYYSVCKL----GLCA----DVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       141 ---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~~~----~~~~~~~l~~~~~~~~~~  208 (329)
                         |.+++.+|++.|+.|...+|..++..+++.++..+ +..++.++...    ..+|    |...|...+..|.+..+.
T Consensus       293 r~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~  372 (625)
T KOG4422|consen  293 RKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDL  372 (625)
T ss_pred             HHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhH
Confidence               55778889999999999999999999999888644 55555555432    2222    455677888899999999


Q ss_pred             HHHHHHHHHHHhC----CCCCC---hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHH
Q 020202          209 DEAFRLLHNLVED----GHKPF---PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEA  281 (329)
Q Consensus       209 ~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  281 (329)
                      +.|.++..-+...    -+.|+   ..-|..+....++....+.-...|+.|...-.-|+..+...++++....|+++-.
T Consensus       373 ~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~i  452 (625)
T KOG4422|consen  373 ELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVI  452 (625)
T ss_pred             HHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhH
Confidence            9999887766533    11222   2246667777888888999999999999887889999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhCC
Q 020202          282 ANYLVEMTEMGLTPISRCFDLVTDGLKNCG  311 (329)
Q Consensus       282 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  311 (329)
                      .++|.+++..|...+...-..++..+++..
T Consensus       453 pRiw~D~~~~ght~r~~l~eeil~~L~~~k  482 (625)
T KOG4422|consen  453 PRIWKDSKEYGHTFRSDLREEILMLLARDK  482 (625)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHhcCC
Confidence            999999998886666666666666666655

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

Probab=99.79  E-value=1.4e-18  Score=137.78  Aligned_cols=260  Identities=18%  Similarity=0.184  Sum_probs=115.6

Q ss_pred             HHHHHHHhcchHHHHHHHHHHHHHcC-CccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 020202           57 SLLFALCEVKLFHGAYALIRRMIRKG-FVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNA  135 (329)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  135 (329)
                      .+...+.+.|++++|++++.+..... .+.|...|..+...+...++++.|.+.++++...+ +-++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            56888999999999999997655443 23355566667778888999999999999998876 3356677777777 799


Q ss_pred             CChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCchhhHHHHHHHHHhcCCHHHHHHH
Q 020202          136 GYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-LCADVSTYKILIPAVSKAGMIDEAFRL  214 (329)
Q Consensus       136 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  214 (329)
                      +++++|.+++.+..+..  +++..+..++..+...++++++.++++.+.... ...+...|..+...+.+.|+.++|...
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999998877653  466778888899999999999999999987543 345777888999999999999999999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC
Q 020202          215 LHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLT  294 (329)
Q Consensus       215 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  294 (329)
                      +++..+..+. |......++..+...|+.+++..+++...... +.|+..+..+..++...|+.++|..++++..+.. +
T Consensus       169 ~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p  245 (280)
T PF13429_consen  169 YRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-P  245 (280)
T ss_dssp             HHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-c
Confidence            9999987533 57788899999999999999999998887763 5577788899999999999999999999988754 4


Q ss_pred             CChhhHHHHHHHHHhCCchhHHHHHHHHH
Q 020202          295 PISRCFDLVTDGLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       295 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  323 (329)
                      .|......+.+++...|+.++|.++++..
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             T-HHHHHHHHHHHT---------------
T ss_pred             ccccccccccccccccccccccccccccc
Confidence            47889999999999999999999997654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=2.2e-14  Score=126.97  Aligned_cols=302  Identities=11%  Similarity=0.014  Sum_probs=181.3

Q ss_pred             HHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhc
Q 020202           21 SLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSS  100 (329)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  100 (329)
                      ..+...+...|++++|+++|+++.+.. |.++..+..++..+...++.++|++.++++...  .|+...+..++..+...
T Consensus       106 lalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~  182 (822)
T PRK14574        106 ASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRAT  182 (822)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhc
Confidence            333556777788888888888887776 666777777777777788888888888777665  34444454444444445


Q ss_pred             CchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHH-----------------------------------
Q 020202          101 GKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMV-----------------------------------  145 (329)
Q Consensus       101 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~-----------------------------------  145 (329)
                      ++..+|++.++++.+.. |.+...+..+..++.+.|-...|.++.                                   
T Consensus       183 ~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~  261 (822)
T PRK14574        183 DRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSET  261 (822)
T ss_pred             chHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccch
Confidence            55555777777777654 334444444444444444322222222                                   


Q ss_pred             -------------HHHHHc-CCccCH-Hh----HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 020202          146 -------------NKMIKQ-GFVLDL-ET----FNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAG  206 (329)
Q Consensus       146 -------------~~~~~~-~~~~~~-~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  206 (329)
                                   +.+... +..|.. ..    ..-.+-++...++..++++.|+.+...+.+....+-..+..+|...+
T Consensus       262 ~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~  341 (822)
T PRK14574        262 ERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRR  341 (822)
T ss_pred             hhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcC
Confidence                         222211 111211 11    11233455667777777777777776665444556677777777777


Q ss_pred             CHHHHHHHHHHHHhCCC-----CCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-----------CCCh---hhHHH
Q 020202          207 MIDEAFRLLHNLVEDGH-----KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-----------PPNR---PVYTM  267 (329)
Q Consensus       207 ~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~---~~~~~  267 (329)
                      ++++|+.+|+.+.....     .++......|.-++...+++++|..+++.+.+...           .||.   ..+..
T Consensus       342 ~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l  421 (822)
T PRK14574        342 LPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTL  421 (822)
T ss_pred             CcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHH
Confidence            77777777777755321     22233345677777777777777777777766311           1222   12333


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          268 LITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       268 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ++..+.-.|+..+|++.++++.... +-|......+.+.+...|.+.+|++.++....+.
T Consensus       422 ~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~  480 (822)
T PRK14574        422 LVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESLA  480 (822)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC
Confidence            4555667777777777777776543 3466677777777777777777777776655443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.76  E-value=5.1e-14  Score=124.63  Aligned_cols=300  Identities=13%  Similarity=0.043  Sum_probs=209.0

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      .++..+...|+.++|+..+++..... +........+...+...|++++|+++|+++.+.... +...+..++..+...+
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcC
Confidence            77777778888888888888887322 233334444466788888888888888888877533 4666677778888888


Q ss_pred             chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHH--
Q 020202          102 KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM--  179 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~--  179 (329)
                      +.++|++.++.+....  |+...+..++..+...++..+|++.++++.+.... +...+..+..++.+.|-...|.++  
T Consensus       151 q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        151 RGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             CHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            8888888888887653  55445544444444456666688888888887432 455555555555554433333322  


Q ss_pred             ----------------------------------------------HHHHHHc-CCCCch-h----hHHHHHHHHHhcCC
Q 020202          180 ----------------------------------------------YYSVCKL-GLCADV-S----TYKILIPAVSKAGM  207 (329)
Q Consensus       180 ----------------------------------------------~~~~~~~-~~~~~~-~----~~~~l~~~~~~~~~  207 (329)
                                                                    ++.+... +..|.. .    ...-.+-++...++
T Consensus       228 ~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r  307 (822)
T PRK14574        228 ENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQ  307 (822)
T ss_pred             hCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhh
Confidence                                                          2222221 111221 1    12234456778899


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC-----CCCChhhHHHHHHHHhccCCHHHHH
Q 020202          208 IDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG-----HPPNRPVYTMLITMCGRGGRFVEAA  282 (329)
Q Consensus       208 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~  282 (329)
                      ..++++.|+.+...+.+....+-..+..+|...+++++|..+++.+....     .+++......|.-++...+++++|.
T Consensus       308 ~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~  387 (822)
T PRK14574        308 TADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAY  387 (822)
T ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHH
Confidence            99999999999988765456678889999999999999999999987643     2334444678999999999999999


Q ss_pred             HHHHHHHhCCC-----------CCC---hhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          283 NYLVEMTEMGL-----------TPI---SRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       283 ~~~~~~~~~~~-----------~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      .+++.+.+...           .|+   ...+..++..+...|+..+|++.++.....
T Consensus       388 ~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~  445 (822)
T PRK14574        388 QFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST  445 (822)
T ss_pred             HHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999987322           233   335566778889999999999998887654

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

Probab=99.75  E-value=2.1e-15  Score=124.27  Aligned_cols=286  Identities=16%  Similarity=0.069  Sum_probs=225.2

Q ss_pred             chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC--CccChHHHHHHHHHHHhcCchhHHHHH
Q 020202           32 LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG--FVPDKRTYAILVNAWCSSGKMREAQEF  109 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~  109 (329)
                      +..+|+..|..+...- ..+..+...+.++|...+++++|.++|+.+.+..  ..-+..+|.+.+--+.+.    -++..
T Consensus       334 ~~~~A~~~~~klp~h~-~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHH-YNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHhc-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHH
Confidence            5678999999965543 5566788889999999999999999999998763  122566777776554332    22333


Q ss_pred             H-HHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          110 L-QEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       110 ~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      + +.+.+.. +-.+.+|-++.++|.-.++.+.|++.|++..+.+.. ...+|+.+..-+....++|.|...|+......+
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            3 3333333 567889999999999999999999999999987433 678888888888999999999999998876332


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 020202          189 CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTML  268 (329)
Q Consensus       189 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  268 (329)
                       .+-..|-.+...|.+.++++.|+-.|+.+.+.++. +......+...+.+.|+.++|+++++++.....+ |+-.--.-
T Consensus       487 -rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~  563 (638)
T KOG1126|consen  487 -RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHR  563 (638)
T ss_pred             -hhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHH
Confidence             23445556778899999999999999999887654 6677777888899999999999999999876443 55555556


Q ss_pred             HHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          269 ITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       269 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      +..+...+++++|+..++++.+.- +-+...|..+...|.+.|..+.|..-+-.+..+++
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~v-P~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELV-PQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            677788899999999999998753 33577889999999999999999988888777764

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.75  E-value=1.4e-13  Score=124.31  Aligned_cols=303  Identities=13%  Similarity=0.029  Sum_probs=210.8

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhc--CCCccHHHHHHHHHHHHhcch---HHHHHHH---------------
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAF--NCQQCVLLYNSLLFALCEVKL---FHGAYAL---------------   74 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~---~~~a~~~---------------   74 (329)
                      -+......+.....+.|+.++|.++|+.....  +-..+....+.++..|.+.+.   ..++..+               
T Consensus       374 ~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  453 (987)
T PRK09782        374 ANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQ  453 (987)
T ss_pred             CCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhh
Confidence            35666666666677888888898888887652  112344455566777766654   2223222               


Q ss_pred             -------HHHHHHc-CC-cc--ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHH
Q 020202           75 -------IRRMIRK-GF-VP--DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQ  143 (329)
Q Consensus        75 -------~~~~~~~-~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  143 (329)
                             +...... +. ++  +...|..+..++.. ++.++|...+.+.....  |+......+...+...|++++|..
T Consensus       454 ~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~  530 (987)
T PRK09782        454 LPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALA  530 (987)
T ss_pred             hhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHH
Confidence                   2222211 11 23  55667777777766 77888888777776653  554433344555568899999999


Q ss_pred             HHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 020202          144 MVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH  223 (329)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  223 (329)
                      .++++...  .|+...+..+..++.+.|+.++|...++...+..+ .+...+..+.......|++++|...+++..+.. 
T Consensus       531 ~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P-~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~-  606 (987)
T PRK09782        531 AWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGL-GDNALYWWLHAQRYIPGQPELALNDLTRSLNIA-  606 (987)
T ss_pred             HHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC-
Confidence            98887654  34445566677778888999999999988877653 233333344444455689999999998888753 


Q ss_pred             CCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHH
Q 020202          224 KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLV  303 (329)
Q Consensus       224 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  303 (329)
                       |+...+..+...+.+.|++++|...+++..... +.+...++.+..++...|++++|+..+++..+.. +-+...+..+
T Consensus       607 -P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nL  683 (987)
T PRK09782        607 -PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQL  683 (987)
T ss_pred             -CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence             467788888888899999999999998888763 3466677778888888899999999998888754 2357788888


Q ss_pred             HHHHHhCCchhHHHHHHHHHhhhc
Q 020202          304 TDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       304 ~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ..++...|++++|...++....++
T Consensus       684 A~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        684 AYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC
Confidence            888999999999998888877665

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

Probab=99.75  E-value=1e-13  Score=107.86  Aligned_cols=287  Identities=13%  Similarity=0.101  Sum_probs=230.7

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHH
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      ..|+|.+|.+...+-.+.+ +.....|..-+.+.-+.|+.+.+-.++.+..+..-.++....-...+.....|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            3689999999999887777 444556667777888899999999999998876445566667777888899999999999


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCH-------HhHHHHHHHHHccCCHHHHHHHHH
Q 020202          109 FLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDL-------ETFNSLIETICKSGEVEFCVEMYY  181 (329)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~  181 (329)
                      -++++.+.+ +.++.......++|.+.|++.....++.++.+.|.-.+.       .+|..+++-....+..+.-...++
T Consensus       175 ~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~  253 (400)
T COG3071         175 NVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWK  253 (400)
T ss_pred             HHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            999998876 566788889999999999999999999999998876554       457777777777777776666776


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC
Q 020202          182 SVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPN  261 (329)
Q Consensus       182 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  261 (329)
                      ..... ...++..-..++.-+...|+.++|.++..+..+.+..|+   .. ..-.+.+.++.+.-++..+.-... .+.+
T Consensus       254 ~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~-~~~~~l~~~d~~~l~k~~e~~l~~-h~~~  327 (400)
T COG3071         254 NQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LC-RLIPRLRPGDPEPLIKAAEKWLKQ-HPED  327 (400)
T ss_pred             hccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HH-HHHhhcCCCCchHHHHHHHHHHHh-CCCC
Confidence            66443 335566777888889999999999999999998877665   22 233456778888777777766654 3445


Q ss_pred             hhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          262 RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       262 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      +..+..|...|.+.+.|.+|...|+...+.  .|+..+|..+..++.+.|+..+|.++++....
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            688999999999999999999999987764  58999999999999999999999999877653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.73  E-value=1.3e-13  Score=124.48  Aligned_cols=264  Identities=10%  Similarity=0.002  Sum_probs=208.5

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      +...|..+..++.. +++++|...+.+....  .|+......+...+...|++++|...++++...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            77888888888877 7888899988887765  356554444555667899999999999998654  455556677788


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDE  210 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  210 (329)
                      ++.+.|+.++|...+++..+.... +...+..+.......|++++|...+++..+..  |+...+..+..++.+.|++++
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~de  627 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPA  627 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHH
Confidence            899999999999999999887522 33334444445556699999999999998765  567889999999999999999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          211 AFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       211 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      |...+++..+..+. +...++.+..++...|++++|+..+++..+.. +-+...+..+..++...|++++|...+++..+
T Consensus       628 A~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        628 AVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999999887543 66788888889999999999999999998863 44677889999999999999999999999986


Q ss_pred             CCCCCC-hhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          291 MGLTPI-SRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       291 ~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      ..  |+ ..+.........+..+++.|.+-+.....+
T Consensus       706 l~--P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~  740 (987)
T PRK09782        706 DI--DNQALITPLTPEQNQQRFNFRRLHEEVGRRWTF  740 (987)
T ss_pred             cC--CCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhc
Confidence            54  44 455566666677777788887766655443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.72  E-value=1.1e-13  Score=114.83  Aligned_cols=263  Identities=13%  Similarity=0.093  Sum_probs=205.6

Q ss_pred             HHHHHHH-HHHHHccCchhHHHHHHHHhhhcCCCccHHHHH--HHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           17 PQTLSLI-IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYN--SLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        17 ~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      +..+..+ .....+.|+++.|.+.+.++.+..  |+.....  .....+...|+++.|.+.++++.+..+. +......+
T Consensus       117 p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~-~~~al~ll  193 (398)
T PRK10747        117 PVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPR-HPEVLRLA  193 (398)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHH
Confidence            4444444 455589999999999999998754  5543332  3467888999999999999999987633 67788899


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCc-------ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPV-------RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      ...|.+.|+|++|..++..+.+.+..++.       .+|..++.......+.+...++++.+.+.- +.++.....+...
T Consensus       194 ~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~-~~~~~~~~~~A~~  272 (398)
T PRK10747        194 EQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKT-RHQVALQVAMAEH  272 (398)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHH-hCCHHHHHHHHHH
Confidence            99999999999999999999988643222       123333444444555667777777765542 3477888999999


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHH
Q 020202          167 ICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDA  246 (329)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  246 (329)
                      +...|+.++|.+++++..+..  |+...  .++.+....++.+++.+..+...+..+. |+..+..+...+.+.+++++|
T Consensus       273 l~~~g~~~~A~~~L~~~l~~~--~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~P~-~~~l~l~lgrl~~~~~~~~~A  347 (398)
T PRK10747        273 LIECDDHDTAQQIILDGLKRQ--YDERL--VLLIPRLKTNNPEQLEKVLRQQIKQHGD-TPLLWSTLGQLLMKHGEWQEA  347 (398)
T ss_pred             HHHCCCHHHHHHHHHHHHhcC--CCHHH--HHHHhhccCCChHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999988743  44422  2334444669999999999999877543 667788999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          247 FCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      .+.|+...+.  .|+...+..+...+.+.|+.++|.+++++-..
T Consensus       348 ~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        348 SLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999999985  68999999999999999999999999998654

>TIGR00540 hemY_coli hemY protein

Probab=99.71  E-value=2e-13  Score=113.89  Aligned_cols=274  Identities=13%  Similarity=0.086  Sum_probs=199.6

Q ss_pred             CCCHHH-HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHH
Q 020202           14 SVSPQT-LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAI   92 (329)
Q Consensus        14 ~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (329)
                      .|++.. +-.......+.|+.+.|.+.+.+..+....+.....-.....+...|+++.|...++.+.+..+. +...+..
T Consensus       114 ~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~-~~~~l~l  192 (409)
T TIGR00540       114 AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPR-HKEVLKL  192 (409)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            455443 44556778889999999999999876541222234444688889999999999999999988633 6678889


Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHH-HHHHHH---HhcCChHHHHHHHHHHHHcCC---ccCHHhHHHHHH
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRD-LLVQGL---LNAGYLESAKQMVNKMIKQGF---VLDLETFNSLIE  165 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~  165 (329)
                      +...+...|++++|.+.+..+.+.+.. +...+. .-..++   ...+..++..+.+..+.+...   +.+...+..+..
T Consensus       193 l~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~  271 (409)
T TIGR00540       193 AEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAE  271 (409)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHH
Confidence            999999999999999999999988743 333332 111222   333333333445555554422   137788899999


Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCchhhH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh--hhHHHHHHHHHccCC
Q 020202          166 TICKSGEVEFCVEMYYSVCKLGLCADVSTY-KILIPAVSKAGMIDEAFRLLHNLVEDGHKPFP--SLYAPIIKGMFRRGQ  242 (329)
Q Consensus       166 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~  242 (329)
                      .+...|+.++|.+++++..+..+......+ ..........++.+.+.+.++...+.... |+  ....++...+.+.|+
T Consensus       272 ~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~-~~~~~ll~sLg~l~~~~~~  350 (409)
T TIGR00540       272 HLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD-KPKCCINRALGQLLMKHGE  350 (409)
T ss_pred             HHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHHHccc
Confidence            999999999999999999886542221111 12222233457888899999888776322 44  566788999999999


Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          243 FDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       243 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      +++|.+.|+........|+...+..+...+.+.|+.++|.+++++...
T Consensus       351 ~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       351 FIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999655544578999999999999999999999999998653

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.

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

Probab=99.70  E-value=2.5e-13  Score=102.94  Aligned_cols=272  Identities=14%  Similarity=0.107  Sum_probs=201.1

Q ss_pred             cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC---hHHHHHHHHHHHhcCchhHH
Q 020202           30 HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD---KRTYAILVNAWCSSGKMREA  106 (329)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  106 (329)
                      ..+.++|.+.|-+|.+.+ +.+..+.-+|.+.|-+.|..+.|+.+-+.+.++.--+.   ......|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            567889999999998866 66677777888889999999999999988887521111   12334566778888899999


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCH----HhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          107 QEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDL----ETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      +.+|..+.+.+ ..-......|+..|-...+|++|+++-+++.+.+..+..    ..|.-+...+....+.+.|..++.+
T Consensus       127 E~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            99999988765 334567788899999999999999999988887655432    3455666666778888999999988


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh
Q 020202          183 VCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR  262 (329)
Q Consensus       183 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  262 (329)
                      ..+.+. ..+..-..+.+.....|+++.|.+.++.+.+.+...-+.+...|..+|...|+.++...++..+.+..  ++.
T Consensus       206 Alqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~  282 (389)
T COG2956         206 ALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGA  282 (389)
T ss_pred             HHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCc
Confidence            877653 33444455667888899999999999999888776667788888899999999999999988888763  344


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 020202          263 PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLK  308 (329)
Q Consensus       263 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  308 (329)
                      ..-..+...-....-.+.|..++.+-..+  +|+...+..+++.-.
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l  326 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHL  326 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhh
Confidence            44444444444444456666666655543  588888888887654

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

Probab=99.70  E-value=4.1e-13  Score=114.55  Aligned_cols=300  Identities=13%  Similarity=0.047  Sum_probs=202.4

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      ..-...+.+...|++++|.+++.++++.+ |.+...|..|...|-..|+.+++...+-...... +-|...|..+.....
T Consensus       141 ~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~  218 (895)
T KOG2076|consen  141 QLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSE  218 (895)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            33344445555699999999999999987 8889999999999999999999988775554443 336788999999999


Q ss_pred             hcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhH----HHHHHHHHccCCHH
Q 020202           99 SSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETF----NSLIETICKSGEVE  174 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~  174 (329)
                      +.|+++.|.-+|.+.++.. +++...+---+..|-+.|+...|...|.++.....+.|..-+    ...++.+...++-+
T Consensus       219 ~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             hcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999999999999886 566666667788899999999999999999887543233222    23455566677778


Q ss_pred             HHHHHHHHHHHc-CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------------------------CCC-
Q 020202          175 FCVEMYYSVCKL-GLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG---------------------------HKP-  225 (329)
Q Consensus       175 ~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~~-  225 (329)
                      .|.+.++..... +-..+...++.++..+.+...++.+...........                           ..+ 
T Consensus       298 ~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~  377 (895)
T KOG2076|consen  298 RAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYD  377 (895)
T ss_pred             HHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCcc
Confidence            888887776652 222445566777777777777777766665554410                           011 


Q ss_pred             -----------------------------------ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 020202          226 -----------------------------------FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLIT  270 (329)
Q Consensus       226 -----------------------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  270 (329)
                                                         +...|.-+..++.+.|++.+|+.+|..+......-+...|-.+..
T Consensus       378 l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~  457 (895)
T KOG2076|consen  378 LRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLAR  457 (895)
T ss_pred             chhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHH
Confidence                                               122244455556666666666666666665544344555666666


Q ss_pred             HHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHH
Q 020202          271 MCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELL  322 (329)
Q Consensus       271 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  322 (329)
                      +|...|.+++|.+.++..+... +-+...--.|...+.+.|+.++|.+.++-
T Consensus       458 c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~  508 (895)
T KOG2076|consen  458 CYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQ  508 (895)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhc
Confidence            6666666666666666655432 12233444455555666666666555443

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

Probab=99.70  E-value=1.8e-14  Score=118.92  Aligned_cols=272  Identities=14%  Similarity=0.101  Sum_probs=215.6

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcC--CCccHHHHHHHHHHHHhcchHHHHHHHH-HHHHHcCCccChHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFN--CQQCVLLYNSLLFALCEVKLFHGAYALI-RRMIRKGFVPDKRTY   90 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~   90 (329)
                      .-+..+...+..+|...+++++|.++|+.+.+..  ...+.++|.+.+.-+-+.    -++..+ +.+.... +-.+.+|
T Consensus       350 ~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~Laq~Li~~~-~~sPesW  424 (638)
T KOG1126|consen  350 YNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYLAQDLIDTD-PNSPESW  424 (638)
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHHHHHHHhhC-CCCcHHH
Confidence            3455788899999999999999999999998653  123577888877655432    122222 3333332 3367899


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS  170 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (329)
                      ..+.++|.-+++.+.|++.|++..+.+ +....+|+.+..-+.....+|.|...|+........ +-..|..+...|.+.
T Consensus       425 ca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kq  502 (638)
T KOG1126|consen  425 CALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQ  502 (638)
T ss_pred             HHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheecc
Confidence            999999999999999999999998865 336788888888899999999999999998865322 445566678889999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                      ++++.|+-.|++..+.++ .+.+....+...+.+.|+.++|+++++++...+.+ |+-.--.-+..+...+++++|+..+
T Consensus       503 ek~e~Ae~~fqkA~~INP-~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~L  580 (638)
T KOG1126|consen  503 EKLEFAEFHFQKAVEINP-SNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQEL  580 (638)
T ss_pred             chhhHHHHHHHhhhcCCc-cchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHH
Confidence            999999999999988765 56667777888899999999999999999877654 4444444666788899999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC
Q 020202          251 SEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTP  295 (329)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  295 (329)
                      +++++. ++-+...|..+.+.|.+.|+.+.|+.-|.-+.+...++
T Consensus       581 EeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  581 EELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            999986 55567788899999999999999999998888655443

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

Probab=99.69  E-value=4.1e-13  Score=101.78  Aligned_cols=282  Identities=14%  Similarity=0.097  Sum_probs=214.6

Q ss_pred             hHHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcC-CCcc--HHHHHHHHHHHHhcchHHHHHHHHHHH
Q 020202            2 WKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFN-CQQC--VLLYNSLLFALCEVKLFHGAYALIRRM   78 (329)
Q Consensus         2 ~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~   78 (329)
                      .++|-+|.+.. +-+.++.-+|.+.|.+.|..+.|+++.+.+.++. .+-+  ......|.+-|...|-++.|+++|..+
T Consensus        55 vdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L  133 (389)
T COG2956          55 VDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQL  133 (389)
T ss_pred             HHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            35666776633 4456677889999999999999999999987642 1111  234556778889999999999999999


Q ss_pred             HHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCc----ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc
Q 020202           79 IRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPV----RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV  154 (329)
Q Consensus        79 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (329)
                      .+.+. .-......|+..|....+|++|+.+-+++.+.+-.+..    ..|.-+...+....+.+.|..++.+..+.+..
T Consensus       134 ~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~  212 (389)
T COG2956         134 VDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKK  212 (389)
T ss_pred             hcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc
Confidence            87652 24557888999999999999999999999887633321    23344555556678899999999999887543


Q ss_pred             cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 020202          155 LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPII  234 (329)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  234 (329)
                       .+..-..+.+.....|+++.|.+.++.+.+.++..-..+...|..+|...|+.++....+..+.+....  ...-..+.
T Consensus       213 -cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g--~~~~l~l~  289 (389)
T COG2956         213 -CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTG--ADAELMLA  289 (389)
T ss_pred             -ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCC--ccHHHHHH
Confidence             455556677888999999999999999999887667788999999999999999999999999886443  33334454


Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHh---ccCCHHHHHHHHHHHHh
Q 020202          235 KGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCG---RGGRFVEAANYLVEMTE  290 (329)
Q Consensus       235 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~  290 (329)
                      .......-.+.|...+.+-...  +|+...+..++..-.   ..|+..+-...++.|..
T Consensus       290 ~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         290 DLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             HHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            5444555566777666655554  699999999998765   34567777888888874

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

Probab=99.69  E-value=3.2e-13  Score=107.09  Aligned_cols=288  Identities=12%  Similarity=0.101  Sum_probs=225.4

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--cChHHHHHHHHHHHhcC
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV--PDKRTYAILVNAWCSSG  101 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~  101 (329)
                      ..++....+.+++.+=.+.....|.+.+...-+....+.....++++|+.+|+++.+..+-  -|..+|..++-.-....
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~s  313 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhH
Confidence            3455556677888888888888887777777777777778889999999999999987421  15667777764433322


Q ss_pred             chhHHHHHHHH-HHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHH
Q 020202          102 KMREAQEFLQE-MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMY  180 (329)
Q Consensus       102 ~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  180 (329)
                      ..    .++.+ ....+ +-.+.|+.++.+.|.-.++.++|...|++..+.+.. ....|+.+.+-|....+...|.+-|
T Consensus       314 kL----s~LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sY  387 (559)
T KOG1155|consen  314 KL----SYLAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESY  387 (559)
T ss_pred             HH----HHHHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHH
Confidence            21    12211 11111 234578888999999999999999999999998654 6778999999999999999999999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 020202          181 YSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPP  260 (329)
Q Consensus       181 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  260 (329)
                      +...+-.+ .|-..|-.+.++|.-.+.+.=|+-+|++..+..+. |+..|..|..+|.+.++.++|++.|.+....|-. 
T Consensus       388 RrAvdi~p-~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-  464 (559)
T KOG1155|consen  388 RRAVDINP-RDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-  464 (559)
T ss_pred             HHHHhcCc-hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-
Confidence            99998765 68889999999999999999999999998886433 7899999999999999999999999999887543 


Q ss_pred             ChhhHHHHHHHHhccCCHHHHHHHHHHHHh----CC-CCC-ChhhHHHHHHHHHhCCchhHHHHHH
Q 020202          261 NRPVYTMLITMCGRGGRFVEAANYLVEMTE----MG-LTP-ISRCFDLVTDGLKNCGKHDLAEKIE  320 (329)
Q Consensus       261 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  320 (329)
                      +...+..|.+.|-+.++..+|...+..-++    .| +.| ....-..|...+.+.+++++|....
T Consensus       465 e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya  530 (559)
T KOG1155|consen  465 EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYA  530 (559)
T ss_pred             chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            668899999999999999999998887664    23 223 2334444777788999999987643

>PRK12370 invasion protein regulator; Provisional

Probab=99.66  E-value=7.7e-13  Score=114.56  Aligned_cols=233  Identities=12%  Similarity=0.016  Sum_probs=136.2

Q ss_pred             CccHHHHHHHHHHHHh-----cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH---------hcCchhHHHHHHHHHH
Q 020202           49 QQCVLLYNSLLFALCE-----VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC---------SSGKMREAQEFLQEMS  114 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  114 (329)
                      +.+...|...+++...     .+++++|.+.|++..+..+. +...|..+..++.         ..+++++|...+++..
T Consensus       253 ~~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        253 LNSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CCChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            4455555555544321     23456777777777665322 3344544444333         2234667777777777


Q ss_pred             hCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhh
Q 020202          115 DKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVST  194 (329)
Q Consensus       115 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  194 (329)
                      +.+ +.+...+..+...+...|++++|...+++..+.++. +...+..+..++...|++++|...+++..+..+. +...
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~  408 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAA  408 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-Chhh
Confidence            664 445566666667777777777777777777776432 4556666777777777777777777777765442 2222


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHh
Q 020202          195 YKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPN-RPVYTMLITMCG  273 (329)
Q Consensus       195 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~  273 (329)
                      +..++..+...|++++|...++++.+...+-++..+..+..++...|++++|...+.++...  .|+ ....+.+...|.
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~  486 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYC  486 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHh
Confidence            23333345556777777777777665432223444556666677777777777777766543  223 233344444555


Q ss_pred             ccCCHHHHHHHHHHHH
Q 020202          274 RGGRFVEAANYLVEMT  289 (329)
Q Consensus       274 ~~~~~~~a~~~~~~~~  289 (329)
                      ..|  ++|...++.+.
T Consensus       487 ~~g--~~a~~~l~~ll  500 (553)
T PRK12370        487 QNS--ERALPTIREFL  500 (553)
T ss_pred             ccH--HHHHHHHHHHH
Confidence            555  36666665555

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

Probab=99.65  E-value=3.5e-12  Score=109.00  Aligned_cols=281  Identities=15%  Similarity=0.164  Sum_probs=165.6

Q ss_pred             HHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC
Q 020202            4 TIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF   83 (329)
Q Consensus         4 ~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (329)
                      ++.+..+.. |-.+..|..|...|-..|+.+++...+-.+-..+ |.|...|..+.....+.|.++.|.-.|.+.++.. 
T Consensus       161 i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-  237 (895)
T KOG2076|consen  161 ILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCYSRAIQAN-  237 (895)
T ss_pred             HHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-
Confidence            334444333 4455566666666666666666665555544443 5555666666666666666666666666655543 


Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC----------------------------------------CCCcc
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF----------------------------------------NPPVR  123 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------------------------------------~~~~~  123 (329)
                      +++...+-.-...|-+.|+...|..-|.++.....                                        ..+..
T Consensus       238 p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~e  317 (895)
T KOG2076|consen  238 PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLE  317 (895)
T ss_pred             CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcccccccc
Confidence            22333333344455555555555555555544321                                        12233


Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHHcCCcc---------------------------CHHhHHHHHHHHHccCCHHHH
Q 020202          124 GRDLLVQGLLNAGYLESAKQMVNKMIKQGFVL---------------------------DLETFNSLIETICKSGEVEFC  176 (329)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------~~~~~~~l~~~~~~~~~~~~a  176 (329)
                      .++.++..+.+...++.|.............+                           +..+ --++-++...+..+..
T Consensus       318 d~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~  396 (895)
T KOG2076|consen  318 DLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELL  396 (895)
T ss_pred             HHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhcccccchH
Confidence            34444444444444444444444333311011                           1111 0111122222223333


Q ss_pred             HHHHHHHHHcC--CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          177 VEMYYSVCKLG--LCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       177 ~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      ..+........  +.-+...|.-+..++...|++.+|..+|..+......-+...|-.+..+|...|.+++|.+.|+..+
T Consensus       397 e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl  476 (895)
T KOG2076|consen  397 EALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVL  476 (895)
T ss_pred             HHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33333333333  2234567788889999999999999999999887555567899999999999999999999999999


Q ss_pred             HcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          255 IKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                      .. -+.+...--.|...+.+.|+.++|.+.+..+.
T Consensus       477 ~~-~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  477 IL-APDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             hc-CCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            76 23345555667777889999999999998876

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

Probab=99.65  E-value=9.5e-12  Score=98.95  Aligned_cols=305  Identities=12%  Similarity=0.011  Sum_probs=214.5

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHH-----------------------------HHH
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLL-----------------------------FAL   62 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----------------------------~~~   62 (329)
                      +...|+..+......+.+.|....|...|-.....- |-.=..|-.|.                             .++
T Consensus       159 ~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~  237 (559)
T KOG1155|consen  159 GGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAY  237 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHH
Confidence            445666666667777778888888888887766543 32222222222                             222


Q ss_pred             HhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCCcccHHHHHHHHHhcCChHH
Q 020202           63 CEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF--NPPVRGRDLLVQGLLNAGYLES  140 (329)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~  140 (329)
                      ......+++.+-.+.+...|++-+...-+....+.....|+++|+.+|+++.+...  --|..+|+.++-  .+..+-  
T Consensus       238 ~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LY--v~~~~s--  313 (559)
T KOG1155|consen  238 QELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLY--VKNDKS--  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHH--HHhhhH--
Confidence            23334455555555555555544443334444445556677777777777766530  013344444332  222111  


Q ss_pred             HHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          141 AKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       141 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                      .+..+.+-...--+--+.|+..+.+-|.-.++.++|...|++..+.++ .....|+.+..-|....+...|..-+++.++
T Consensus       314 kLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd  392 (559)
T KOG1155|consen  314 KLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVD  392 (559)
T ss_pred             HHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHh
Confidence            111111111110112345667777888888999999999999998765 4567899999999999999999999999998


Q ss_pred             CCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhH
Q 020202          221 DGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF  300 (329)
Q Consensus       221 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  300 (329)
                      -.+. |-..|-.|.++|.-.+.+.-|+-.|++.... .|.|+..|..|..+|.+.++.++|++.|+.....|- .+...+
T Consensus       393 i~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~-kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l  469 (559)
T KOG1155|consen  393 INPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALEL-KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSAL  469 (559)
T ss_pred             cCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHH
Confidence            7544 7889999999999999999999999999887 456889999999999999999999999999998774 367899


Q ss_pred             HHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          301 DLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       301 ~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      ..|.+.|.+.++.++|...++.-.+
T Consensus       470 ~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  470 VRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999999887665

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

Probab=99.64  E-value=4.1e-14  Score=120.27  Aligned_cols=254  Identities=17%  Similarity=0.188  Sum_probs=174.1

Q ss_pred             HHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202            3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      +++-.+...|+.|+..+|..+|..|+..|+.+.|- +|.-|.-...+.+...++.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            56788999999999999999999999999999998 9999998888899999999999999999887775          


Q ss_pred             CccChHHHHHHHHHHHhcCchhH---HHHHHHHHH----hCCCCCCcccH--------------HHHHHHHHhcCChHHH
Q 020202           83 FVPDKRTYAILVNAWCSSGKMRE---AQEFLQEMS----DKGFNPPVRGR--------------DLLVQGLLNAGYLESA  141 (329)
Q Consensus        83 ~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~----~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a  141 (329)
                       .|...||..|..+|...||...   +.+.+..+.    ..|+......+              ...+....-.|-++.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             6788999999999999998655   333222221    12211111111              1122222333444444


Q ss_pred             HHHHHHHHHcCCccCHHhHHHHHHHHHccC-CHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          142 KQMVNKMIKQGFVLDLETFNSLIETICKSG-EVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                      ++++..+...... .  .+..+++-+.... .+++-..+-....+   .|+..+|..++.+-..+|+.+.|..++.+|.+
T Consensus       159 lkll~~~Pvsa~~-~--p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWN-A--PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHhhCCccccc-c--hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            4444433322111 0  1111233333222 23333333222222   47888888888888888888888888888888


Q ss_pred             CCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 020202          221 DGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGR  277 (329)
Q Consensus       221 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  277 (329)
                      .|++.+...|..++.+   .++...++.+++-|...|+.|+..|+...+..+..+|.
T Consensus       233 ~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  233 KGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             cCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            8888888777777755   77777888888888888888888888888877777554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.62  E-value=1.7e-12  Score=100.47  Aligned_cols=202  Identities=11%  Similarity=0.030  Sum_probs=133.8

Q ss_pred             ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           50 QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            335566667777777777777777777766543 2245566666777777777777777777776654 33455666667


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCc-cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQGFV-LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  208 (329)
                      ..+...|++++|.+.+++..+.... .....+..+..++...|++++|...+.+...... .+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCH
Confidence            7777777777777777777654221 2334556666777777777777777777766543 3455666777777777888


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          209 DEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       209 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      ++|...+++..+. .+.+...+..+...+...|+.++|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8887777777665 233455566666777777777777777766654

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.61  E-value=2.2e-12  Score=99.77  Aligned_cols=199  Identities=17%  Similarity=0.154  Sum_probs=113.5

Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 020202          123 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAV  202 (329)
Q Consensus       123 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  202 (329)
                      ..+..+...+...|++++|.+.+++..+... .+...+..+...+...|++++|.+.+++..+... .+...+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHH
Confidence            3444555555566666666666665554431 1344555555566666666666666666555432 2334555555566


Q ss_pred             HhcCCHHHHHHHHHHHHhCCC-CCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHH
Q 020202          203 SKAGMIDEAFRLLHNLVEDGH-KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEA  281 (329)
Q Consensus       203 ~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  281 (329)
                      ...|++++|...+++...... ......+..+...+...|++++|...+++..... +.+...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHH
Confidence            666666666666666654321 1123344555666666677777777666666542 22345566666666667777777


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          282 ANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       282 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      ...+++..+. .+.+...+..+...+...|+.++|..+.+....
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            7777666654 233455555666666666777777666555443

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.

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

Probab=99.61  E-value=1.6e-12  Score=103.32  Aligned_cols=280  Identities=14%  Similarity=0.121  Sum_probs=207.2

Q ss_pred             HHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh--cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc
Q 020202           25 EEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE--VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK  102 (329)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (329)
                      ..+.+.|+++.|++++.-..+.+-+.....-|.|-..+.-  -+++..|.+.-+..+... .-+......-.+.....|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            3467899999999999988776534333344433333222  346777777766655432 2233333333344556799


Q ss_pred             hhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          103 MREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      +++|...+.+.......-....|| +.-.+...|+.++|++.|-++..- +..+..+...+.+.|-...+..+|++++.+
T Consensus       506 ~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            999999999998764222222333 334567789999999999877653 123677888888999999999999999977


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh
Q 020202          183 VCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR  262 (329)
Q Consensus       183 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  262 (329)
                      .... ++.|+...+.|...|-+.|+..+|.+.+-+--+- ++-+..+...|...|....-+++++..|++..-  +.|+.
T Consensus       584 ~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~  659 (840)
T KOG2003|consen  584 ANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQ  659 (840)
T ss_pred             hccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccH
Confidence            6543 4467888999999999999999999887654332 345778888899999999999999999998764  58999


Q ss_pred             hhHHHHHHHHh-ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCc
Q 020202          263 PVYTMLITMCG-RGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGK  312 (329)
Q Consensus       263 ~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  312 (329)
                      .-|..++..|. +.|++.+|..+++....+ ++.|..+...|++.+...|.
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            99999987765 689999999999998754 67789999999999888774

>PRK12370 invasion protein regulator; Provisional

Probab=99.60  E-value=5.7e-12  Score=109.24  Aligned_cols=268  Identities=10%  Similarity=0.021  Sum_probs=186.5

Q ss_pred             CCHHHHHHHHHHHHc-----cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhc---------chHHHHHHHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGK-----HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEV---------KLFHGAYALIRRMIR   80 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~   80 (329)
                      .+...|...++....     .+++++|...|++..+.+ |.+...|..+..++...         +++++|...+++..+
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            455556566655322     235678999999998877 66677787777766532         347899999999888


Q ss_pred             cCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhH
Q 020202           81 KGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETF  160 (329)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  160 (329)
                      .+.. +...+..+...+...|++++|...+++..+.+ +.+...+..+..++...|++++|...+++..+.... +...+
T Consensus       333 ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~  409 (553)
T PRK12370        333 LDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAG  409 (553)
T ss_pred             cCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhH
Confidence            7533 67788888888889999999999999998875 455677888888999999999999999999887544 23333


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 020202          161 NSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR  240 (329)
Q Consensus       161 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  240 (329)
                      ..++..+...|++++|...+++......+.+...+..+..++...|+.++|...+.++..... .+....+.+...|...
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~-~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEI-TGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccc-hhHHHHHHHHHHHhcc
Confidence            444555666889999999999887654323455577778888899999999999988765422 1334455566667777


Q ss_pred             CChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          241 GQFDDAFCFFSEMKIK-GHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       241 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      |  ++|...++.+.+. ...+....+  +-..+.-.|+.+.+..+ +++.+.+
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            7  4777777776653 112222223  33334445665555555 7776543

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

Probab=99.60  E-value=3.6e-11  Score=93.97  Aligned_cols=270  Identities=12%  Similarity=0.069  Sum_probs=217.4

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      ...|-.-..+.-+.|+.+.+-+.+.+..+..-.++....-+..+.....|+++.|..-+.++.+.+.. ++.......++
T Consensus       118 ~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~  196 (400)
T COG3071         118 VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMTPR-HPEVLRLALRA  196 (400)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHH
Confidence            34566667888899999999999999988633567778888889999999999999999999988654 66788999999


Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCc-------ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPV-------RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK  169 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  169 (329)
                      |.+.|++.....++..+.+.+.-.+.       .+|..+++-....+..+.-...++..... ...++..-..++.-+.+
T Consensus       197 y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~  275 (400)
T COG3071         197 YIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIR  275 (400)
T ss_pred             HHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHH
Confidence            99999999999999999998854443       46777777777777777766777776654 23467777888899999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHH
Q 020202          170 SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCF  249 (329)
Q Consensus       170 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  249 (329)
                      .|+.++|.++..+..+.+..|.    -...-.+.+-++...-.+..+.-.+... -++..+.+|...|.+.+.+.+|...
T Consensus       276 l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~-~~p~L~~tLG~L~~k~~~w~kA~~~  350 (400)
T COG3071         276 LGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHP-EDPLLLSTLGRLALKNKLWGKASEA  350 (400)
T ss_pred             cCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCC-CChhHHHHHHHHHHHhhHHHHHHHH
Confidence            9999999999999998876565    2222345567788777777777655432 2557889999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC
Q 020202          250 FSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTP  295 (329)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  295 (329)
                      |+...+.  .|+..+|+.+.+++.+.|+..+|.++.++....-.+|
T Consensus       351 leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~  394 (400)
T COG3071         351 LEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQP  394 (400)
T ss_pred             HHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCC
Confidence            9977764  7999999999999999999999999998876433333

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

Probab=99.56  E-value=1e-12  Score=99.89  Aligned_cols=229  Identities=13%  Similarity=0.098  Sum_probs=118.0

Q ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 020202           56 NSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNA  135 (329)
Q Consensus        56 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  135 (329)
                      +.+.++|.+.|.+.+|.+.++..+..  .|-+.||..|-+.|.+..+...|+.++.+-.+. .+-++.....+.+.+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            44555555555555555555555543  334445555555555555555555555555443 122222233344555555


Q ss_pred             CChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHH
Q 020202          136 GYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLL  215 (329)
Q Consensus       136 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  215 (329)
                      ++.++|.++++...+.... ++.....+...|.-.++++-|+..|+++.+.|. -++..|+.+.-+|.-.++++-++.-|
T Consensus       304 ~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHH
Confidence            5555555555555544221 344444444455555555555555555555555 44455555555555555555555555


Q ss_pred             HHHHhCCCCCC--hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          216 HNLVEDGHKPF--PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       216 ~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      ++....-..|+  ..+|..+.......|++..|.+.|+-.+..+ ..+...++.|...-.+.|+.++|..+++....
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            55544322222  2344445555555555555555555555442 22444555555555555555555555555443

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

Probab=99.56  E-value=1.1e-12  Score=99.72  Aligned_cols=231  Identities=15%  Similarity=0.060  Sum_probs=197.9

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS  170 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (329)
                      +.+.++|.+.|.+.+|.+.++.....  .|-+.||..|-++|.+..++..|+.++.+-.+.- +-++.......+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHH
Confidence            56889999999999999999988876  4778899999999999999999999999988873 22555555677888889


Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                      ++.++|.++|+...+... .++.....+...|.-.++++-|..+|+++.+.|.. ++..|+.+.-+|.-.++++-++..|
T Consensus       304 ~~~~~a~~lYk~vlk~~~-~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHP-INVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcCC-ccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            999999999999988754 56777778888889999999999999999999976 8899999999999999999999999


Q ss_pred             HHHHHcCCCCC--hhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          251 SEMKIKGHPPN--RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       251 ~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      .+....--.|+  ...|-.+.......||+..|.+.|+-....+ .-+...++.|.-.-.+.|++++|+.++.-..++.
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            99887644344  3568888888889999999999999887655 3357889999988999999999999998877654

>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=99.56  E-value=1.1e-10  Score=98.38  Aligned_cols=297  Identities=15%  Similarity=0.124  Sum_probs=211.1

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      ..-.....+...|++++|++.++.-... +.............+.+.|+.++|..+|..+.+.++. |..-|..+..+..
T Consensus         6 ~lLY~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-n~~Yy~~L~~~~g   83 (517)
T PF12569_consen    6 LLLYKNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-NYDYYRGLEEALG   83 (517)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHh
Confidence            3344456778899999999999886554 3555677788899999999999999999999998532 4445555555552


Q ss_pred             hc-----CchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC
Q 020202           99 SS-----GKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL-ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE  172 (329)
Q Consensus        99 ~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  172 (329)
                      ..     .+.+...++++++...-  |.......+.-.+.....+ ..+...+..+...|++   .+|+.+-..|.....
T Consensus        84 ~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K  158 (517)
T PF12569_consen   84 LQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEK  158 (517)
T ss_pred             hhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhH
Confidence            22     25677788888886653  4333333332222222233 3445566677777765   366677677776666


Q ss_pred             HHHHHHHHHHHHHc----C----------CCCchh--hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          173 VEFCVEMYYSVCKL----G----------LCADVS--TYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKG  236 (329)
Q Consensus       173 ~~~a~~~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  236 (329)
                      ..-..+++......    +          -.|...  ++..+...|...|++++|..++++.++..+. .+..|..-...
T Consensus       159 ~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~Kari  237 (517)
T PF12569_consen  159 AAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARI  237 (517)
T ss_pred             HHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHH
Confidence            66666666665432    1          123332  4456677888999999999999999887432 47788888999


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhH--------HHHHHHHH
Q 020202          237 MFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF--------DLVTDGLK  308 (329)
Q Consensus       237 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~--------~~l~~~~~  308 (329)
                      +-+.|++.+|.+.++..+..... |...-+..+..+.+.|+.++|.+++......+..|....+        .....+|.
T Consensus       238 lKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~  316 (517)
T PF12569_consen  238 LKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYL  316 (517)
T ss_pred             HHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988654 7777777888889999999999999988766644433222        44567899


Q ss_pred             hCCchhHHHHHHHHHh
Q 020202          309 NCGKHDLAEKIELLEV  324 (329)
Q Consensus       309 ~~g~~~~a~~~~~~~~  324 (329)
                      +.|++..|.+.+....
T Consensus       317 r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  317 RQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            9999999988765543

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 [], [].

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

Probab=99.55  E-value=1.7e-11  Score=105.71  Aligned_cols=307  Identities=12%  Similarity=0.025  Sum_probs=195.0

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhh----hcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc---CCccCh
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCT----AFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK---GFVPDK   87 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~   87 (329)
                      .|...|-.+...+-. ++...++.+|..+.    ..+-++-+...|.+...+...|++..|...|......   ...+|.
T Consensus       412 ~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de  490 (1018)
T KOG2002|consen  412 VDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDE  490 (1018)
T ss_pred             ccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccc
Confidence            344555555554433 33333355554432    3333455667777777777777777777777666544   112222


Q ss_pred             ------HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHH
Q 020202           88 ------RTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFN  161 (329)
Q Consensus        88 ------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  161 (329)
                            .+--.+..+.-..++.+.|.+.|..+.+.. |.-+..|.-+.-.....+...+|...++...+..-. ++..+.
T Consensus       491 ~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~-np~ars  568 (1018)
T KOG2002|consen  491 GKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSS-NPNARS  568 (1018)
T ss_pred             cccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccC-CcHHHH
Confidence                  223334555556667777777777776653 111222333332222345667777777776665422 556666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHc-CCCCchhhHHHHHHHHHh------------cCCHHHHHHHHHHHHhCCCCCChh
Q 020202          162 SLIETICKSGEVEFCVEMYYSVCKL-GLCADVSTYKILIPAVSK------------AGMIDEAFRLLHNLVEDGHKPFPS  228 (329)
Q Consensus       162 ~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~  228 (329)
                      .+...+.....+..|.+-|..+.+. ...+|..+...|...|..            .+..++|+++|.++.+..+. |..
T Consensus       569 l~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~y  647 (1018)
T KOG2002|consen  569 LLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMY  647 (1018)
T ss_pred             HHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhh
Confidence            6666777777777777766665543 222455555555555542            24467788888888776543 667


Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh-CCCCCChhhHHHHHHHH
Q 020202          229 LYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE-MGLTPISRCFDLVTDGL  307 (329)
Q Consensus       229 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~  307 (329)
                      .-|-+.-.++..|++..|..+|....+... .+..+|-.+.++|...|++..|+++|+...+ ....-+......|.+++
T Consensus       648 AANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~  726 (1018)
T KOG2002|consen  648 AANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAW  726 (1018)
T ss_pred             hccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHH
Confidence            777777888888999999999988887633 3556788888999999999999999887664 44445677888899999


Q ss_pred             HhCCchhHHHHHHHHHhhh
Q 020202          308 KNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       308 ~~~g~~~~a~~~~~~~~~~  326 (329)
                      .+.|.+.+|.+.......+
T Consensus       727 y~~~~~~eak~~ll~a~~~  745 (1018)
T KOG2002|consen  727 YEAGKLQEAKEALLKARHL  745 (1018)
T ss_pred             HHhhhHHHHHHHHHHHHHh
Confidence            9999999988887666544

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

Probab=99.55  E-value=4.8e-11  Score=97.26  Aligned_cols=288  Identities=8%  Similarity=0.018  Sum_probs=212.4

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHH
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYA   91 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (329)
                      |+.-++.......+.+...+++.+..++++...+.+ |+....+..-|.++...|+..+-..+=.+|.+.- +-.+.+|-
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~  316 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWF  316 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchh
Confidence            344566667777777888888888888888888877 7788888777888888888777777777777653 33667888


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccC
Q 020202           92 ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSG  171 (329)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  171 (329)
                      ++.--|.-.|+..+|.+.|.+....+ +.-...|-.+...|.-.|..+.|...+....+.-.. ....+--+.--|.+.+
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G-~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPG-CHLPSLYLGMEYMRTN  394 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccC-CcchHHHHHHHHHHhc
Confidence            88888888888899999988876544 223457888888888888888888888777664111 1122233344567788


Q ss_pred             CHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-C-CChhhHHHHHHHHHccCChhH
Q 020202          172 EVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED----GH-K-PFPSLYAPIIKGMFRRGQFDD  245 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~-~~~~~~~~l~~~~~~~~~~~~  245 (329)
                      +.+.|.+.|.+.....+ .|+...+-+.-.....+.+.+|..+|+.....    +. . ....+++.|..+|.+.+.+++
T Consensus       395 n~kLAe~Ff~~A~ai~P-~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAIAP-SDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhcCC-CcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            88889888888776543 56667777777777778888888888876622    11 1 245568888888999999999


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 020202          246 AFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGL  307 (329)
Q Consensus       246 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  307 (329)
                      |+..++..+.. .+.+..++.++.-.|...|+++.|.+.|.+..  .+.|+..+-..++..+
T Consensus       474 AI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  474 AIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHH
Confidence            99999888876 45588888888888888999999999888876  4567766655555543

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

Probab=99.54  E-value=2.3e-11  Score=104.92  Aligned_cols=293  Identities=16%  Similarity=0.186  Sum_probs=225.7

Q ss_pred             HhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhc---CCC------ccHHHHHHHHHHHHhcchHHHHHHHH
Q 020202            5 IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAF---NCQ------QCVLLYNSLLFALCEVKLFHGAYALI   75 (329)
Q Consensus         5 ~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~   75 (329)
                      ++.|...+-++.++..|.+.......|+++.|...|......   ...      +++.+-..+..++-..++++.|.+.|
T Consensus       440 ~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Y  519 (1018)
T KOG2002|consen  440 LDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMY  519 (1018)
T ss_pred             HHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHH
Confidence            455667777789999999999999999999999999988754   112      22333445667777788999999999


Q ss_pred             HHHHHcCCccC-hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcC-C
Q 020202           76 RRMIRKGFVPD-KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG-F  153 (329)
Q Consensus        76 ~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~  153 (329)
                      ....+..  |+ +..|..+.......+...+|...+....... ..++..+..+...+.+...+..|.+-|....+.- .
T Consensus       520 k~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~  596 (1018)
T KOG2002|consen  520 KSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTST  596 (1018)
T ss_pred             HHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhcc
Confidence            9999863  33 2344555544445578899999999988765 5677788888889999999999999887766542 2


Q ss_pred             ccCHHhHHHHHHHHHc------------cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          154 VLDLETFNSLIETICK------------SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       154 ~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      .+|+.+...|.+.|.+            .+..++|+++|.+..+..+ .|...-+-+.-+++..|++..|..+|.++.+.
T Consensus       597 ~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa  675 (1018)
T KOG2002|consen  597 KTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRFSEARDIFSQVREA  675 (1018)
T ss_pred             CCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCchHHHHHHHHHHHH
Confidence            3566666666665543            3457889999999888765 67777788888899999999999999999987


Q ss_pred             CCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhH
Q 020202          222 GHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK-GHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF  300 (329)
Q Consensus       222 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  300 (329)
                      ... ...+|-.+.++|...|++-.|+++|+...+. .-..++.+...|.+++.+.|.+.+|.+.+.......+.-....|
T Consensus       676 ~~~-~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~F  754 (1018)
T KOG2002|consen  676 TSD-FEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKF  754 (1018)
T ss_pred             Hhh-CCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHh
Confidence            542 5678888999999999999999999987765 44557788999999999999999999998887765433333444


Q ss_pred             HH
Q 020202          301 DL  302 (329)
Q Consensus       301 ~~  302 (329)
                      +.
T Consensus       755 N~  756 (1018)
T KOG2002|consen  755 NL  756 (1018)
T ss_pred             HH
Confidence            44

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

Probab=99.53  E-value=8e-11  Score=94.43  Aligned_cols=197  Identities=14%  Similarity=0.072  Sum_probs=137.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK  204 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  204 (329)
                      |--+..+|...++.++..+.|+...+.+.. ++.+|..-.+.+.-.+++++|..-|++.....+ .+...|..+..+..+
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p-e~~~~~iQl~~a~Yr  440 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP-ENAYAYIQLCCALYR  440 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh-hhhHHHHHHHHHHHH
Confidence            555556666666677777777776666544 566666666666667777777777777766543 345566666666678


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-----CCChhhH--HHHHHHHhccCC
Q 020202          205 AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-----PPNRPVY--TMLITMCGRGGR  277 (329)
Q Consensus       205 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~--~~l~~~~~~~~~  277 (329)
                      .++++++...|++..+. ++..+..|+.....+...++++.|.+.|+.......     ..+...+  -.++..- -.++
T Consensus       441 ~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d  518 (606)
T KOG0547|consen  441 QHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKED  518 (606)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhh
Confidence            88899999999988776 444678888888999999999999999988876521     1122221  1122111 2478


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          278 FVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       278 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      +..|..++++.++...+ ....|..|...-.+.|+.++|+++++....+
T Consensus       519 ~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  519 INQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             HHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            88899999888865422 3567888888899999999999999887654

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

Probab=99.51  E-value=3e-10  Score=94.44  Aligned_cols=302  Identities=11%  Similarity=0.051  Sum_probs=167.6

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      ...|......=-..|..+....+|++....- |.....|-.....+-..|+...|..++....+.... +...|..-+..
T Consensus       550 ~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKl  627 (913)
T KOG0495|consen  550 KSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKL  627 (913)
T ss_pred             hHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHH
Confidence            3444444444445555555555555555432 344444444455555555555555555555544322 44455555555


Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccC-HHhHHHHHHHHHccCCHHH
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLD-LETFNSLIETICKSGEVEF  175 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  175 (329)
                      -.....++.|..+|.+....+  |+...|.--++..--.++.++|.+++++..+.  .|+ ...|..+.+.+-+.++.+.
T Consensus       628 e~en~e~eraR~llakar~~s--gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~  703 (913)
T KOG0495|consen  628 EFENDELERARDLLAKARSIS--GTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEM  703 (913)
T ss_pred             hhccccHHHHHHHHHHHhccC--CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHH
Confidence            555555555555555554432  44445544444444555555555555555544  222 2344444555555555555


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          176 CVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       176 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      |.+.|..-.+. ++.....|..+...--+.|.+-.|..++++..-.++. +...|...|..-.+.|+.+.|..+..+.++
T Consensus       704 aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQ  781 (913)
T KOG0495|consen  704 AREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQ  781 (913)
T ss_pred             HHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555443322 1122334444444444555555555555555444332 444555555555555555555544444332


Q ss_pred             c----C-------------------------CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          256 K----G-------------------------HPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDG  306 (329)
Q Consensus       256 ~----~-------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  306 (329)
                      .    |                         ...|+...-.+...|.....+++|.+.|.+.++.+ +-+..+|..+...
T Consensus       782 ecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykf  860 (913)
T KOG0495|consen  782 ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKF  860 (913)
T ss_pred             hCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHH
Confidence            2    0                         23466667777778888889999999999988765 2246788889999


Q ss_pred             HHhCCchhHHHHHHHHHhhhc
Q 020202          307 LKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       307 ~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      +.++|.-++-.+++.....-+
T Consensus       861 el~hG~eed~kev~~~c~~~E  881 (913)
T KOG0495|consen  861 ELRHGTEEDQKEVLKKCETAE  881 (913)
T ss_pred             HHHhCCHHHHHHHHHHHhccC
Confidence            999998888888887765543

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

Probab=99.48  E-value=8.4e-11  Score=93.72  Aligned_cols=298  Identities=14%  Similarity=0.114  Sum_probs=180.8

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc------------
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP------------   85 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------   85 (329)
                      ...+.+.-.+.+.|+++.|+.-|+...+..  |+..+--.|+-++..-|+-++..+.|.+|..-...|            
T Consensus       277 kil~nigvtfiq~gqy~dainsfdh~m~~~--pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp  354 (840)
T KOG2003|consen  277 KILNNIGVTFIQAGQYDDAINSFDHCMEEA--PNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDP  354 (840)
T ss_pred             HHHhhcCeeEEecccchhhHhhHHHHHHhC--ccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCc
Confidence            445555666788899999999999988765  666555555556667788888888888887642222            


Q ss_pred             ChHHHHHHH---------------------------------------------------------------HHHHhcCc
Q 020202           86 DKRTYAILV---------------------------------------------------------------NAWCSSGK  102 (329)
Q Consensus        86 ~~~~~~~l~---------------------------------------------------------------~~~~~~~~  102 (329)
                      +....+.-+                                                               ..+.+.|+
T Consensus       355 ~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d  434 (840)
T KOG2003|consen  355 DDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGD  434 (840)
T ss_pred             chHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccC
Confidence            111111111                                                               11334556


Q ss_pred             hhHHHHHHHHHHhCCCCCCcccHHHH--HH----------------------------------HHHhcCChHHHHHHHH
Q 020202          103 MREAQEFLQEMSDKGFNPPVRGRDLL--VQ----------------------------------GLLNAGYLESAKQMVN  146 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l--~~----------------------------------~~~~~~~~~~a~~~~~  146 (329)
                      ++.|.+++.-+.+..-+.-...-+.|  +.                                  .....|++++|.+.++
T Consensus       435 ~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~yk  514 (840)
T KOG2003|consen  435 IEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYK  514 (840)
T ss_pred             HHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHH
Confidence            66666655555433211100000000  00                                  0012245555555555


Q ss_pred             HHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 020202          147 KMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPF  226 (329)
Q Consensus       147 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  226 (329)
                      +.......-....|+ +.-.+-..|++++|++.|-++... ...+......+...|....+..+|.+++-+.... ++.|
T Consensus       515 eal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~d  591 (840)
T KOG2003|consen  515 EALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPND  591 (840)
T ss_pred             HHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCC
Confidence            555432111111111 122344456666666666555432 1234555556666677777777777777665443 3446


Q ss_pred             hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHH-
Q 020202          227 PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTD-  305 (329)
Q Consensus       227 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~-  305 (329)
                      +...+-|...|-+.|+-..|.+..-+--.. ++-|..+...|...|....-+++++.+|++..  -+.|+..-|..++. 
T Consensus       592 p~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~kwqlmias  668 (840)
T KOG2003|consen  592 PAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSKWQLMIAS  668 (840)
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHHHHHHHHH
Confidence            777788888888888888888776544333 56677888888888888888899999998765  36799999988765 


Q ss_pred             HHHhCCchhHHHHHHHHH
Q 020202          306 GLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       306 ~~~~~g~~~~a~~~~~~~  323 (329)
                      ++.+.|++++|.++++..
T Consensus       669 c~rrsgnyqka~d~yk~~  686 (840)
T KOG2003|consen  669 CFRRSGNYQKAFDLYKDI  686 (840)
T ss_pred             HHHhcccHHHHHHHHHHH
Confidence            567899999999988653

>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=99.48  E-value=7e-10  Score=93.61  Aligned_cols=269  Identities=16%  Similarity=0.064  Sum_probs=194.2

Q ss_pred             CCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhc-----chHHHHHHHHHHHHHcCCccCh
Q 020202           13 LSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEV-----KLFHGAYALIRRMIRKGFVPDK   87 (329)
Q Consensus        13 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~   87 (329)
                      +.............+.+.|+.++|..+|..+.+++ |.|..-|..+..+..-.     .+.+...++|+++...-  |..
T Consensus        34 I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s  110 (517)
T PF12569_consen   34 ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRS  110 (517)
T ss_pred             CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccc
Confidence            33445667888999999999999999999999998 77777777777776333     35778888999887653  443


Q ss_pred             HHHHHHHHHHHhcCch-hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc----C----------
Q 020202           88 RTYAILVNAWCSSGKM-REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----G----------  152 (329)
Q Consensus        88 ~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------  152 (329)
                      .....+.-.+.....+ ..+..++..+...|+|   .+|+.+-..|.......-..+++......    +          
T Consensus       111 ~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~  187 (517)
T PF12569_consen  111 DAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEK  187 (517)
T ss_pred             cchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCcccccc
Confidence            3333333233332233 3455677777888864   46777777777666666666666655432    1          


Q ss_pred             CccCH--HhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhH
Q 020202          153 FVLDL--ETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLY  230 (329)
Q Consensus       153 ~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  230 (329)
                      -+|+.  .++..+.+.|...|++++|++.+++.+...+ ..+..|..-.+.+-+.|++.+|...++.....+.. |...-
T Consensus       188 ~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htP-t~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiN  265 (517)
T PF12569_consen  188 EPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTP-TLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYIN  265 (517)
T ss_pred             CCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHH
Confidence            12333  3556678888999999999999999988753 34678888899999999999999999999887654 67777


Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhH--------HHHHHHHhccCCHHHHHHHHHHHH
Q 020202          231 APIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVY--------TMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       231 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                      +-.+..+.++|+.++|.+++......+..|-...+        .....+|.+.|++..|++.|....
T Consensus       266 sK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  266 SKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            77888899999999999999988876654333222        335567889999998888765544

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 [], [].

>PF13041 PPR_2: PPR repeat family

Probab=99.48  E-value=1.7e-13  Score=77.44  Aligned_cols=49  Identities=37%  Similarity=0.712  Sum_probs=29.5

Q ss_pred             ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           50 QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555666666666666666666666666666666666666666665554

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

Probab=99.48  E-value=3.6e-09  Score=88.21  Aligned_cols=311  Identities=11%  Similarity=0.056  Sum_probs=224.5

Q ss_pred             hhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCc--cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC
Q 020202            6 ELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQ--CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF   83 (329)
Q Consensus         6 ~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (329)
                      .++...|+..+...|-.=...|-+.|..-.+..+....+..|+..  --.+|+.-...|.+.+.++-|..+|...++.- 
T Consensus       468 ~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf-  546 (913)
T KOG0495|consen  468 SELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF-  546 (913)
T ss_pred             HHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-
Confidence            345556666677776666666767777777777776666555332  24567777777777777887888887777652 


Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHH
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSL  163 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  163 (329)
                      +-+...|......=-..|..+....++++....- +-....|-.....+-..|+...|..++.+..+.... +...|-..
T Consensus       547 p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaa  624 (913)
T KOG0495|consen  547 PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAA  624 (913)
T ss_pred             cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            3355667777666667778888888888887763 445566666777777888888998888888887544 67788888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCh
Q 020202          164 IETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQF  243 (329)
Q Consensus       164 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  243 (329)
                      +.......+++.|..+|.+....  .|+...|.--+..-.-.+..++|.+++++..+. ++--...|..+.+.+-+.++.
T Consensus       625 vKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~i  701 (913)
T KOG0495|consen  625 VKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENI  701 (913)
T ss_pred             HHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHH
Confidence            88888888899998888887664  366666666666666678888898888887775 222345677777888888888


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHH
Q 020202          244 DDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       244 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  323 (329)
                      +.|...|..-.+. ++..+..|-.+.+.=-+.|.+-+|..++++..-++. -+...|-..++.=.+.|..+.|..+...+
T Consensus       702 e~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNP-k~~~lwle~Ir~ElR~gn~~~a~~lmakA  779 (913)
T KOG0495|consen  702 EMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNP-KNALLWLESIRMELRAGNKEQAELLMAKA  779 (913)
T ss_pred             HHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCC-CcchhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888887766554 343445566666666677888999999988877663 36788888899989999999888775544


Q ss_pred             h
Q 020202          324 V  324 (329)
Q Consensus       324 ~  324 (329)
                      .
T Consensus       780 L  780 (913)
T KOG0495|consen  780 L  780 (913)
T ss_pred             H
Confidence            3

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

Probab=99.47  E-value=5.2e-10  Score=91.41  Aligned_cols=274  Identities=11%  Similarity=0.037  Sum_probs=217.2

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      ..++.......+-+...+++.+..++.+.+.+.. ++....+..-|.++...|+..+-.-+-.++.+. .|..+.+|-++
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aV  318 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAV  318 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhH
Confidence            3455666666777888899999999999998874 456666777777889999988877777777776 36678899999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  208 (329)
                      .-.|...|+..+|.+.|.+....+.. =...|-.+...++-.|.-++|...+....+.=. -...-+--+.--|.+.+..
T Consensus       319 g~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~-G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMP-GCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhcc-CCcchHHHHHHHHHHhccH
Confidence            99999999999999999988765322 245788999999999999999999988765411 1112223344467789999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc------CCCCChhhHHHHHHHHhccCCHHHHH
Q 020202          209 DEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK------GHPPNRPVYTMLITMCGRGGRFVEAA  282 (329)
Q Consensus       209 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~  282 (329)
                      +.|.++|.+..... +.|+...+-+.-.....+.+.+|..+|+..+..      ...-...+++.|..+|.+.+.+++|+
T Consensus       397 kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  397 KLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            99999999987653 336777787777778889999999999888732      11124567899999999999999999


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          283 NYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       283 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      ..++...... +-+..++.++.-.|...|+++.|.+.+.....+++
T Consensus       476 ~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p  520 (611)
T KOG1173|consen  476 DYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALALKP  520 (611)
T ss_pred             HHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCC
Confidence            9999998765 45789999999999999999999999988877664

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.46  E-value=1.2e-10  Score=97.03  Aligned_cols=240  Identities=16%  Similarity=0.170  Sum_probs=172.9

Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhC-----C-CCCCc-ccHHHHHHHHHhcCChHHHHHHHHHHHHc-----CCc
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDK-----G-FNPPV-RGRDLLVQGLLNAGYLESAKQMVNKMIKQ-----GFV  154 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~  154 (329)
                      ..+...+...|...|+++.|+.+++...+.     | ..|.. ...+.+...|...+++++|..+|+++..-     |..
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            346666888999999999999998887654     2 01222 23344677888899999999999987653     221


Q ss_pred             -c-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHc-----CC-CCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---C
Q 020202          155 -L-DLETFNSLIETICKSGEVEFCVEMYYSVCKL-----GL-CAD-VSTYKILIPAVSKAGMIDEAFRLLHNLVED---G  222 (329)
Q Consensus       155 -~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~  222 (329)
                       | -..+++.|..+|.+.|++++|...+++..+.     +. .|. ...++.+...|+..+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence             1 2346777888899999999888887776432     11 122 234667778888899999999999876532   1


Q ss_pred             CCC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHc-----C--CCCChhhHHHHHHHHhccCCHHHHHHHHHHHH--
Q 020202          223 HKP----FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK-----G--HPPNRPVYTMLITMCGRGGRFVEAANYLVEMT--  289 (329)
Q Consensus       223 ~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--  289 (329)
                      +.+    -..+++.|...|...|++++|.++++.+...     |  ..-....++.+...|.+.+++.+|.++|.+..  
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            122    2457889999999999999999999888754     1  12224567888889999999999988887754  


Q ss_pred             --hCCC-CCC-hhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          290 --EMGL-TPI-SRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       290 --~~~~-~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                        ..|. .|+ ..+|..|...|.+.|++++|.++.+.....
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~  479 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNA  479 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence              2332 133 568899999999999999999998776644

>PF13041 PPR_2: PPR repeat family

Probab=99.46  E-value=2.6e-13  Score=76.62  Aligned_cols=49  Identities=31%  Similarity=0.563  Sum_probs=27.1

Q ss_pred             CChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 020202          260 PNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLK  308 (329)
Q Consensus       260 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  308 (329)
                      ||..+||.++.+|++.|++++|.++|++|.+.|++||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555555555555555555555555555555555555555555555554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.43  E-value=1.5e-10  Score=96.47  Aligned_cols=241  Identities=17%  Similarity=0.145  Sum_probs=152.2

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-----C-CccChHH-HHHHHHHHHhcCchhHHHHHHHHHHhC-----
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK-----G-FVPDKRT-YAILVNAWCSSGKMREAQEFLQEMSDK-----  116 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  116 (329)
                      |.-..+...+...|...|+++.|..+++...+.     | ..|...+ .+.+...|...+++++|..+|+++...     
T Consensus       196 P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~  275 (508)
T KOG1840|consen  196 PERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVF  275 (508)
T ss_pred             chHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhc
Confidence            333445555777777777777777777666543     1 1223322 334666777777777777777776432     


Q ss_pred             C--CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc-----CCc-cCH-HhHHHHHHHHHccCCHHHHHHHHHHHHHc-
Q 020202          117 G--FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ-----GFV-LDL-ETFNSLIETICKSGEVEFCVEMYYSVCKL-  186 (329)
Q Consensus       117 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  186 (329)
                      |  .+.-..+++.|..+|.+.|++++|...+++..+-     +.. |.. ..++.+...+...+++++|..++....+. 
T Consensus       276 G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~  355 (508)
T KOG1840|consen  276 GEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIY  355 (508)
T ss_pred             CCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH
Confidence            1  1112345566666777788877777777654431     111 122 23555666777788888888877765432 


Q ss_pred             --CCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC--C-CChhhHHHHHHHHHccCChhHHHHHHHHH
Q 020202          187 --GLCAD----VSTYKILIPAVSKAGMIDEAFRLLHNLVED----GH--K-PFPSLYAPIIKGMFRRGQFDDAFCFFSEM  253 (329)
Q Consensus       187 --~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  253 (329)
                        -+.++    ..+++.|...|...|++++|..+++.++..    +-  . -....++.+...|.+.+++.+|.++|.+.
T Consensus       356 ~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~  435 (508)
T KOG1840|consen  356 LDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEA  435 (508)
T ss_pred             HhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHH
Confidence              11122    357888888888888888888888876643    11  1 12345677888888888888888887765


Q ss_pred             HHc----CC--CCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          254 KIK----GH--PPNRPVYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       254 ~~~----~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                      ..-    |.  +-...+|..|...|.+.|+++.|.++.+...
T Consensus       436 ~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  436 KDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            432    22  2234678888888888888888888877665

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

Probab=99.43  E-value=5e-10  Score=81.43  Aligned_cols=197  Identities=15%  Similarity=0.171  Sum_probs=110.4

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                      +...|.-.|...|+...|..-+++.++.. +.+..+|..+...|.+.|+.+.|.+.|++..+.... +..+.|...-.+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHH
Confidence            34445555666666666666666666554 334455566666666666666666666666655333 4455556666666


Q ss_pred             ccCCHHHHHHHHHHHHHcCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHH
Q 020202          169 KSGEVEFCVEMYYSVCKLGLC-ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAF  247 (329)
Q Consensus       169 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  247 (329)
                      ..|++++|...|++....-.- -...+|..+.-+..+.|+.+.|...|++..+.... .+.+...+.......|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            666666666666665543111 12345555555556666666666666665554322 2334445555556666666666


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          248 CFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                      .+++.....+. ++..+....|+.--+.|+.+.+-++=..+.
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            66666555533 555555555555555666555555444443

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

Probab=99.42  E-value=1.2e-08  Score=84.41  Aligned_cols=305  Identities=10%  Similarity=-0.085  Sum_probs=189.0

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccH---HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCV---LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAI   92 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (329)
                      .+..|..+...+...|+.+.+.+.+....+.. +++.   .........+...|++++|.+.+++..+..+ .|...+..
T Consensus         5 ~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P-~~~~a~~~   82 (355)
T cd05804           5 FALGHAAAALLLLLGGERPAAAAKAAAAAQAL-AARATERERAHVEALSAWIAGDLPKALALLEQLLDDYP-RDLLALKL   82 (355)
T ss_pred             cHHHHHHHHHHHHhcCCcchHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHH
Confidence            34567777777778888888877777765543 2222   2233334456678999999999999887642 24444442


Q ss_pred             HHHHHHh----cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202           93 LVNAWCS----SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus        93 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                       ...+..    .+..+.+.+.++.. ....+........+...+...|++++|...+++..+.... +...+..+...+.
T Consensus        83 -~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~  159 (355)
T cd05804          83 -HLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLE  159 (355)
T ss_pred             -hHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHH
Confidence             222222    34455555555441 1111222333445667888999999999999999988533 5677888899999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCC-Cch--hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCChhhH-H--HHHHHHHccC
Q 020202          169 KSGEVEFCVEMYYSVCKLGLC-ADV--STYKILIPAVSKAGMIDEAFRLLHNLVEDGH-KPFPSLY-A--PIIKGMFRRG  241 (329)
Q Consensus       169 ~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~  241 (329)
                      ..|++++|...+++....... |+.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|
T Consensus       160 ~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g  239 (355)
T cd05804         160 MQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAG  239 (355)
T ss_pred             HcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcC
Confidence            999999999999998775432 222  3455788889999999999999999864432 1112111 1  2333344445


Q ss_pred             ChhHHHHH--H-HHHHHcCC-CCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC------C--ChhhHHHHHHHHHh
Q 020202          242 QFDDAFCF--F-SEMKIKGH-PPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLT------P--ISRCFDLVTDGLKN  309 (329)
Q Consensus       242 ~~~~a~~~--~-~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------p--~~~~~~~l~~~~~~  309 (329)
                      ....+.++  + ........ ............++...|+.+.|...++.+......      .  .....-....++..
T Consensus       240 ~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~  319 (355)
T cd05804         240 HVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFA  319 (355)
T ss_pred             CCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHH
Confidence            44433333  2 22111100 111122235666778899999999999988753221      1  12222233345668


Q ss_pred             CCchhHHHHHHHHHhh
Q 020202          310 CGKHDLAEKIELLEVS  325 (329)
Q Consensus       310 ~g~~~~a~~~~~~~~~  325 (329)
                      .|++++|.+.+.....
T Consensus       320 ~g~~~~A~~~L~~al~  335 (355)
T cd05804         320 EGNYATALELLGPVRD  335 (355)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            9999999988766544

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.

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

Probab=99.41  E-value=1.8e-09  Score=78.64  Aligned_cols=197  Identities=14%  Similarity=-0.009  Sum_probs=107.8

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN  134 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  134 (329)
                      ...|.-.|...|++..|..-+++.++.... +..+|..+...|.+.|+.+.|.+.|++..+.. +-+..+.|.....+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            344455556666666666666666555322 44455555566666666666666666655543 3344555555556666


Q ss_pred             cCChHHHHHHHHHHHHcCC-ccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 020202          135 AGYLESAKQMVNKMIKQGF-VLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFR  213 (329)
Q Consensus       135 ~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  213 (329)
                      .|++++|...|++...... .....+|..+.-+..+.|+.+.|...|++..+... -...+...+.....+.|++-.|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccchHHHH
Confidence            6666666666665554421 11234555555555566666666666666555433 223344455555556666666666


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          214 LLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       214 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      +++.....+. ++..+....|..-...|+-+.+.+.=..+..
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            6666555443 4555555555555556665555554444443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=1.2e-09  Score=87.17  Aligned_cols=218  Identities=11%  Similarity=-0.014  Sum_probs=129.2

Q ss_pred             chHHHHHHHHHHHHHcC-CccC--hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH
Q 020202           66 KLFHGAYALIRRMIRKG-FVPD--KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAK  142 (329)
Q Consensus        66 ~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  142 (329)
                      +..+.++.-+.+++... ..|+  ...|..+...+...|++++|...|++..+.. +.+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            34555666666666432 1111  3446666667777777777777777777664 445667777777777788888888


Q ss_pred             HHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 020202          143 QMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  222 (329)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  222 (329)
                      ..|++..+.... +..++..+..++...|++++|.+.++...+..+  +..........+...++.++|...+.+.....
T Consensus       119 ~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P--~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        119 EAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDDP--NDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            777777766433 455666777777777788888887777776543  22211222223344567777777776644332


Q ss_pred             CCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc---CC---CCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          223 HKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK---GH---PPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       223 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                       .|+...+ .+  .....|+...+ ..+..+.+.   ..   +.....|..+...+.+.|++++|...|++..+.+
T Consensus       196 -~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        196 -DKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             -CccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             2222111 22  22334554443 244443321   00   1123567777788888888888888888877655

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=1.6e-09  Score=86.51  Aligned_cols=220  Identities=12%  Similarity=-0.027  Sum_probs=155.6

Q ss_pred             ccCchhHHHHHHHHhhhcC-CC--ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhH
Q 020202           29 KHGLVDNAVEVFNKCTAFN-CQ--QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMRE  105 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~-~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  105 (329)
                      ..+..+.++.-+.++.... ..  .....|..+...+...|+.++|...|++..+... .+...|+.+...+...|++++
T Consensus        38 ~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         38 PTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             CchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHH
Confidence            3456677788888877532 11  2245688888889999999999999999988753 367889999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 020202          106 AQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCK  185 (329)
Q Consensus       106 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  185 (329)
                      |...|+...+.. +-+..++..+..++...|++++|.+.+++..+..  |+..........+...++.++|...+.+...
T Consensus       117 A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~  193 (296)
T PRK11189        117 AYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYE  193 (296)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            999999998865 3456778888888999999999999999998874  3322222222334557789999999977554


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--C-CChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 020202          186 LGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED---GH--K-PFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG  257 (329)
Q Consensus       186 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~--~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  257 (329)
                      .. .|+...+ .+..  ...|+...+ ..+..+.+.   .+  . .....|..+...+...|++++|...|++..+.+
T Consensus       194 ~~-~~~~~~~-~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        194 KL-DKEQWGW-NIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             hC-CccccHH-HHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            32 2332222 2222  334555443 344444422   11  1 123578889999999999999999999999764

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

Probab=99.39  E-value=4.5e-10  Score=90.24  Aligned_cols=220  Identities=16%  Similarity=0.106  Sum_probs=116.5

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHH
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      -.|+.-.|.+-|+..++.. +.+...|--+...|....+.++..+.|+...+.+.. |+.+|..-.....-.+++++|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHH
Confidence            3455566666666665554 222233555555566666666666666666555432 44555555555555566666666


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          109 FLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      =|++.++.. +.+...|..+.-+..+.++++++...|++.++. ++..+..|+.....+...+++++|.+.|+.......
T Consensus       416 DF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  416 DFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEP  493 (606)
T ss_pred             HHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcc
Confidence            666665543 233444444444455556666666666666555 222455666666666666666666666666554321


Q ss_pred             C-----Cch--hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          189 C-----ADV--STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       189 ~-----~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      .     .+.  .+.-.++.. .-.+++..|..++++..+.+++ ....|..|...-.+.|+.++|+++|++..
T Consensus       494 ~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             ccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            1     011  111111111 1235566666666666554433 34455556666666666666666666554

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

Probab=99.39  E-value=4.3e-09  Score=83.09  Aligned_cols=307  Identities=12%  Similarity=-0.003  Sum_probs=194.8

Q ss_pred             CCCCHHHHHHHHHHHHcc--CchhHHHHHHHHhh-hcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHH
Q 020202           13 LSVSPQTLSLIIEEFGKH--GLVDNAVEVFNKCT-AFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRT   89 (329)
Q Consensus        13 ~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   89 (329)
                      ++|.-.....-+.+++..  ++...|...+-.+. ..-++-|+.....+.+++...|+.++|...|++....++. +...
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~  268 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEA  268 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhh
Confidence            344444444444444433  33334444443332 2234677888888888999999999998888887754311 2333


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK  169 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  169 (329)
                      .....-.+.+.|+.+....+...+.... ..+...|-.-.......+++..|+.+-++.++.... +...+-.-...+..
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~  346 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIA  346 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHh
Confidence            4444455667788887777777765542 233344444455566677888888888887776433 44455555566777


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHH-HH-HHccCChhHHH
Q 020202          170 SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPII-KG-MFRRGQFDDAF  247 (329)
Q Consensus       170 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~-~~~~~~~~~a~  247 (329)
                      .++.++|.-.|+......+ .+...|..|+.+|...|++.+|..+-+..... ...+..+...+. .. +.....-++|.
T Consensus       347 ~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAK  424 (564)
T KOG1174|consen  347 LERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAK  424 (564)
T ss_pred             ccchHHHHHHHHHHHhcch-hhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHH
Confidence            8888888888887766433 46778888888888888888887766665443 122344443331 11 12223346777


Q ss_pred             HHHHHHHHcCCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          248 CFFSEMKIKGHPPNR-PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       248 ~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      ++++.....  .|+. ...+.+...|...|+.+.+..++++...  ..||....+.|.+.+...+.+++|.+.+....++
T Consensus       425 kf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  425 KFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            777776653  3432 3445566677778888888888877664  3577888888888888888888888887777666


Q ss_pred             cc
Q 020202          327 RS  328 (329)
Q Consensus       327 ~~  328 (329)
                      ++
T Consensus       501 dP  502 (564)
T KOG1174|consen  501 DP  502 (564)
T ss_pred             Cc
Confidence            53

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

Probab=99.38  E-value=3.9e-09  Score=83.32  Aligned_cols=272  Identities=12%  Similarity=0.046  Sum_probs=208.5

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHH
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYA   91 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (329)
                      -++-+.+....+.+.+...|+.++|+..|+.....+ |-+........-.+.+.|+++....+...+.... ..+...|.
T Consensus       227 ~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d-py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wf  304 (564)
T KOG1174|consen  227 TLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN-PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWF  304 (564)
T ss_pred             cCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC-hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhh
Confidence            356788899999999999999999999999998776 4445544445556677889998888888877653 22444455


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccC
Q 020202           92 ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSG  171 (329)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  171 (329)
                      .-........+++.|+.+-++.++.+ +.+...+-.-.+.+...|++++|.-.|+......+ -+...|..|+.+|...|
T Consensus       305 V~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsYLA~~  382 (564)
T KOG1174|consen  305 VHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSYLAQK  382 (564)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcch-hhHHHHHHHHHHHHhhc
Confidence            55556667789999999999998875 45566666667888899999999999998887643 37889999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCchhhHHHHH-HHHH-hcCCHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHccCChhHHHH
Q 020202          172 EVEFCVEMYYSVCKLGLCADVSTYKILI-PAVS-KAGMIDEAFRLLHNLVEDGHKPF-PSLYAPIIKGMFRRGQFDDAFC  248 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~  248 (329)
                      .+.+|.-.-+...+. ..-+..+.+.+. ..|. ....-++|.++++.-...  .|+ ....+.+...+...|..+.++.
T Consensus       383 ~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  383 RFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             hHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHH
Confidence            999998877665443 224455555442 2232 233457888888886664  333 3456777888899999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          249 FFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      ++++....  .||....+.|.+.+...+.+++|++.|......+
T Consensus       460 LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  460 LLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            99998864  6899999999999999999999999998887654

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

Probab=99.37  E-value=2.1e-08  Score=80.73  Aligned_cols=83  Identities=14%  Similarity=0.121  Sum_probs=48.4

Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHH
Q 020202          240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKI  319 (329)
Q Consensus       240 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  319 (329)
                      +.++..|.+++....  |.-|-..+|...|..=.+.++++...+++++.++.+ +-+..+|......=...|+.+.|..+
T Consensus       417 q~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRai  493 (677)
T KOG1915|consen  417 QLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAI  493 (677)
T ss_pred             HcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHH
Confidence            334444444444333  334555666666666666666666666666666654 23556666666666666777777666


Q ss_pred             HHHHhh
Q 020202          320 ELLEVS  325 (329)
Q Consensus       320 ~~~~~~  325 (329)
                      ++++.+
T Consensus       494 felAi~  499 (677)
T KOG1915|consen  494 FELAIS  499 (677)
T ss_pred             HHHHhc
Confidence            666554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.37  E-value=9.6e-10  Score=83.12  Aligned_cols=299  Identities=11%  Similarity=0.120  Sum_probs=164.5

Q ss_pred             hCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHH
Q 020202           10 PYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRT   89 (329)
Q Consensus        10 ~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   89 (329)
                      ..|+.....-+++.+..+.+..++++|++++..-.++. +.+......|..+|....++..|-+.|+++-..  .|...-
T Consensus         3 ~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~q   79 (459)
T KOG4340|consen    3 GSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQ   79 (459)
T ss_pred             cccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHH
Confidence            34555555567888888899999999999999988876 668888999999999999999999999998765  444444


Q ss_pred             HHH-HHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH--HHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           90 YAI-LVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV--QGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        90 ~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      |.. -...+.+.+.+..|+.+...|.+.   ++...-..-+  ......+++..+..++++....|   +..+.+.....
T Consensus        80 YrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCl  153 (459)
T KOG4340|consen   80 YRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCL  153 (459)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchhe
Confidence            433 245566777788888887776542   1111111111  11223455555555555554322   23333333333


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChh------------------
Q 020202          167 ICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPS------------------  228 (329)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------------  228 (329)
                      ..+.|+++.|.+-|....+-+.--....|+..+..| +.++++.|+++..++++.|++-.+.                  
T Consensus       154 lykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt  232 (459)
T KOG4340|consen  154 LYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNT  232 (459)
T ss_pred             eeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccch
Confidence            445666666666666655443323344555444333 3456666666666665554321111                  


Q ss_pred             ----------hHHHHHHHHHccCChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCh
Q 020202          229 ----------LYAPIIKGMFRRGQFDDAFCFFSEMKIK-GHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPIS  297 (329)
Q Consensus       229 ----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  297 (329)
                                .+|.-...+.+.|+++.|.+.+..|..+ ....|+.|...+.-.= ..+++.+..+-+.-+.+.+. ...
T Consensus       233 ~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~  310 (459)
T KOG4340|consen  233 LVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPP  310 (459)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CCh
Confidence                      0111122234555666666555555432 1223444444332221 12333333333333333322 234


Q ss_pred             hhHHHHHHHHHhCCchhHHHHHH
Q 020202          298 RCFDLVTDGLKNCGKHDLAEKIE  320 (329)
Q Consensus       298 ~~~~~l~~~~~~~g~~~~a~~~~  320 (329)
                      .||..++-.|+++.-++.|-+++
T Consensus       311 ETFANlLllyCKNeyf~lAADvL  333 (459)
T KOG4340|consen  311 ETFANLLLLYCKNEYFDLAADVL  333 (459)
T ss_pred             HHHHHHHHHHhhhHHHhHHHHHH
Confidence            45555555566665555555443

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

Probab=99.30  E-value=1.1e-07  Score=76.67  Aligned_cols=306  Identities=12%  Similarity=0.016  Sum_probs=194.8

Q ss_pred             CCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-CC-ccChHHH
Q 020202           13 LSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK-GF-VPDKRTY   90 (329)
Q Consensus        13 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~-~~~~~~~   90 (329)
                      ..|+..+|.+.|+.=.+.+.++.|..+++...-.  .|++.+|--..+.-.++|....+..+|....+. |- ..+...+
T Consensus       170 w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lf  247 (677)
T KOG1915|consen  170 WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILF  247 (677)
T ss_pred             CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            4578888888888877888888888888877654  377777777777777777777777777666543 10 0011122


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHh--------------------------------------------CCCCCCcccHH
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSD--------------------------------------------KGFNPPVRGRD  126 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~--------------------------------------------~~~~~~~~~~~  126 (329)
                      .++...=.++..++.|.-+|.-.++                                            .+ +.|-.+|-
T Consensus       248 vaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWf  326 (677)
T KOG1915|consen  248 VAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWF  326 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHH
Confidence            2222221222233333333332221                                            11 23444555


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCccCH--HhHHHH----HH----HHHccCCHHHHHHHHHHHHHcCCCCchhhHH
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFVLDL--ETFNSL----IE----TICKSGEVEFCVEMYYSVCKLGLCADVSTYK  196 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l----~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  196 (329)
                      ..++.-...|+.+...+++++.+..- +|-.  ..|.-.    ++    .-....+.+.+.++|+...+. ++....||.
T Consensus       327 dylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFa  404 (677)
T KOG1915|consen  327 DYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFA  404 (677)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHH
Confidence            55666666677777777777776652 2211  111111    11    112356677777777776663 222334444


Q ss_pred             HHH----HHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 020202          197 ILI----PAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMC  272 (329)
Q Consensus       197 ~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (329)
                      -+-    ..-.++.+...|.+++...+  |.-|-..+|...|..-.+.++++.+..++++.++.+ |-|..+|......=
T Consensus       405 KiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE  481 (677)
T KOG1915|consen  405 KIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELE  481 (677)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHH
Confidence            333    23346677888888887754  456788888888888899999999999999999874 33677888887777


Q ss_pred             hccCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          273 GRGGRFVEAANYLVEMTEMG-LTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       273 ~~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      ...|+.+.|..+|.-.++.. +......|...++.=...|.++.|..+++...+.
T Consensus       482 ~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  482 TSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             HHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh
Confidence            78999999999999888643 2233556777777778899999999998876653

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

Probab=99.29  E-value=6.8e-08  Score=82.21  Aligned_cols=318  Identities=13%  Similarity=0.042  Sum_probs=195.6

Q ss_pred             HhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc
Q 020202            5 IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV   84 (329)
Q Consensus         5 ~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   84 (329)
                      +..+....+.-++..|..+.-++...|+++.+.+.|++....- -...+.|+.+...+...|.-..|..+++.-......
T Consensus       311 ~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~  389 (799)
T KOG4162|consen  311 LRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQ  389 (799)
T ss_pred             HHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccC
Confidence            3444555566789999999999999999999999999876432 334566777777777777766777776665443322


Q ss_pred             cC-hHHHHHHHHHHH-hcCchh--------------------------------------------------HHHHHHHH
Q 020202           85 PD-KRTYAILVNAWC-SSGKMR--------------------------------------------------EAQEFLQE  112 (329)
Q Consensus        85 ~~-~~~~~~l~~~~~-~~~~~~--------------------------------------------------~a~~~~~~  112 (329)
                      |+ ...+-..-..|. +.+..+                                                  ++.+.+++
T Consensus       390 ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~  469 (799)
T KOG4162|consen  390 PSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEE  469 (799)
T ss_pred             CCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHH
Confidence            32 222222222222 122223                                                  33333444


Q ss_pred             HHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC---
Q 020202          113 MSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC---  189 (329)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---  189 (329)
                      ..+.+ +.|+.....+.--|+..++.+.|.+...+..+.+...+...|..+.-.+...+++.+|+.+.+.....-..   
T Consensus       470 av~~d-~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~  548 (799)
T KOG4162|consen  470 AVQFD-PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHV  548 (799)
T ss_pred             HHhcC-CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhh
Confidence            43332 12222222333345556677777777777777655556777777777777777777777666554321000   


Q ss_pred             --------------------------------------------------------------------------------
Q 020202          190 --------------------------------------------------------------------------------  189 (329)
Q Consensus       190 --------------------------------------------------------------------------------  189 (329)
                                                                                                      
T Consensus       549 l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~  628 (799)
T KOG4162|consen  549 LMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAG  628 (799)
T ss_pred             hchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcc
Confidence                                                                                            


Q ss_pred             -------------Cc------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          190 -------------AD------VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       190 -------------~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                                   |+      ...|......+.+.+..++|...+.+..... ......|......+...|++++|...|
T Consensus       629 se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af  707 (799)
T KOG4162|consen  629 SELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAF  707 (799)
T ss_pred             cccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHH
Confidence                         00      0111222233333344444444443333221 123334444445566778888888888


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHhccCCHHHHHH--HHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          251 SEMKIKGHPPNRPVYTMLITMCGRGGRFVEAAN--YLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ......+ |.++...+.+..++.+.|+..-|..  ++.++.+.+ +.+...|..+...+.+.|+.+.|.+-+.-..+++
T Consensus       708 ~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  708 LVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             HHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            8877652 3355678889999999998888887  999999876 4478999999999999999999999998888776

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

Probab=99.27  E-value=5.1e-08  Score=80.59  Aligned_cols=263  Identities=12%  Similarity=0.017  Sum_probs=167.1

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHHHHcCCccC-hHHHHHHHHHH
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE----VKLFHGAYALIRRMIRKGFVPD-KRTYAILVNAW   97 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~   97 (329)
                      ....+...|++++|.+.++...+.. |.+...+.. ...+..    .+..+.+.+.+..  .....|+ ......+...+
T Consensus        49 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~  124 (355)
T cd05804          49 EALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGL  124 (355)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHH
Confidence            3445677899999999999998775 666655553 223322    3445555555544  1122333 33445666788


Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc-cCH--HhHHHHHHHHHccCCHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV-LDL--ETFNSLIETICKSGEVE  174 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~~  174 (329)
                      ...|++++|...+++..+.. +.+...+..+...+...|++++|...+++....... |+.  ..|..+...+...|+++
T Consensus       125 ~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~  203 (355)
T cd05804         125 EEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYE  203 (355)
T ss_pred             HHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHH
Confidence            89999999999999999875 555677888999999999999999999998876322 222  34557888899999999


Q ss_pred             HHHHHHHHHHHcCC-CCchhhH-H--HHHHHHHhcCCHHHHHHH--H-HHHHhCCC-CCChhhHHHHHHHHHccCChhHH
Q 020202          175 FCVEMYYSVCKLGL-CADVSTY-K--ILIPAVSKAGMIDEAFRL--L-HNLVEDGH-KPFPSLYAPIIKGMFRRGQFDDA  246 (329)
Q Consensus       175 ~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~--~-~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a  246 (329)
                      +|..++++...... .+..... +  .++.-+...|....+..+  + ........ ............++...|+.+.|
T Consensus       204 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a  283 (355)
T cd05804         204 AALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDAL  283 (355)
T ss_pred             HHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHH
Confidence            99999999864332 1112111 1  233333444443333332  2 11111101 11112223566778889999999


Q ss_pred             HHHHHHHHHcCCCC---C---hhhHHHHH--HHHhccCCHHHHHHHHHHHHh
Q 020202          247 FCFFSEMKIKGHPP---N---RPVYTMLI--TMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       247 ~~~~~~~~~~~~~~---~---~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      ..+++.+......+   .   ..+-..++  .++...|++++|.+.+.....
T Consensus       284 ~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         284 DKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             HHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999887642220   0   11122233  345588999999999988764

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=99.27  E-value=9.3e-10  Score=86.59  Aligned_cols=252  Identities=15%  Similarity=0.148  Sum_probs=159.9

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      ++-+.-.|++..++.-.+ .....-+.+......+.+++...|+++.++   .++... ..|.......+...+...++-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~-~~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKS-SSPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccC-CChhHHHHHHHHHHHhCccch
Confidence            344556788888886665 333332334556667788888888877554   333333 366766666666555544455


Q ss_pred             hHHHHHHHHHHhCCCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          104 REAQEFLQEMSDKGFNP-PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      +.+..-++........+ +..........+...|++++|+++++..      .+.......+..+.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55555554443333222 2222223334566678899888888653      2566777788888999999999999999


Q ss_pred             HHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 020202          183 VCKLGLCADVSTYKILIPAVSK----AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH  258 (329)
Q Consensus       183 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  258 (329)
                      |.+.+   +..+...+..++..    .+.+++|..+|+++.+. ..+++.+.+.+..+....|++++|..++.+....+ 
T Consensus       157 ~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-  231 (290)
T PF04733_consen  157 MQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-  231 (290)
T ss_dssp             HHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--
T ss_pred             HHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-
Confidence            87642   23344445544433    34688999999997654 45678888888888999999999999988887654 


Q ss_pred             CCChhhHHHHHHHHhccCCH-HHHHHHHHHHHhC
Q 020202          259 PPNRPVYTMLITMCGRGGRF-VEAANYLVEMTEM  291 (329)
Q Consensus       259 ~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  291 (329)
                      +-++.+...++.+....|+. +.+.+++.++...
T Consensus       232 ~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  232 PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            33667777788777777877 5677788777754

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.

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

Probab=99.27  E-value=8.1e-10  Score=94.85  Aligned_cols=262  Identities=16%  Similarity=0.096  Sum_probs=186.8

Q ss_pred             HHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 020202           38 EVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        38 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (329)
                      .++..+...|+.|+..+|..+|.-|+..|+.+.|- +|.-|.-+..+.+...++.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45667788899999999999999999999999998 9999998888888899999999999998877765          


Q ss_pred             CCCCcccHHHHHHHHHhcCChHH---HHHHHHHHHH----cCCccCHHhHHHH--------------HHHHHccCCHHHH
Q 020202          118 FNPPVRGRDLLVQGLLNAGYLES---AKQMVNKMIK----QGFVLDLETFNSL--------------IETICKSGEVEFC  176 (329)
Q Consensus       118 ~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~----~~~~~~~~~~~~l--------------~~~~~~~~~~~~a  176 (329)
                       .|...+|..|..+|...||...   +.+.+..+..    .|+.....-+-..              +......|-++.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             5788999999999999999654   3332222222    2322111111111              1122223444444


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          177 VEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      .+++..+.....  + .++..+++-+.....  -.+++........-.|++.+|..++++-..+|+.+.|..++.+|++.
T Consensus       159 lkll~~~Pvsa~--~-~p~~vfLrqnv~~nt--pvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~  233 (1088)
T KOG4318|consen  159 LKLLAKVPVSAW--N-APFQVFLRQNVVDNT--PVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEK  233 (1088)
T ss_pred             HHHHhhCCcccc--c-chHHHHHHHhccCCc--hHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHc
Confidence            444443322111  0 011112444433332  23333333332222589999999999999999999999999999999


Q ss_pred             CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHH
Q 020202          257 GHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKI  319 (329)
Q Consensus       257 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  319 (329)
                      |++.+..-|..|+-+   .++..-+..+++-|.+.|+.|+..|+...+-.+.++|....+.+.
T Consensus       234 gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~  293 (1088)
T KOG4318|consen  234 GFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEG  293 (1088)
T ss_pred             CCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccc
Confidence            999999988888876   788888999999999999999999999998888887776555544

>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=99.20  E-value=2.2e-09  Score=84.50  Aligned_cols=149  Identities=19%  Similarity=0.178  Sum_probs=63.6

Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc----cC
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK----SG  171 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~  171 (329)
                      .+...|++++|++++...      .+.......+..|.+.++++.|.+.++.|.+.+  .| .+...+..++..    .+
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e  181 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGE  181 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTT
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCch
Confidence            334445555555444321      223344444555555555555555555554431  12 222222222221    22


Q ss_pred             CHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCh-hHHHHHH
Q 020202          172 EVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQF-DDAFCFF  250 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~  250 (329)
                      .+.+|..+|+++.+. ..+++.+.+.+..++...|++++|..++.+....+.. ++.+...++.+....|+. +.+.+.+
T Consensus       182 ~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l  259 (290)
T PF04733_consen  182 KYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYL  259 (290)
T ss_dssp             CCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHH
Confidence            355555555554332 2244445555555555555555555555554443322 344444444444444444 3344444


Q ss_pred             HHHHH
Q 020202          251 SEMKI  255 (329)
Q Consensus       251 ~~~~~  255 (329)
                      ..+..
T Consensus       260 ~qL~~  264 (290)
T PF04733_consen  260 SQLKQ  264 (290)
T ss_dssp             HHCHH
T ss_pred             HHHHH
Confidence            44443

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.19  E-value=4.1e-07  Score=70.57  Aligned_cols=305  Identities=10%  Similarity=0.058  Sum_probs=222.5

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHH-
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTY-   90 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-   90 (329)
                      +-+.++.-..-+.+.+...|++..|+.-|...++.+ |.+-.++..-...|...|+-..|+.=+.+.++.  +||-..- 
T Consensus        33 ~~~advekhlElGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~AR  109 (504)
T KOG0624|consen   33 ASPADVEKHLELGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAAR  109 (504)
T ss_pred             CCHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHH
Confidence            334455666777888889999999999999998876 555555555667888889888888888888765  6665322 


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc----c------------HHHHHHHHHhcCChHHHHHHHHHHHHcCCc
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR----G------------RDLLVQGLLNAGYLESAKQMVNKMIKQGFV  154 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (329)
                      ..-...+.+.|.++.|..=|+.+.+..  |+..    .            ....+..+...|+...|+.....+.+..+ 
T Consensus       110 iQRg~vllK~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~-  186 (504)
T KOG0624|consen  110 IQRGVVLLKQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQP-  186 (504)
T ss_pred             HHhchhhhhcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCc-
Confidence            122345778999999999999998765  3211    1            12234556678999999999999998743 


Q ss_pred             cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh----H
Q 020202          155 LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSL----Y  230 (329)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~  230 (329)
                      -|...+..-..+|...|++..|+.-++...+... .+..++--+-..+...|+.+.++...++..+.  .|+...    |
T Consensus       187 Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~Y  263 (504)
T KOG0624|consen  187 WDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFY  263 (504)
T ss_pred             chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHH
Confidence            3888888889999999999999888877766543 45566666777788889999999998888775  344332    2


Q ss_pred             HHH---------HHHHHccCChhHHHHHHHHHHHcCCCCC---hhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC-h
Q 020202          231 API---------IKGMFRRGQFDDAFCFFSEMKIKGHPPN---RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI-S  297 (329)
Q Consensus       231 ~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~  297 (329)
                      -.+         +......++|.++....+...+......   ...+..+-.++...+++.+|++...+..+.  .|+ .
T Consensus       264 KklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv  341 (504)
T KOG0624|consen  264 KKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDV  341 (504)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHH
Confidence            111         1223456777777777777766532212   234455667777889999999999998864  454 8


Q ss_pred             hhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          298 RCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       298 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      .++..-..+|.-...++.|+.=++.+.+++
T Consensus       342 ~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  342 QVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            888888899999999999999888887765

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

Probab=99.18  E-value=7.9e-07  Score=74.53  Aligned_cols=67  Identities=21%  Similarity=0.229  Sum_probs=49.6

Q ss_pred             CCChhhHH--HHHHHHhccCCHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          259 PPNRPVYT--MLITMCGRGGRFVEAANYLVEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       259 ~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      +|+...|+  .++..+-+.|+++.|..+++..++.  .|+ ...|..-.+.+...|+.++|...++..++++
T Consensus       366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD  435 (700)
T KOG1156|consen  366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD  435 (700)
T ss_pred             CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence            44444443  4556677889999999999888754  455 4566666688889999999999988888775

>PLN02789 farnesyltranstransferase

Probab=99.16  E-value=1.8e-07  Score=74.78  Aligned_cols=214  Identities=8%  Similarity=-0.002  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC-chhHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG-KMREAQEFLQEMSDKGFNPPVRGRDLLVQGL  132 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (329)
                      ++..+-..+...+..++|+.++.+++..... +..+|+.--.++...| ++++++..++.+.+.+ +.+..+|+.....+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHH
Confidence            3444444455566667777777776665322 3344554444555555 4566777777666654 33445565555555


Q ss_pred             HhcCCh--HHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc---CC
Q 020202          133 LNAGYL--ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA---GM  207 (329)
Q Consensus       133 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~  207 (329)
                      .+.|+.  ++++..++++.+.... +..+|+...-++...|+++++++.++++++.++ .+...|+.....+.+.   |.
T Consensus       117 ~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhcccccc
Confidence            555542  4556666666665443 566666666666666667777777777666554 3444555444444332   11


Q ss_pred             H----HHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc----CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 020202          208 I----DEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR----GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCG  273 (329)
Q Consensus       208 ~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (329)
                      .    ++...+..+++...+. |...|+.+...+...    +...+|..++.+....+ +.+......|+..|+
T Consensus       195 ~~~~~e~el~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~  266 (320)
T PLN02789        195 LEAMRDSELKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLC  266 (320)
T ss_pred             ccccHHHHHHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHH
Confidence            1    2344444444443322 444555555444442    22334555555544332 223444444555544

>PLN02789 farnesyltranstransferase

Probab=99.15  E-value=2.4e-07  Score=74.12  Aligned_cols=215  Identities=7%  Similarity=0.023  Sum_probs=160.9

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc-hHHHHHHHHHHHHHcCCccChHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK-LFHGAYALIRRMIRKGFVPDKRTYAILVNAW   97 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (329)
                      ++..+-..+...+..++|+.+.+++++.+ |-+..+|+.--.++...| ++++++..++++.....+ +..+|+.-...+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHH
Confidence            34455566667889999999999999887 777788887777777777 689999999999987644 556777665556


Q ss_pred             HhcCch--hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc---CC
Q 020202           98 CSSGKM--REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS---GE  172 (329)
Q Consensus        98 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~  172 (329)
                      .+.|..  +++..+++.+.+.. +-+..+|+....++...|+++++++.++++++.++. +...|+.....+.+.   |.
T Consensus       117 ~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhcccccc
Confidence            666653  67888998988776 567889999999999999999999999999998766 677777766665544   22


Q ss_pred             ----HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 020202          173 ----VEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA----GMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR  239 (329)
Q Consensus       173 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  239 (329)
                          .++..+...+.+...+ -+...|+.+...+...    +...+|...+.+....++ .+......|+..|+.
T Consensus       195 ~~~~~e~el~y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~-~s~~al~~l~d~~~~  267 (320)
T PLN02789        195 LEAMRDSELKYTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS-NHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccHHHHHHHHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC-CcHHHHHHHHHHHHh
Confidence                2456677767766554 5677888888888763    344668888877666443 256667777777764

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

Probab=99.11  E-value=5.1e-08  Score=80.34  Aligned_cols=223  Identities=13%  Similarity=0.108  Sum_probs=128.0

Q ss_pred             HHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhH
Q 020202           26 EFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMRE  105 (329)
Q Consensus        26 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  105 (329)
                      .+.+.|++.+|.-.|+..++.+ |-+...|-.|.......++-..|+..+++..+.... |....-.|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHH
Confidence            3457777888888888887776 777788888888888888777888888777766433 55666777777777777777


Q ss_pred             HHHHHHHHHhCCCCC--------CcccHHHHHHHHHhcCChHHHHHHHHHHH-HcCCccCHHhHHHHHHHHHccCCHHHH
Q 020202          106 AQEFLQEMSDKGFNP--------PVRGRDLLVQGLLNAGYLESAKQMVNKMI-KQGFVLDLETFNSLIETICKSGEVEFC  176 (329)
Q Consensus       106 a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a  176 (329)
                      |.+.++.-+....+-        +...-..  ..+.....+....++|-++. +.+..+|+.+...|.-.|.-.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            777777665432100        0000000  01111112233333333332 233334555555666666666666666


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          177 VEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      ...|+......+ -|..+||.|...+....+..+|..-|.+..+..+.. ..+...|.-+|...|.+++|.+.|-..+
T Consensus       450 iDcf~~AL~v~P-nd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~y-VR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  450 VDCFEAALQVKP-NDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGY-VRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHhcCC-chHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCe-eeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            666666655433 345566666666666666666666666665532211 2233334455666666666665554443

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

Probab=99.07  E-value=3.7e-06  Score=70.71  Aligned_cols=300  Identities=12%  Similarity=0.119  Sum_probs=182.7

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc----------------------hHHHHHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK----------------------LFHGAYALI   75 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------------~~~~a~~~~   75 (329)
                      ..|++|.+.|.+.|.++.|..+|++....-  .++.-|..+.++|+.-.                      +++-....|
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            457889999999999999999998877542  33444444544444311                      112223333


Q ss_pred             HHHHHcCC-----------ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC------cccHHHHHHHHHhcCCh
Q 020202           76 RRMIRKGF-----------VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPP------VRGRDLLVQGLLNAGYL  138 (329)
Q Consensus        76 ~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~  138 (329)
                      +.+.....           +.+...|..-..  ...|+..+-...+.+..+. +.|.      ...|..+.+.|-..|+.
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            33332210           001122222211  2235556666666666543 2221      34577888899999999


Q ss_pred             HHHHHHHHHHHHcCCccC---HHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC----------CC-------chhhHHHH
Q 020202          139 ESAKQMVNKMIKQGFVLD---LETFNSLIETICKSGEVEFCVEMYYSVCKLGL----------CA-------DVSTYKIL  198 (329)
Q Consensus       139 ~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~-------~~~~~~~l  198 (329)
                      +.|..+|++..+-..+.-   ..+|......-.+..+++.|+++.+.....--          .|       +...|...
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            999999999887644321   34566666666678888888888877643211          11       23455566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhc---
Q 020202          199 IPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR-PVYTMLITMCGR---  274 (329)
Q Consensus       199 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~---  274 (329)
                      +..--..|-++....+|+++.+..+. ++.........+-.+.-++++.+++++-...-..|+. ..|+..+.-+.+   
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ryg  562 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYG  562 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhc
Confidence            66666778888888999998877654 4444333444455666678888888776665334444 456666655543   


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCh-h-hHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          275 GGRFVEAANYLVEMTEMGLTPIS-R-CFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       275 ~~~~~~a~~~~~~~~~~~~~p~~-~-~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      ....+.|..+|++..+ |++|.. . .|-.....=.+.|....|..+++...
T Consensus       563 g~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  563 GTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             CCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3468889999999988 666653 2 23333333345677788888877643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.06  E-value=1.8e-06  Score=80.47  Aligned_cols=308  Identities=12%  Similarity=0.001  Sum_probs=194.8

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCC------Ccc--HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh---
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNC------QQC--VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK---   87 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---   87 (329)
                      ........+...|++++|...+......--      .+.  ......+...+...|++++|...+++....-...+.   
T Consensus       411 l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  490 (903)
T PRK04841        411 LVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSR  490 (903)
T ss_pred             hHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHH
Confidence            334445556678899999988887653210      111  122233344566789999999999887763211121   


Q ss_pred             -HHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---CC--CcccHHHHHHHHHhcCChHHHHHHHHHHHHc----CCc--c
Q 020202           88 -RTYAILVNAWCSSGKMREAQEFLQEMSDKGF---NP--PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GFV--L  155 (329)
Q Consensus        88 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~  155 (329)
                       ...+.+...+...|++++|...+++.....-   .+  ...+...+...+...|+++.|...+++..+.    +..  +
T Consensus       491 ~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~  570 (903)
T PRK04841        491 IVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLP  570 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhcccccc
Confidence             2345566677789999999999888764311   11  1234455667788899999999998876552    211  1


Q ss_pred             -CHHhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCChh
Q 020202          156 -DLETFNSLIETICKSGEVEFCVEMYYSVCKL----GLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG--HKPFPS  228 (329)
Q Consensus       156 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~  228 (329)
                       ....+..+...+...|++++|...+.+....    +.......+..+...+...|+++.|...++......  ......
T Consensus       571 ~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~  650 (903)
T PRK04841        571 MHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSD  650 (903)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHh
Confidence             1233445556677789999999988886542    111123345556677888999999999988875421  111111


Q ss_pred             --hH--HHHHHHHHccCChhHHHHHHHHHHHcCCCCCh---hhHHHHHHHHhccCCHHHHHHHHHHHHh----CCCCCC-
Q 020202          229 --LY--APIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR---PVYTMLITMCGRGGRFVEAANYLVEMTE----MGLTPI-  296 (329)
Q Consensus       229 --~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~p~-  296 (329)
                        ..  ...+..+...|+.+.|..++............   ..+..+..++...|++++|...+++...    .|..++ 
T Consensus       651 ~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~  730 (903)
T PRK04841        651 WIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDL  730 (903)
T ss_pred             HhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHH
Confidence              00  11224445678899999887765542111111   1134566778889999999999988764    233322 


Q ss_pred             hhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          297 SRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       297 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      ..+...+..++.+.|+.++|.+.+.....+
T Consensus       731 a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        731 NRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            356777788899999999999888776654

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

Probab=99.06  E-value=5e-06  Score=69.91  Aligned_cols=92  Identities=15%  Similarity=0.123  Sum_probs=70.0

Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 020202          230 YAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR-PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLK  308 (329)
Q Consensus       230 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  308 (329)
                      +-.+++.+-..|+++.|...++....+  .|+. ..|..-.+.+.+.|+.++|..++++..+.. .||...-..-..-..
T Consensus       374 ~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmL  450 (700)
T KOG1156|consen  374 LYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYML  450 (700)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHH
Confidence            445677888999999999999998876  4443 445555688899999999999999998765 356555545566677


Q ss_pred             hCCchhHHHHHHHHHh
Q 020202          309 NCGKHDLAEKIELLEV  324 (329)
Q Consensus       309 ~~g~~~~a~~~~~~~~  324 (329)
                      ++.+.++|.++..+..
T Consensus       451 rAn~i~eA~~~~skFT  466 (700)
T KOG1156|consen  451 RANEIEEAEEVLSKFT  466 (700)
T ss_pred             HccccHHHHHHHHHhh
Confidence            8889999988866543

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

Probab=99.03  E-value=7e-07  Score=81.01  Aligned_cols=231  Identities=12%  Similarity=0.077  Sum_probs=173.1

Q ss_pred             ChHHHHHHHHHHHhcCchhHHHHHHHHHHhC-CCCC---CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHH
Q 020202           86 DKRTYAILVNAWCSSGKMREAQEFLQEMSDK-GFNP---PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFN  161 (329)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  161 (329)
                      +...|-..|......++.++|.++.++.... ++.-   -...|.++++.-..-|.-+...++|+++.+.  .-....|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            4557888888888889999999998888653 1111   1346777777777788888888999988876  22456788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CChhhHHHHHHHHHcc
Q 020202          162 SLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHK-PFPSLYAPIIKGMFRR  240 (329)
Q Consensus       162 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~  240 (329)
                      .|...|.+.+.+++|.++++.|.+.-- -....|...+..+.+.++-+.|..++.+..+.-++ -......-.+..-.+.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            888999999999999999999987532 45678888888999999999999999888765221 1233444455566788


Q ss_pred             CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHhCCchhHHHH
Q 020202          241 GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI--SRCFDLVTDGLKNCGKHDLAEK  318 (329)
Q Consensus       241 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~  318 (329)
                      |+.+++..+|+..... .|--...|+.+++.-.++|+.+.+..+|++.+..++.|.  ...|...++.=...|+-+.++.
T Consensus      1614 GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~ 1692 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEY 1692 (1710)
T ss_pred             CCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHH
Confidence            9999999999988876 334667899999999999999999999999998887765  3456666665556676666555


Q ss_pred             HH
Q 020202          319 IE  320 (329)
Q Consensus       319 ~~  320 (329)
                      +-
T Consensus      1693 VK 1694 (1710)
T KOG1070|consen 1693 VK 1694 (1710)
T ss_pred             HH
Confidence            53

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

Probab=99.03  E-value=5.1e-07  Score=80.53  Aligned_cols=221  Identities=10%  Similarity=0.078  Sum_probs=127.3

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      .+...+..|+..+...+++++|.++.+...+.. |.....|-.+...+.+.++.+.+..+                 .++
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l   90 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL-----------------NLI   90 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh-----------------hhh
Confidence            355677888888888888888888888666654 44444554444455565554443332                 333


Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHH
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVE  174 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  174 (329)
                      .......++..+..+...+...+  -+...+..+..+|-+.|+.++|..+++++.+..+. |+.+.|.+.-.|... +++
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHH
Confidence            33444444444444444454432  34456667777777777777777777777777633 677777777777777 777


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-------------------CCCChhhHHHHHH
Q 020202          175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG-------------------HKPFPSLYAPIIK  235 (329)
Q Consensus       175 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------------------~~~~~~~~~~l~~  235 (329)
                      +|.+++.+....               +...+++..+..+|.++....                   ..--..++-.+-.
T Consensus       167 KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~  231 (906)
T PRK14720        167 KAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYE  231 (906)
T ss_pred             HHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHH
Confidence            777777766543               233334444444444444332                   1112333444445


Q ss_pred             HHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 020202          236 GMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCG  273 (329)
Q Consensus       236 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (329)
                      .|....+++++..+++.+.+.... |.....-++.+|.
T Consensus       232 ~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        232 PYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            555556666666666666655322 4444444555444

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

Probab=99.03  E-value=1.8e-06  Score=70.87  Aligned_cols=126  Identities=14%  Similarity=0.158  Sum_probs=79.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChhhH-------------------------HHHHHHHHccCChhHHHHHHHHHH
Q 020202          200 PAVSKAGMIDEAFRLLHNLVEDGHKPFPSLY-------------------------APIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       200 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------------------~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      .+|.+.++++.+...|.+.......|+...-                         ..-...+.+.|++..|...|.+++
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAI  385 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAI  385 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            3555566777777777765544333332210                         011234567778888888888877


Q ss_pred             HcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          255 IKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ... +-|...|..-.-+|.+.|.+..|++-.+..++.. ++....|..=..++....+|+.|.+.+....+++
T Consensus       386 kr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  386 KRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             hcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            764 4567777777778888888888777777766653 2335555555556666677777777777766654

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

Probab=99.03  E-value=6.3e-08  Score=81.96  Aligned_cols=241  Identities=15%  Similarity=0.188  Sum_probs=183.8

Q ss_pred             CCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHH
Q 020202           11 YNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTY   90 (329)
Q Consensus        11 ~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   90 (329)
                      .+++|-...-..+...+...|-...|..+|++..         .|..++.+|...|+..+|..+..+..++  +||+..|
T Consensus       392 ~~lpp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~ly  460 (777)
T KOG1128|consen  392 PHLPPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLY  460 (777)
T ss_pred             CCCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhH
Confidence            3566666777888899999999999999998854         4667888999999999999998887773  7788889


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS  170 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (329)
                      ..+.+......-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+.- ...+|-.+.-+..+.
T Consensus       461 c~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALql  532 (777)
T KOG1128|consen  461 CLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQL  532 (777)
T ss_pred             HHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHH
Confidence            98888887777788888887765432       1122222334478899999999887766432 567888888888899


Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                      ++++.|.+.|.......+ .+...||.+-.+|.+.++..+|...+.+..+.+.. +...|...+....+.|.++.|.+.+
T Consensus       533 ek~q~av~aF~rcvtL~P-d~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~  610 (777)
T KOG1128|consen  533 EKEQAAVKAFHRCVTLEP-DNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAY  610 (777)
T ss_pred             hhhHHHHHHHHHHhhcCC-CchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHH
Confidence            999999999998877543 45678999999999999999999999999888743 5667777778888999999999998


Q ss_pred             HHHHHcCC-CCChhhHHHHHHHH
Q 020202          251 SEMKIKGH-PPNRPVYTMLITMC  272 (329)
Q Consensus       251 ~~~~~~~~-~~~~~~~~~l~~~~  272 (329)
                      .++..... .-|......++...
T Consensus       611 ~rll~~~~~~~d~~vl~~iv~~~  633 (777)
T KOG1128|consen  611 HRLLDLRKKYKDDEVLLIIVRTV  633 (777)
T ss_pred             HHHHHhhhhcccchhhHHHHHHH
Confidence            88765411 11444444444443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.03  E-value=1.9e-07  Score=72.32  Aligned_cols=185  Identities=18%  Similarity=0.059  Sum_probs=111.7

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccH---HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh--HHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCV---LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK--RTY   90 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~   90 (329)
                      .+..+..+...+...|++++|...|+++.... |.+.   .++..+..++...|++++|...++++.+.......  .++
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            45566666677777777777777777776654 3222   35566677777777777777777777765322111  133


Q ss_pred             HHHHHHHHhc--------CchhHHHHHHHHHHhCCCCCCc-ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHH
Q 020202           91 AILVNAWCSS--------GKMREAQEFLQEMSDKGFNPPV-RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFN  161 (329)
Q Consensus        91 ~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  161 (329)
                      ..+..++...        |+.+.|.+.++.+....  |+. ..+..+.....    ...      ..        .....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~------~~--------~~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN------RL--------AGKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH------HH--------HHHHH
Confidence            3344444433        56667777777766543  222 12211111000    000      00        00112


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCC--CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          162 SLIETICKSGEVEFCVEMYYSVCKLGLC--ADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       162 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      .+...+.+.|++++|...++...+..+.  .....+..+..++.+.|++++|..+++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4556788889999999999998776431  23567888889999999999999988887654

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).

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

Probab=99.02  E-value=2.3e-07  Score=76.62  Aligned_cols=252  Identities=14%  Similarity=0.104  Sum_probs=185.7

Q ss_pred             HHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH
Q 020202           61 ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLES  140 (329)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  140 (329)
                      -+.+.|++.+|.-.|+..+...+. +...|..|.......++-..|+..+++..+.. +-|....-.|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            456788899999999988887644 77889999999999999899999999998875 5567778888888999999999


Q ss_pred             HHHHHHHHHHcCCcc--------CHHhHHHHHHHHHccCCHHHHHHHHHHHH-HcCCCCchhhHHHHHHHHHhcCCHHHH
Q 020202          141 AKQMVNKMIKQGFVL--------DLETFNSLIETICKSGEVEFCVEMYYSVC-KLGLCADVSTYKILIPAVSKAGMIDEA  211 (329)
Q Consensus       141 a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a  211 (329)
                      |++.++.-+...++-        +...-..  ........+....++|-++. ..+..+|+.....|.-.|--.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            999998776542110        0000000  11122223445555665554 344457888888888889999999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          212 FRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR-PVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      .+.|+.+....+. |..+||.|...++...+.++|+..|.++++.  .|+. .....|.-+|...|.+++|.+.|-..+.
T Consensus       450 iDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999999886543 6788999999999999999999999999986  5553 4556678889999999999998877552


Q ss_pred             ---C------CCCCChhhHHHHHHHHHhCCchhHHHHH
Q 020202          291 ---M------GLTPISRCFDLVTDGLKNCGKHDLAEKI  319 (329)
Q Consensus       291 ---~------~~~p~~~~~~~l~~~~~~~g~~~~a~~~  319 (329)
                         .      +..++...|..|=.++.-.++.|.+.++
T Consensus       527 mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  527 MQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence               2      1122345777777777777777755444

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

Probab=99.02  E-value=8.9e-07  Score=80.37  Aligned_cols=239  Identities=11%  Similarity=0.047  Sum_probs=186.6

Q ss_pred             HHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc-----ChHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 020202           40 FNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP-----DKRTYAILVNAWCSSGKMREAQEFLQEMS  114 (329)
Q Consensus        40 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  114 (329)
                      |++..... |.+...|-..|....+.++.++|.++.++.+.. +.+     -...|.++++.-...|.-+...++|+++.
T Consensus      1447 ferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAc 1524 (1710)
T KOG1070|consen 1447 FERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERAC 1524 (1710)
T ss_pred             HHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHH
Confidence            34444443 667788999999999999999999999998864 222     22467777877777888888999999998


Q ss_pred             hCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-chh
Q 020202          115 DKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCA-DVS  193 (329)
Q Consensus       115 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~  193 (329)
                      +..  -.-..|..|...|.+.+.+++|-++++.|.+.-- -....|...+..+.+.++-+.|..++.+..+.-+.- ...
T Consensus      1525 qyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~ 1601 (1710)
T KOG1070|consen 1525 QYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVE 1601 (1710)
T ss_pred             Hhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHH
Confidence            864  2245688899999999999999999999998732 477899999999999999999999999988753321 234


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh--hhHHHHHHH
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR--PVYTMLITM  271 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~  271 (329)
                      .....+..-.+.|+.+++..+|+......++ -...|+.++..-.+.|+.+.+..+|++....++.|-.  ..|...+..
T Consensus      1602 ~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLey 1680 (1710)
T KOG1070|consen 1602 FISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEY 1680 (1710)
T ss_pred             HHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHH
Confidence            5556666778899999999999999877544 6788999999999999999999999999998776543  345555554


Q ss_pred             HhccCCHHHHHHH
Q 020202          272 CGRGGRFVEAANY  284 (329)
Q Consensus       272 ~~~~~~~~~a~~~  284 (329)
                      =-..|+-..+..+
T Consensus      1681 Ek~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1681 EKSHGDEKNVEYV 1693 (1710)
T ss_pred             HHhcCchhhHHHH
Confidence            4455665444443

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

Probab=99.00  E-value=5.2e-06  Score=69.85  Aligned_cols=296  Identities=16%  Similarity=0.189  Sum_probs=158.7

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhc-CCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAF-NCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      -+..+.++|++......|+..... .+.....+|...+......+-++-+..+|++.++.    ++..-+..+..++..+
T Consensus       108 Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d  183 (835)
T KOG2047|consen  108 YLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSD  183 (835)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhcc
Confidence            334444555555555555555432 11222344555555555555555555555555543    2222444455555555


Q ss_pred             chhHHHHHHHHHHhC----------------------------------------CC--CCC--cccHHHHHHHHHhcCC
Q 020202          102 KMREAQEFLQEMSDK----------------------------------------GF--NPP--VRGRDLLVQGLLNAGY  137 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~----------------------------------------~~--~~~--~~~~~~l~~~~~~~~~  137 (329)
                      ++++|-+.+......                                        |+  -+|  ...|.+|.+.|.+.|+
T Consensus       184 ~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~  263 (835)
T KOG2047|consen  184 RLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGL  263 (835)
T ss_pred             chHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhh
Confidence            555555544443211                                        10  011  2346667777777777


Q ss_pred             hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC----------------------HHHHHHHHHHHHHcCC-------
Q 020202          138 LESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE----------------------VEFCVEMYYSVCKLGL-------  188 (329)
Q Consensus       138 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------------------~~~a~~~~~~~~~~~~-------  188 (329)
                      +++|.+++++....  ..+..-|+.+..+|+.-..                      ++-...-|+.+...++       
T Consensus       264 ~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVl  341 (835)
T KOG2047|consen  264 FEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVL  341 (835)
T ss_pred             hHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHH
Confidence            77777777776655  2234444444444433111                      1112222222222110       


Q ss_pred             ----CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC------hhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 020202          189 ----CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPF------PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH  258 (329)
Q Consensus       189 ----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  258 (329)
                          +.++..|..-+.  ...|+..+-...|.++... +.|.      ...|..+.+.|...|+++.|..+|++......
T Consensus       342 LRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y  418 (835)
T KOG2047|consen  342 LRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPY  418 (835)
T ss_pred             HhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCc
Confidence                012222222222  1235666667777776654 2221      23577788889999999999999999887643


Q ss_pred             CCC---hhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC----------C-------ChhhHHHHHHHHHhCCchhHHHH
Q 020202          259 PPN---RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLT----------P-------ISRCFDLVTDGLKNCGKHDLAEK  318 (329)
Q Consensus       259 ~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------p-------~~~~~~~l~~~~~~~g~~~~a~~  318 (329)
                      +--   ..+|-.....=.+..+++.|+++.++..-..-.          |       +...|..+++.-...|-++.-+.
T Consensus       419 ~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~  498 (835)
T KOG2047|consen  419 KTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKA  498 (835)
T ss_pred             cchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHH
Confidence            311   233444444445678888888888776521111          1       23456667777777888888888


Q ss_pred             HHHHHhhhc
Q 020202          319 IELLEVSLR  327 (329)
Q Consensus       319 ~~~~~~~~~  327 (329)
                      +++....++
T Consensus       499 vYdriidLr  507 (835)
T KOG2047|consen  499 VYDRIIDLR  507 (835)
T ss_pred             HHHHHHHHh
Confidence            888877665

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.95  E-value=5.4e-06  Score=64.86  Aligned_cols=92  Identities=14%  Similarity=0.106  Sum_probs=54.7

Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCChhhHH-HHHHHHhccCCHHHHHHHHHHHHhCCCCCCh-hhHHHHHHHHHhC
Q 020202          233 IIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYT-MLITMCGRGGRFVEAANYLVEMTEMGLTPIS-RCFDLVTDGLKNC  310 (329)
Q Consensus       233 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~  310 (329)
                      +.++++..|++.+|+++|-.+....++ |..+|. .|.++|.+.+.++.|+.++-.+.   -+.+. .....+..-|.++
T Consensus       399 ~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  399 LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTN---TPSERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcC---CchhHHHHHHHHHHHHHHH
Confidence            556666677777777777666554444 444554 34567777788777777664442   12222 2334445566677


Q ss_pred             CchhHHHHHHHHHhhhcc
Q 020202          311 GKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       311 g~~~~a~~~~~~~~~~~~  328 (329)
                      +.+--|-+.+.....+++
T Consensus       475 ~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEILDP  492 (557)
T ss_pred             HHHHHHHHhhhHHHccCC
Confidence            777766666666555543

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

Probab=98.95  E-value=7.7e-07  Score=75.63  Aligned_cols=216  Identities=15%  Similarity=0.039  Sum_probs=145.3

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS  170 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (329)
                      ..+...+...|-...|..+++++.         .|.-.+.+|...|+.++|..+..+..+.  +|++..|..+.......
T Consensus       402 ~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDP  470 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccCh
Confidence            345566667777777777777654         3556778888888888888888777773  66778888877777666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                      .-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+. .-..+|-.+..+..+.+++..|.+.|
T Consensus       471 s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av~aF  542 (777)
T KOG1128|consen  471 SLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAVKAF  542 (777)
T ss_pred             HHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHHHHH
Confidence            6677777777664332       111111122335777777777776555432 24566666777777777777777777


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          251 SEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ...... -+-+...||.+-.+|.+.++-.+|...+++..+.+ .-+-..|...+-...+.|.+++|.+.+..+..++
T Consensus       543 ~rcvtL-~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  543 HRCVTL-EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHhhc-CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            777654 23355677777777877777777888777777666 3355566666666777777877777777666554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.94  E-value=2.4e-06  Score=65.22  Aligned_cols=261  Identities=13%  Similarity=0.118  Sum_probs=171.6

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHH-HHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYN-SLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      +....+.|..+|-...++..|-..++++-...  |...-|. --...+.+.+.+..|+.+...|...   |+...-..-+
T Consensus        43 ~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqL  117 (459)
T KOG4340|consen   43 SRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQL  117 (459)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHH
Confidence            66778888999999999999999999987754  4444333 2346677888899999998877643   2222212222


Q ss_pred             H--HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC
Q 020202           95 N--AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE  172 (329)
Q Consensus        95 ~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  172 (329)
                      .  .....+++..+..++++....|   +..+.+...-...+.|+++.|.+-|+...+-+--.+...|+..+.. .+.++
T Consensus       118 qaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~q  193 (459)
T KOG4340|consen  118 QAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQ  193 (459)
T ss_pred             HHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-Hhhhh
Confidence            2  2345678888888888776443   3444444455567889999999999988876433355667665544 46688


Q ss_pred             HHHHHHHHHHHHHcCCCC-------------ch---------------hhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CC
Q 020202          173 VEFCVEMYYSVCKLGLCA-------------DV---------------STYKILIPAVSKAGMIDEAFRLLHNLVED-GH  223 (329)
Q Consensus       173 ~~~a~~~~~~~~~~~~~~-------------~~---------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~  223 (329)
                      ++.|++...++.+.|+..             |+               ..+|.-...+.+.++++.|.+-+-.|... ..
T Consensus       194 yasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~  273 (459)
T KOG4340|consen  194 YASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEE  273 (459)
T ss_pred             HHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccc
Confidence            899999998888776421             11               12222333345778888888888777633 33


Q ss_pred             CCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHH
Q 020202          224 KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVE  287 (329)
Q Consensus       224 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  287 (329)
                      ..|+.|...+.-.- -.+++....+-+.-+...+. -...||..++-.|++..-++.|-.++.+
T Consensus       274 elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  274 ELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             cCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            45667766554332 23445555554555555432 3457888888899999888888887755

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

Probab=98.92  E-value=1.4e-06  Score=65.01  Aligned_cols=118  Identities=12%  Similarity=0.102  Sum_probs=55.2

Q ss_pred             CChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHH-HHhcCC--HHHHH
Q 020202          136 GYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA-VSKAGM--IDEAF  212 (329)
Q Consensus       136 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a~  212 (329)
                      ++.+++...+++..+.+.. +...|..+...|...|++++|...|++..+..+ .+...+..+..+ +...|+  .++|.
T Consensus        53 ~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         53 QTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             hhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            3344444444444444322 444555555555555555555555555544432 233444444443 233343  25555


Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          213 RLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       213 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      +++++..+.+.. +...+..+...+...|++++|...|+++.+.
T Consensus       131 ~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        131 EMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            555555544332 3444444555555555555555555555444

>PF12854 PPR_1: PPR repeat

Probab=98.91  E-value=2.5e-09  Score=54.22  Aligned_cols=32  Identities=28%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHh
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKC   43 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   43 (329)
                      |++||..+|+.||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55566666666666666666666666666555

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.91  E-value=1e-06  Score=68.31  Aligned_cols=188  Identities=11%  Similarity=-0.035  Sum_probs=129.8

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc-c-ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc---
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV-P-DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR---  123 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---  123 (329)
                      ......+..+...+...|++++|...|+++...... | ...++..+..++...|++++|...++.+.+.. +.+..   
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~  108 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADY  108 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHH
Confidence            345667788888899999999999999998875321 1 12466778889999999999999999998764 22222   


Q ss_pred             cHHHHHHHHHhc--------CChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhH
Q 020202          124 GRDLLVQGLLNA--------GYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTY  195 (329)
Q Consensus       124 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  195 (329)
                      ++..+..++...        |++++|.+.++.+.+.... +...+..+.....    ...      ..        ....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~------~~--------~~~~  169 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRN------RL--------AGKE  169 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHH------HH--------HHHH
Confidence            345555555544        6788888888888876322 2222222211100    000      00        0112


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          196 KILIPAVSKAGMIDEAFRLLHNLVEDGH--KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       196 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      ..+...+.+.|++++|...++...+...  +.....+..+..++...|++++|..+++.+...
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            2456778999999999999999987632  223568889999999999999999999988765

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

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

Probab=98.90  E-value=9.7e-07  Score=66.01  Aligned_cols=160  Identities=16%  Similarity=0.059  Sum_probs=101.6

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS  170 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (329)
                      ..+-..+...|+-+....+........ +.+.......+....+.|++..|...+.+..... ++|...|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            555566666666666666665543322 2344445556677777777777777777766654 34677777777777777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                      |+.+.|..-|.+..+..+ -+....+.+.-.+.-.|+.+.|..++......+.. +..+-..+.......|++++|.++.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            777777777777666433 34556666666666677777777777776655432 4555556666677777777777766


Q ss_pred             HHHH
Q 020202          251 SEMK  254 (329)
Q Consensus       251 ~~~~  254 (329)
                      ..-.
T Consensus       226 ~~e~  229 (257)
T COG5010         226 VQEL  229 (257)
T ss_pred             cccc
Confidence            5443

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

Probab=98.90  E-value=2.2e-05  Score=64.93  Aligned_cols=130  Identities=13%  Similarity=0.064  Sum_probs=103.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 020202          193 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP-FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITM  271 (329)
Q Consensus       193 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  271 (329)
                      .+|...+....+..-+..|..+|.++.+.+..+ +..++++++..+| .++.+-|.++|+--... ...++.--...+.-
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~Yldf  444 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDF  444 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHH
Confidence            467777777788888999999999999887766 6677888888666 56789999999877655 23333444567777


Q ss_pred             HhccCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          272 CGRGGRFVEAANYLVEMTEMGLTPI--SRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       272 ~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      +...|+-..+..+|++....++.|+  ...|..+++-=..-|+...+.++.+.+.
T Consensus       445 L~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~  499 (656)
T KOG1914|consen  445 LSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRF  499 (656)
T ss_pred             HHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            7888998999999999998877766  5799999998888999999998876654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.89  E-value=9.4e-08  Score=67.43  Aligned_cols=95  Identities=13%  Similarity=-0.034  Sum_probs=59.9

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN  134 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  134 (329)
                      +..+...+...|++++|...|+......+ .+...|..+..++...|++++|...|+.....+ +.+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            33455566666666666666666665532 255566666666666666666666666666654 4455666666666666


Q ss_pred             cCChHHHHHHHHHHHHc
Q 020202          135 AGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       135 ~~~~~~a~~~~~~~~~~  151 (329)
                      .|++++|...|+...+.
T Consensus       105 ~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        105 MGEPGLAREAFQTAIKM  121 (144)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666666655

>PF12854 PPR_1: PPR repeat

Probab=98.89  E-value=2.8e-09  Score=54.05  Aligned_cols=32  Identities=34%  Similarity=0.457  Sum_probs=15.4

Q ss_pred             CCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 020202          257 GHPPNRPVYTMLITMCGRGGRFVEAANYLVEM  288 (329)
Q Consensus       257 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  288 (329)
                      |+.||..||+.||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            34444444444444444444444444444444

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

Probab=98.87  E-value=1.9e-06  Score=64.25  Aligned_cols=121  Identities=12%  Similarity=0.128  Sum_probs=74.1

Q ss_pred             cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHH-HhcCC--hHHH
Q 020202           65 VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGL-LNAGY--LESA  141 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a  141 (329)
                      .++.+++...++...+.+ +.|...|..+...+...|++++|...+++..+.. +.+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            445555666666555543 2356666666667777777777777777666654 34555555555543 45555  3667


Q ss_pred             HHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          142 KQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      .+++++..+.+.. +...+..+...+...|++++|...|+++.+...
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            7777766666443 556666666666667777777777776666543

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

Probab=98.87  E-value=9.8e-06  Score=69.55  Aligned_cols=254  Identities=11%  Similarity=0.076  Sum_probs=166.7

Q ss_pred             hhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHH
Q 020202           33 VDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQE  112 (329)
Q Consensus        33 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  112 (329)
                      ..++++.+++..+.+ +.|+.+...+.--|+..++.+.|.+..++..+.+...+...|..+.-.+...+++.+|+.+.+.
T Consensus       460 h~kslqale~av~~d-~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~  538 (799)
T KOG4162|consen  460 HKKSLQALEEAVQFD-PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDA  538 (799)
T ss_pred             HHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            345677777777666 5555555555556777788888888888888775566777888888888888888888888776


Q ss_pred             HHhCCCCCC--------------------cccHHHHHHHHHh-----------------------cCChHHHHHHHHHHH
Q 020202          113 MSDKGFNPP--------------------VRGRDLLVQGLLN-----------------------AGYLESAKQMVNKMI  149 (329)
Q Consensus       113 ~~~~~~~~~--------------------~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~  149 (329)
                      ....- +.|                    ..|+..++..+-.                       ..+..++.+....+.
T Consensus       539 al~E~-~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls  617 (799)
T KOG4162|consen  539 ALEEF-GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLS  617 (799)
T ss_pred             HHHHh-hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHH
Confidence            65431 111                    1112222211110                       001111111111110


Q ss_pred             --------HcC---------Cc--cC------HHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 020202          150 --------KQG---------FV--LD------LETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK  204 (329)
Q Consensus       150 --------~~~---------~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  204 (329)
                              ..|         ..  |+      ...|......+.+.+..++|...+.+..... +.....|......+..
T Consensus       618 ~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~  696 (799)
T KOG4162|consen  618 SLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEV  696 (799)
T ss_pred             HHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHH
Confidence                    001         01  11      1124445556667777777777776665543 2455666666677888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHH--HHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHH
Q 020202          205 AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFC--FFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAA  282 (329)
Q Consensus       205 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  282 (329)
                      .|...+|.+.|......++. ++....++...+.+.|+..-|.+  ++.++.+.+ +.+...|-.+...+.+.|+.+.|-
T Consensus       697 ~~~~~EA~~af~~Al~ldP~-hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aa  774 (799)
T KOG4162|consen  697 KGQLEEAKEAFLVALALDPD-HVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAA  774 (799)
T ss_pred             HHhhHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHH
Confidence            89999999999988775433 46678889999999999888887  999999875 448889999999999999999999


Q ss_pred             HHHHHHHhC
Q 020202          283 NYLVEMTEM  291 (329)
Q Consensus       283 ~~~~~~~~~  291 (329)
                      +.|....+.
T Consensus       775 ecf~aa~qL  783 (799)
T KOG4162|consen  775 ECFQAALQL  783 (799)
T ss_pred             HHHHHHHhh
Confidence            999987753

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

Probab=98.87  E-value=6.7e-07  Score=66.84  Aligned_cols=167  Identities=16%  Similarity=0.087  Sum_probs=135.1

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      |-|... ..+-..+...|+-+....+........ +.|.......+....+.|++..|...+++..... ++|..+|+.+
T Consensus        64 p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~l  140 (257)
T COG5010          64 PEDLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLL  140 (257)
T ss_pred             cchHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHH
Confidence            445555 667777888888888888877755432 3355666678899999999999999999998775 7889999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  208 (329)
                      .-+|.+.|+.+.|..-|.+..+.... ++...+.+.-.+.-.|+.+.|..++......+. -|...-..+.......|++
T Consensus       141 gaaldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~  218 (257)
T COG5010         141 GAALDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDF  218 (257)
T ss_pred             HHHHHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCCh
Confidence            99999999999999999999887544 667788888888889999999999998877644 5677778888888999999


Q ss_pred             HHHHHHHHHHHh
Q 020202          209 DEAFRLLHNLVE  220 (329)
Q Consensus       209 ~~a~~~~~~~~~  220 (329)
                      +.|.++...-..
T Consensus       219 ~~A~~i~~~e~~  230 (257)
T COG5010         219 REAEDIAVQELL  230 (257)
T ss_pred             HHHHhhcccccc
Confidence            999988766443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.87  E-value=2.8e-05  Score=72.75  Aligned_cols=297  Identities=14%  Similarity=0.019  Sum_probs=175.3

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC------ccCh--HHHHHHHHHHHhc
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF------VPDK--RTYAILVNAWCSS  100 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~--~~~~~l~~~~~~~  100 (329)
                      ..|+++.+..+++.+.......+..........+...|+++++..++......--      .+..  .....+...+...
T Consensus       386 ~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  465 (903)
T PRK04841        386 NQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIND  465 (903)
T ss_pred             hcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhC
Confidence            3455555555554442111111222233344555677889999888887654311      1111  1222233455678


Q ss_pred             CchhHHHHHHHHHHhCCCCCCc----ccHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-ccCHHhHHHHHHHHHccC
Q 020202          101 GKMREAQEFLQEMSDKGFNPPV----RGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GF-VLDLETFNSLIETICKSG  171 (329)
Q Consensus       101 ~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~  171 (329)
                      |++++|...++.....-...+.    ...+.+...+...|++++|...+.+....    |. .....+...+...+...|
T Consensus       466 g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G  545 (903)
T PRK04841        466 GDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG  545 (903)
T ss_pred             CCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC
Confidence            9999999999887653111111    23455666677899999999998887643    11 111234455667788899


Q ss_pred             CHHHHHHHHHHHHHc----CCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCC--ChhhHHHHHHHHHcc
Q 020202          172 EVEFCVEMYYSVCKL----GLC--A-DVSTYKILIPAVSKAGMIDEAFRLLHNLVED--GHKP--FPSLYAPIIKGMFRR  240 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~~~~~~  240 (329)
                      +++.|...+++....    +..  + ....+..+...+...|++++|...+++....  ...+  ....+..+...+...
T Consensus       546 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  625 (903)
T PRK04841        546 FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLAR  625 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHc
Confidence            999999988876542    211  1 2233445556677789999999998886543  1111  233444566677889


Q ss_pred             CChhHHHHHHHHHHHcCCCC-ChhhH-----HHHHHHHhccCCHHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHHhCC
Q 020202          241 GQFDDAFCFFSEMKIKGHPP-NRPVY-----TMLITMCGRGGRFVEAANYLVEMTEMGLTPI---SRCFDLVTDGLKNCG  311 (329)
Q Consensus       241 ~~~~~a~~~~~~~~~~~~~~-~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g  311 (329)
                      |+++.|...+.......... ....+     ...+..+...|+.+.|..++...........   ...+..+..++...|
T Consensus       626 G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g  705 (903)
T PRK04841        626 GDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLG  705 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcC
Confidence            99999999888875431110 11111     1112334557889999888776543211111   112456777888999


Q ss_pred             chhHHHHHHHHHhh
Q 020202          312 KHDLAEKIELLEVS  325 (329)
Q Consensus       312 ~~~~a~~~~~~~~~  325 (329)
                      ++++|...++....
T Consensus       706 ~~~~A~~~l~~al~  719 (903)
T PRK04841        706 QFDEAEIILEELNE  719 (903)
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999988776554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.85  E-value=5e-06  Score=73.44  Aligned_cols=148  Identities=9%  Similarity=0.010  Sum_probs=97.1

Q ss_pred             CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHH
Q 020202           48 CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDL  127 (329)
Q Consensus        48 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  127 (329)
                      ++.++..+..|.....+.|.+++|..+++...+..+. +......+...+.+.+++++|....++..+.. +-+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            3555677777777777777777777777777765221 34456666777777777777777777777664 344555566


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 020202          128 LVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILI  199 (329)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  199 (329)
                      +..++.+.|++++|..+|+++...+. -+..++..+..++...|+.++|...|+...+..- +....|+..+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~-~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG-DGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC-cchHHHHHHH
Confidence            66777777777777777777776432 2466777777777777777777777777765432 4444444443

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

Probab=98.84  E-value=8e-06  Score=61.35  Aligned_cols=250  Identities=15%  Similarity=0.130  Sum_probs=160.3

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      ++-+.-.|.+..++..-+......  .+...-.-+.++|...|.+.....-.   .. |-.|.......+......-++.
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~eI---~~-~~~~~lqAvr~~a~~~~~e~~~   88 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVISEI---KE-GKATPLQAVRLLAEYLELESNK   88 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccccccc---cc-ccCChHHHHHHHHHHhhCcchh
Confidence            345555788887776665554331  33444444667777777665544322   22 2234444444444444444444


Q ss_pred             hHH-HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          104 REA-QEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       104 ~~a-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      +.- .++.+.+.......+......-...|++.|++++|++......      +......=+..+.+..+.+-|.+.+++
T Consensus        89 ~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~  162 (299)
T KOG3081|consen   89 KSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKK  162 (299)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            443 3445555544433333333444567888999999999887722      333333444556778889999999999


Q ss_pred             HHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 020202          183 VCKLGLCADVSTYKILIPAVSK----AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH  258 (329)
Q Consensus       183 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  258 (329)
                      |.+.   .+..|.+.|..++.+    .+....|.-+|++|.++ ..|++.+.+-...++...|++++|..+++..+....
T Consensus       163 mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~  238 (299)
T KOG3081|consen  163 MQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA  238 (299)
T ss_pred             HHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC
Confidence            9874   456677777776654    45688999999998764 567888888889999999999999999999988744


Q ss_pred             CCChhhHHHHHHHHhccCCHHH-HHHHHHHHHh
Q 020202          259 PPNRPVYTMLITMCGRGGRFVE-AANYLVEMTE  290 (329)
Q Consensus       259 ~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~  290 (329)
                      . ++.+...++.+-...|...+ ..+.+..+..
T Consensus       239 ~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  239 K-DPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             C-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            3 66777777766666665544 4455666554

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

Probab=98.83  E-value=6.1e-06  Score=61.97  Aligned_cols=84  Identities=21%  Similarity=0.248  Sum_probs=38.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCH
Q 020202          203 SKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR----RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRF  278 (329)
Q Consensus       203 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  278 (329)
                      .+..+.+-|.+.+++|.+..   +..+.+.|..++.+    .+....|.-+|++|.++ .+|+..+.+....++...|++
T Consensus       148 lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~  223 (299)
T KOG3081|consen  148 LKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRY  223 (299)
T ss_pred             HHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCH
Confidence            34444555555555554421   23333333333322    23344455555555433 344445555555555555555


Q ss_pred             HHHHHHHHHHHh
Q 020202          279 VEAANYLVEMTE  290 (329)
Q Consensus       279 ~~a~~~~~~~~~  290 (329)
                      ++|..++++...
T Consensus       224 eeAe~lL~eaL~  235 (299)
T KOG3081|consen  224 EEAESLLEEALD  235 (299)
T ss_pred             HHHHHHHHHHHh
Confidence            555555555444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.82  E-value=1.9e-05  Score=61.98  Aligned_cols=56  Identities=16%  Similarity=0.109  Sum_probs=41.4

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHH
Q 020202          267 MLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELL  322 (329)
Q Consensus       267 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  322 (329)
                      .+.++.+..|.+.+|.++|-......++-+......|.++|.++++.+.|.+++-.
T Consensus       398 N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk  453 (557)
T KOG3785|consen  398 NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLK  453 (557)
T ss_pred             HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHh
Confidence            36677888999999999997776544443344445677889999999998877544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.80  E-value=1.3e-06  Score=61.70  Aligned_cols=96  Identities=13%  Similarity=-0.110  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      .+..+...+...|++++|...|+.....+ |.+...|..+..++...|++++|...|+.....+. .+...+..+..++.
T Consensus        26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p-~~~~a~~~lg~~l~  103 (144)
T PRK15359         26 TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA-SHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHH
Confidence            34444444555555555555555555444 44455555555555555555555555555554332 24444555555555


Q ss_pred             hcCchhHHHHHHHHHHhC
Q 020202           99 SSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~  116 (329)
                      ..|++++|...|+...+.
T Consensus       104 ~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359        104 MMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            555555555555555443

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

Probab=98.80  E-value=5.5e-05  Score=63.28  Aligned_cols=198  Identities=15%  Similarity=0.134  Sum_probs=133.2

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      ..-+=++.+...|++++|.+...++...+ |.+...+..-+-++++.+.+++|+.+.+.-...  ..+..-+-.-..+..
T Consensus        14 ~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   14 ALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHH
Confidence            33444677788899999999999999877 777888888888999999999999665442211  111111122344556


Q ss_pred             hcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc------------------------
Q 020202           99 SSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV------------------------  154 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------------------------  154 (329)
                      +.+..++|+..++-..    +.+..+...-.+.+.+.|++++|+++|..+.+.+..                        
T Consensus        91 rlnk~Dealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~  166 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQS  166 (652)
T ss_pred             HcccHHHHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHh
Confidence            7889999998887221    123346666778889999999999999988654321                        


Q ss_pred             ---cCHHhHHHHH---HHHHccCCHHHHHHHHHHHHHcC--------CC-----Cch-hhHHHHHHHHHhcCCHHHHHHH
Q 020202          155 ---LDLETFNSLI---ETICKSGEVEFCVEMYYSVCKLG--------LC-----ADV-STYKILIPAVSKAGMIDEAFRL  214 (329)
Q Consensus       155 ---~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~--------~~-----~~~-~~~~~l~~~~~~~~~~~~a~~~  214 (329)
                         ....+|..+.   ..+...|++.+|+++++...+.+        ..     ... ..-..+.-++...|+.++|..+
T Consensus       167 v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~i  246 (652)
T KOG2376|consen  167 VPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSI  246 (652)
T ss_pred             ccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence               0112333333   34566899999999999873211        10     001 1223455567788999999999


Q ss_pred             HHHHHhCCC
Q 020202          215 LHNLVEDGH  223 (329)
Q Consensus       215 ~~~~~~~~~  223 (329)
                      +..++....
T Consensus       247 y~~~i~~~~  255 (652)
T KOG2376|consen  247 YVDIIKRNP  255 (652)
T ss_pred             HHHHHHhcC
Confidence            999887653

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.76  E-value=3.8e-06  Score=74.17  Aligned_cols=163  Identities=11%  Similarity=0.068  Sum_probs=123.3

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHH
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYA   91 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (329)
                      .++.++..+-.|.....+.|..++|..+++...+.. |.+......+...+.+.+++++|...+++....... +.....
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~  158 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREIL  158 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHH
Confidence            345668888888888888899999999999888876 667788888888888899999999998888877533 666777


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccC
Q 020202           92 ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSG  171 (329)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  171 (329)
                      .+..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...|++..+.. .+....|+.++.      
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~------  230 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLV------  230 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHH------
Confidence            78888888899999999999888743 4457788888888888899999999988887763 223444444432      


Q ss_pred             CHHHHHHHHHHHH
Q 020202          172 EVEFCVEMYYSVC  184 (329)
Q Consensus       172 ~~~~a~~~~~~~~  184 (329)
                      +...-...++++.
T Consensus       231 ~~~~~~~~~~~~~  243 (694)
T PRK15179        231 DLNADLAALRRLG  243 (694)
T ss_pred             HHHHHHHHHHHcC
Confidence            2333444555554

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

Probab=98.72  E-value=1.5e-06  Score=60.95  Aligned_cols=92  Identities=17%  Similarity=0.097  Sum_probs=35.4

Q ss_pred             HHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 020202           57 SLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG  136 (329)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (329)
                      .+...+...|++++|.+.++.+...+ +.+...+..+..++...|++++|...++...+.+ +.+...+..+...+...|
T Consensus        22 ~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        22 ALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcC
Confidence            33333344444444444444433322 1133333333444444444444444444333332 222333333334444444


Q ss_pred             ChHHHHHHHHHHHH
Q 020202          137 YLESAKQMVNKMIK  150 (329)
Q Consensus       137 ~~~~a~~~~~~~~~  150 (329)
                      ++++|...++...+
T Consensus       100 ~~~~A~~~~~~al~  113 (135)
T TIGR02552       100 EPESALKALDLAIE  113 (135)
T ss_pred             CHHHHHHHHHHHHH
Confidence            44444444443333

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

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

Probab=98.72  E-value=2e-06  Score=60.22  Aligned_cols=107  Identities=13%  Similarity=0.075  Sum_probs=91.6

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      +......+...+...|++++|.+.|+.+...+ +.+...+..+..++...|++++|...++.....+ +.+...+..+..
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~   93 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAE   93 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHH
Confidence            45667778888999999999999999998877 7789999999999999999999999999988765 446778888899


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRD  126 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  126 (329)
                      ++...|++++|...++...+..  |+...+.
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~  122 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEIC--GENPEYS  122 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhc--cccchHH
Confidence            9999999999999999998864  5544433

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

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

Probab=98.71  E-value=6.2e-05  Score=66.97  Aligned_cols=276  Identities=16%  Similarity=0.137  Sum_probs=137.7

Q ss_pred             HHHhhhhhCCCC--CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcC--CCccHHHHHHHHHHHHhcchHHHHHHHHHHH
Q 020202            3 KTIELMKPYNLS--VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFN--CQQCVLLYNSLLFALCEVKLFHGAYALIRRM   78 (329)
Q Consensus         3 ~~~~~m~~~g~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   78 (329)
                      ++++...+.+++  -||+..+..+.++...+-..+-+++++++.-.+  ...+...-|.|+-...+. +..++.+..+++
T Consensus       968 qLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rL 1046 (1666)
T KOG0985|consen  968 QLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRL 1046 (1666)
T ss_pred             HHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHh
Confidence            345555555543  467778888888888888888888888876432  122333445555444443 344555666655


Q ss_pred             HHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---------------------CCCCcccHHHHHHHHHhcCC
Q 020202           79 IRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKG---------------------FNPPVRGRDLLVQGLLNAGY  137 (329)
Q Consensus        79 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------~~~~~~~~~~l~~~~~~~~~  137 (329)
                      ..-+ .|+      +...+...+-+++|..+|++.-..+                     --..+..|+.+..+-.+.|.
T Consensus      1047 dnyD-a~~------ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~ 1119 (1666)
T KOG0985|consen 1047 DNYD-APD------IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGL 1119 (1666)
T ss_pred             ccCC-chh------HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCc
Confidence            4332 112      2233344444555555554432110                     00123344444444444444


Q ss_pred             hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          138 LESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       138 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      ..+|.+-|-+..      |+..|...+....+.|.|++..+.+....+..-.|..  =+.|+-+|.+.++..+.+.++  
T Consensus      1120 v~dAieSyikad------Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi-- 1189 (1666)
T KOG0985|consen 1120 VKDAIESYIKAD------DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFI-- 1189 (1666)
T ss_pred             hHHHHHHHHhcC------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHh--
Confidence            444444433221      4444555555555555555555544444433322222  234444555555444433332  


Q ss_pred             HHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCh
Q 020202          218 LVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPIS  297 (329)
Q Consensus       218 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  297 (329)
                           .-||......+..-|...+.++.|.-+|..         ..-|..|...+...|++..|...-++.      .+.
T Consensus      1190 -----~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ 1249 (1666)
T KOG0985|consen 1190 -----AGPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKA------NST 1249 (1666)
T ss_pred             -----cCCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhc------cch
Confidence                 123444444444445555555544444332         233555555555666666655544332      345


Q ss_pred             hhHHHHHHHHHhCCchhHH
Q 020202          298 RCFDLVTDGLKNCGKHDLA  316 (329)
Q Consensus       298 ~~~~~l~~~~~~~g~~~~a  316 (329)
                      .+|..+-.+|...+.+..|
T Consensus      1250 ktWK~VcfaCvd~~EFrlA 1268 (1666)
T KOG0985|consen 1250 KTWKEVCFACVDKEEFRLA 1268 (1666)
T ss_pred             hHHHHHHHHHhchhhhhHH
Confidence            6777777777777666655

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

Probab=98.68  E-value=1.8e-05  Score=71.09  Aligned_cols=234  Identities=11%  Similarity=0.010  Sum_probs=157.1

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh-HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK-RTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDL  127 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  127 (329)
                      +.+...+..|+..+...+++++|.++.+...+.  .|+. ..|..+...+.+.++...+..+                 .
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~   88 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------N   88 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------h
Confidence            456788999999999999999999999977765  3333 3333333466666665554443                 2


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 020202          128 LVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM  207 (329)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  207 (329)
                      ++.......++..+..+...+.+.  .-+...+..+..+|-+.|+.+++..+|+++.+..+ -|+.+.|.+...|... +
T Consensus        89 ~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~-~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         89 LIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADR-DNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHh-h
Confidence            333333444454444444555554  22455888999999999999999999999999874 7889999999999999 9


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHH---H--HccCChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHH
Q 020202          208 IDEAFRLLHNLVEDGHKPFPSLYAPIIKG---M--FRRGQFDDAFCFFSEMKIK-GHPPNRPVYTMLITMCGRGGRFVEA  281 (329)
Q Consensus       208 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~--~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a  281 (329)
                      +++|.+++.+....-+  +..-|+.+...   +  ....+.+.-.++.+.+... |..--..++-.+-..|-..++|+++
T Consensus       165 L~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~  242 (906)
T PRK14720        165 KEKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEV  242 (906)
T ss_pred             HHHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHH
Confidence            9999999998876411  11111111111   1  1222334444444444433 3333345566666778888999999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHH
Q 020202          282 ANYLVEMTEMGLTPISRCFDLVTDGLK  308 (329)
Q Consensus       282 ~~~~~~~~~~~~~p~~~~~~~l~~~~~  308 (329)
                      ..+++.+.+.... |......++.+|.
T Consensus       243 i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        243 IYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            9999999986533 6667777888776

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

Probab=98.68  E-value=2.7e-05  Score=69.17  Aligned_cols=203  Identities=12%  Similarity=0.070  Sum_probs=123.3

Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      +..|..+..+-.+.|...+|++-|-+.      .|+..|..+++...+.|.+++-.+.+....+....|..  -+.++-+
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~A 1175 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFA 1175 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHH
Confidence            356777777777777777776655332      35667888888888888888888887777766544443  3567778


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHH
Q 020202          167 ICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDA  246 (329)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  246 (329)
                      |++.++..+..+.+.       -|+......+..-|...+.++.|.-+|..         ...|..|...+...|++..|
T Consensus      1176 yAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~A 1239 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGA 1239 (1666)
T ss_pred             HHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHH
Confidence            888887776655442       26666666777777777777777666643         23455666666667777666


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          247 FCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      .+.-++..      +..||..+-.+|...+.+.-|     .|...++.....-...++.-|...|-+++-..+++...
T Consensus      1240 VD~aRKAn------s~ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1240 VDAARKAN------STKTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             HHHhhhcc------chhHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            65544332      445566655565555444322     23333333334444555555555555555555544433

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.64  E-value=0.00011  Score=57.61  Aligned_cols=273  Identities=12%  Similarity=0.066  Sum_probs=184.6

Q ss_pred             CCCCHHHHHHH---HHHHHccCchhHHHHHHHHhhhcCCCccHH-HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh-
Q 020202           13 LSVSPQTLSLI---IEEFGKHGLVDNAVEVFNKCTAFNCQQCVL-LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK-   87 (329)
Q Consensus        13 ~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-   87 (329)
                      +..||..|.++   ...|...|+...|+.=+....+.  +||-. .--.-...+.++|.+++|..=|+..++....-+. 
T Consensus        65 ve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~  142 (504)
T KOG0624|consen   65 VEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLV  142 (504)
T ss_pred             HcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchh
Confidence            34455555554   34577778888888777777765  45532 2223345677899999999999998876431111 


Q ss_pred             -HH------------HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc
Q 020202           88 -RT------------YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV  154 (329)
Q Consensus        88 -~~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (329)
                       ..            ....+..+.-.|+...|+.....+.+.. +-+...+..-..+|...|++..|+.-++...+....
T Consensus       143 ~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D  221 (504)
T KOG0624|consen  143 LEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD  221 (504)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc
Confidence             11            2233455667789999999999998864 567778888889999999999999888877766433


Q ss_pred             cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchh----hHHHH---------HHHHHhcCCHHHHHHHHHHHHhC
Q 020202          155 LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVS----TYKIL---------IPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l---------~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                       +...+.-+-..+...|+.+.++...++..+.+  ||..    .|..+         +......++|.++..-.+...+.
T Consensus       222 -nTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~  298 (504)
T KOG0624|consen  222 -NTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN  298 (504)
T ss_pred             -chHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc
Confidence             55566666777788899888888888887743  4432    12111         12234556777777777777765


Q ss_pred             CCCCChh---hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          222 GHKPFPS---LYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       222 ~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      .+.....   .+..+-.++...+++.+|++...+.++. .+.|..++.-=..+|.-...++.|+.-|+...+.+
T Consensus       299 ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~-d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  299 EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI-DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            4432222   3444556667778888999888888765 23347777777778888888888888887776543

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

Probab=98.62  E-value=7e-05  Score=61.32  Aligned_cols=200  Identities=15%  Similarity=0.083  Sum_probs=115.8

Q ss_pred             chhHHHHHHHHhhhcC--CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHH
Q 020202           32 LVDNAVEVFNKCTAFN--CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEF  109 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  109 (329)
                      ++.++...-+.+...+  -.|+...+...+.+......-..+..++....+.  .-...-|. ....+...|++++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG-~A~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYG-RALQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHH-HHHHHHHhcccchHHHH
Confidence            3444444445554322  1345555555555444433333333332222221  11122233 33344466777777777


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccC-HHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          110 LQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLD-LETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      ++.+.... |-|+..+......+.+.|+.++|.+.++++....  |+ ......+.+++.+.|++.+|+.+++......+
T Consensus       329 l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p  405 (484)
T COG4783         329 LQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDP  405 (484)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Confidence            77776653 4455555566677777777777777777777663  33 45566667777777777777777777766543


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          189 CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       189 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                       .|+..|..|..+|...|+..++..-..+.                  +...|+++.|...+....+.
T Consensus       406 -~dp~~w~~LAqay~~~g~~~~a~~A~AE~------------------~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         406 -EDPNGWDLLAQAYAELGNRAEALLARAEG------------------YALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             -CCchHHHHHHHHHHHhCchHHHHHHHHHH------------------HHhCCCHHHHHHHHHHHHHh
Confidence             56777777777777777777766655443                  33456666666666666554

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

Probab=98.60  E-value=1.2e-05  Score=69.68  Aligned_cols=240  Identities=14%  Similarity=0.130  Sum_probs=155.1

Q ss_pred             CHHHHHHHHH--HHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc---------CCc
Q 020202           16 SPQTLSLIIE--EFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK---------GFV   84 (329)
Q Consensus        16 ~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~   84 (329)
                      |+.+-..+++  .|...|+.+.|.+-.+.+..      ..+|..+.+.|.+.++++-|.-.+-.|...         .-.
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~IkS------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHhh------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            4445455543  45677888888777666543      568999999999988888776666555421         112


Q ss_pred             cChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHH
Q 020202           85 PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLI  164 (329)
Q Consensus        85 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  164 (329)
                      |+ .+=..+.......|..++|..+|++.++.+         .|=+.|-..|.+++|.++-+.--.-.   -..||....
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA  865 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYA  865 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHH
Confidence            22 233334445567899999999999887643         44566777899999988876432221   234666666


Q ss_pred             HHHHccCCHHHHHHHHHHHHH----------cC---------CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 020202          165 ETICKSGEVEFCVEMYYSVCK----------LG---------LCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP  225 (329)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~----------~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  225 (329)
                      ..+-..++.+.|++.|++...          ..         -..|...|.......-..|+.+.|+.+|.....     
T Consensus       866 ~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-----  940 (1416)
T KOG3617|consen  866 KYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-----  940 (1416)
T ss_pred             HHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-----
Confidence            667777888888888776321          11         112445566666666677777777777765432     


Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          226 FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       226 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                          |-+++...|-.|+.++|-++-++--      |....-.+.+.|-..|++.+|..+|.+..
T Consensus       941 ----~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  941 ----YFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             ----hhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                3445666667777777776655422      44555667777777777777777776654

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

Probab=98.58  E-value=1.9e-05  Score=69.81  Aligned_cols=162  Identities=10%  Similarity=0.032  Sum_probs=114.1

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc-cChHHHHHHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV-PDKRTYAILVNA   96 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~   96 (329)
                      ..|..|...|+...+...|...|+...+.+ +.+...+......|++..+++.|..+.-..-+.... .-...|....-.
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            568888888888888888999999998887 778888889999999999999998884333322110 011123333445


Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHH--HHHHHHccCCHH
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNS--LIETICKSGEVE  174 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~  174 (329)
                      +...++...+..-|+...+.. |.|...|..+..+|.+.|++..|.++|.+.....  |+. +|..  ....-+..|.+.
T Consensus       572 yLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr--P~s-~y~~fk~A~~ecd~GkYk  647 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR--PLS-KYGRFKEAVMECDNGKYK  647 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC--cHh-HHHHHHHHHHHHHhhhHH
Confidence            667778888888888887765 5677888889999999999999999998887763  222 2222  122335567777


Q ss_pred             HHHHHHHHHH
Q 020202          175 FCVEMYYSVC  184 (329)
Q Consensus       175 ~a~~~~~~~~  184 (329)
                      ++...+..+.
T Consensus       648 eald~l~~ii  657 (1238)
T KOG1127|consen  648 EALDALGLII  657 (1238)
T ss_pred             HHHHHHHHHH
Confidence            7777766654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.57  E-value=2e-05  Score=67.80  Aligned_cols=190  Identities=17%  Similarity=0.145  Sum_probs=101.8

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCV  177 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  177 (329)
                      .....|.+|+.+++.+....  .-..-|..+...|...|+++.|.++|-+.-         .++-.+..|.+.|+|+.|.
T Consensus       743 i~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHH
Confidence            34455666666666665543  223345556666666666666666665421         2344556666677776666


Q ss_pred             HHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 020202          178 EMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG  257 (329)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  257 (329)
                      ++-++..  |+......|..-..-.-++|++.+|+++|-.+.    .|+.     .|..|-+.|..+..+++..+-... 
T Consensus       812 kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~h~d-  879 (1636)
T KOG3616|consen  812 KLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKHHGD-  879 (1636)
T ss_pred             HHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHhChh-
Confidence            6655443  233334445555555556666666666553321    1222     345566666666666555543321 


Q ss_pred             CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHH
Q 020202          258 HPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEL  321 (329)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  321 (329)
                        .-..|...+..-+...|+...|..-|-+..         -|..-+..|..++.|++|-++.+
T Consensus       880 --~l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  880 --HLHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             --hhhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHHh
Confidence              112344555566666777777766554432         24444555666666666655543

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

Probab=98.57  E-value=8.5e-05  Score=60.84  Aligned_cols=238  Identities=14%  Similarity=0.071  Sum_probs=159.4

Q ss_pred             HHHHccC-chhHHHHHHHHhhh---cCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--CCccChHHHHHHHHHHH
Q 020202           25 EEFGKHG-LVDNAVEVFNKCTA---FNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK--GFVPDKRTYAILVNAWC   98 (329)
Q Consensus        25 ~~~~~~~-~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~   98 (329)
                      ..+.+.| +.....+.|+++..   .+-.|.....    ..=.-..++..+...-+.+...  ...|+...+...+.+..
T Consensus       210 ~~L~raGydp~gM~~ff~rl~~~~~~~~~~p~yl~----THPlp~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~  285 (484)
T COG4783         210 TTLVRAGYDPQGMPEFFERLADQLRYGGQPPEYLL----THPLPEERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKY  285 (484)
T ss_pred             HHHHHcCCCchhHHHHHHHHHHHHhcCCCCChHHh----cCCCchhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHh
Confidence            3444555 44556677777762   2222222211    1111233445555555555433  23445555666665544


Q ss_pred             hcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHH
Q 020202           99 SSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVE  178 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  178 (329)
                      ....-..+..++.+..+   +............+...|++++|+..++.+..... -|+..+......+...++.++|.+
T Consensus       286 ~~~~~~~~~~~~~~~~~---~~~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P-~N~~~~~~~~~i~~~~nk~~~A~e  361 (484)
T COG4783         286 EALPNQQAADLLAKRSK---RGGLAAQYGRALQTYLAGQYDEALKLLQPLIAAQP-DNPYYLELAGDILLEANKAKEAIE  361 (484)
T ss_pred             ccccccchHHHHHHHhC---ccchHHHHHHHHHHHHhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHH
Confidence            44333333333333322   12233444455567788999999999999988743 366777778889999999999999


Q ss_pred             HHHHHHHcCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 020202          179 MYYSVCKLGLCAD-VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG  257 (329)
Q Consensus       179 ~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  257 (329)
                      .++++....  |+ ....-.+..++.+.|++.+|..++++...... -|+..|..|.++|...|+..++..-..+...  
T Consensus       362 ~~~kal~l~--P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p-~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~--  436 (484)
T COG4783         362 RLKKALALD--PNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDP-EDPNGWDLLAQAYAELGNRAEALLARAEGYA--  436 (484)
T ss_pred             HHHHHHhcC--CCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCC-CCchHHHHHHHHHHHhCchHHHHHHHHHHHH--
Confidence            999998864  44 56677788999999999999999999887654 4889999999999999999999887777653  


Q ss_pred             CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 020202          258 HPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  291 (329)
                                      ..|+++.|...+....+.
T Consensus       437 ----------------~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         437 ----------------LAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             ----------------hCCCHHHHHHHHHHHHHh
Confidence                            457788888888777654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.56  E-value=0.00012  Score=54.79  Aligned_cols=191  Identities=13%  Similarity=0.077  Sum_probs=139.5

Q ss_pred             ccCchhHHHHHHHHhhh---cC-CCccHH-HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           29 KHGLVDNAVEVFNKCTA---FN-CQQCVL-LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~---~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      ...+.++.++++..+..   .| ..++.. .|..++-+....|+.+.|...++.+...- +-+...-..-.-.+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            45567888888877752   23 445554 45566777788899999999999988763 22333333333345567899


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSV  183 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  183 (329)
                      ++|+++++.+.+.+ |.|..++---+...-..|+.-+|++-+....+.- ..|...|.-+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F-~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF-MNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh-cCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            99999999998886 6667777777777777888889998888888773 448999999999999999999999999998


Q ss_pred             HHcCCCCchhhHHHHHHHHHhc---CCHHHHHHHHHHHHhCCC
Q 020202          184 CKLGLCADVSTYKILIPAVSKA---GMIDEAFRLLHNLVEDGH  223 (329)
Q Consensus       184 ~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~  223 (329)
                      .-..+ .++..+..+...+.-.   .+.+.+.++|.+..+...
T Consensus       181 ll~~P-~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  181 LLIQP-FNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            87543 4555555666555443   356778899988887643

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

Probab=98.55  E-value=0.00035  Score=58.71  Aligned_cols=147  Identities=13%  Similarity=0.088  Sum_probs=97.5

Q ss_pred             CHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHH--------HHHhCCCCCChhhHHHHHHHHHccCCh
Q 020202          172 EVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLH--------NLVEDGHKPFPSLYAPIIKGMFRRGQF  243 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~~~~  243 (329)
                      ....+.+++....+..+.-...+.-..+......|+++.|..++.        .+.+.+..|  .+...+...+.+.++-
T Consensus       356 ~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~  433 (652)
T KOG2376|consen  356 KHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDN  433 (652)
T ss_pred             HHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCC
Confidence            355666666666554433334556666777888999999999998        454444443  5556677778888887


Q ss_pred             hHHHHHHHHHHHc--CCCCChhhHHHH----HHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHH
Q 020202          244 DDAFCFFSEMKIK--GHPPNRPVYTML----ITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAE  317 (329)
Q Consensus       244 ~~a~~~~~~~~~~--~~~~~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  317 (329)
                      +.|..++......  .-.+.......+    ...-.+.|+-++|..+++++.+.. ++|..+...++.+|++.. .+.|.
T Consensus       434 ~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~d-~eka~  511 (652)
T KOG2376|consen  434 DSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARLD-PEKAE  511 (652)
T ss_pred             ccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhcC-HHHHH
Confidence            7777777766543  111222333333    333346799999999999999865 578889999999998754 56666


Q ss_pred             HHHHH
Q 020202          318 KIELL  322 (329)
Q Consensus       318 ~~~~~  322 (329)
                      .+-..
T Consensus       512 ~l~k~  516 (652)
T KOG2376|consen  512 SLSKK  516 (652)
T ss_pred             HHhhc
Confidence            55443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.54  E-value=4e-05  Score=65.98  Aligned_cols=134  Identities=16%  Similarity=0.183  Sum_probs=68.2

Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhH
Q 020202          166 TICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDD  245 (329)
Q Consensus       166 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  245 (329)
                      +.....+|.+|+.+++.+.....  -..-|..+...|...|+++.|+++|-+.         ..++-.|..|.+.|+++.
T Consensus       741 aai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHH
Confidence            33445555666666665554322  2233555556666666666666666431         123445556666666666


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHH
Q 020202          246 AFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEL  321 (329)
Q Consensus       246 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  321 (329)
                      |.++-.+...  .......|-.-..-+-+.|++.+|.+++-..   | .|+     .-+..|-+.|..+...++.+
T Consensus       810 a~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti---~-~p~-----~aiqmydk~~~~ddmirlv~  874 (1636)
T KOG3616|consen  810 AFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITI---G-EPD-----KAIQMYDKHGLDDDMIRLVE  874 (1636)
T ss_pred             HHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEc---c-Cch-----HHHHHHHhhCcchHHHHHHH
Confidence            6665544432  2223333433344445566666666555322   2 222     23455666666666666544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.54  E-value=0.00016  Score=54.27  Aligned_cols=188  Identities=13%  Similarity=0.106  Sum_probs=138.2

Q ss_pred             cchHHHHHHHHHHHHHc---C-CccChH-HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 020202           65 VKLFHGAYALIRRMIRK---G-FVPDKR-TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLE  139 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  139 (329)
                      ..+.++..+++.++...   | ..++.. .|..++-+....|+.+.|...++.+.+.- +-+...-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            34556666666666532   3 455554 35566677788899999999999987763 333333333333456689999


Q ss_pred             HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 020202          140 SAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLV  219 (329)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  219 (329)
                      +|.++++.+.+.+. .|..++..-+-..-..|+..+|++-+....+. +..|...|.-+...|...|++++|.-.++++.
T Consensus       104 ~A~e~y~~lL~ddp-t~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDDP-TDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccCc-chhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            99999999998863 36777777677777788888888888888776 44899999999999999999999999999998


Q ss_pred             hCCCCCChhhHHHHHHHHHccC---ChhHHHHHHHHHHHc
Q 020202          220 EDGHKPFPSLYAPIIKGMFRRG---QFDDAFCFFSEMKIK  256 (329)
Q Consensus       220 ~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~  256 (329)
                      -..+ .++..+..+...+...|   +.+.+.++|.+..+.
T Consensus       182 l~~P-~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  182 LIQP-FNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            7542 25555666666655444   567788999998876

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

Probab=98.51  E-value=1.2e-05  Score=57.03  Aligned_cols=85  Identities=18%  Similarity=0.181  Sum_probs=34.9

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCC--cccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPP--VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE  172 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  172 (329)
                      ..+...|++++|...|+.+......++  ......+...+...|++++|+..++.....  ......+......+.+.|+
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~  133 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGD  133 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCC
Confidence            344444444444444444444331111  112222344444445555555444432222  1122333344444555555


Q ss_pred             HHHHHHHHH
Q 020202          173 VEFCVEMYY  181 (329)
Q Consensus       173 ~~~a~~~~~  181 (329)
                      +++|...|+
T Consensus       134 ~~~A~~~y~  142 (145)
T PF09976_consen  134 YDEARAAYQ  142 (145)
T ss_pred             HHHHHHHHH
Confidence            555555444

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

Probab=98.49  E-value=9.1e-06  Score=66.58  Aligned_cols=125  Identities=20%  Similarity=0.227  Sum_probs=93.6

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLL  133 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (329)
                      ....|+..+...++++.|..+|+++.+..  |+  ....+++.+...++-.+|.+++.+..+.. +.+......-.+.+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34455666666788888888888888764  43  34557777777788888888888887653 445566666677788


Q ss_pred             hcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 020202          134 NAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVC  184 (329)
Q Consensus       134 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  184 (329)
                      +.++++.|+.+.+++.+..+. +..+|..|..+|...|+++.|+..++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            888888888888888887432 55688888888888889888888887765

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

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

Probab=98.48  E-value=4e-05  Score=66.71  Aligned_cols=261  Identities=18%  Similarity=0.144  Sum_probs=170.6

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhc-C-------C-CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAF-N-------C-QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP   85 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-------~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   85 (329)
                      -+...|..+.+.|.+..+++-|.-.+-.|... |       . .|+ ..-....-.....|.+++|..+|++-++     
T Consensus       755 kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-----  828 (1416)
T KOG3617|consen  755 KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-----  828 (1416)
T ss_pred             hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-----
Confidence            35678999999999998888887776666421 1       0 111 2222333445677899999999988765     


Q ss_pred             ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH----------HcC---
Q 020202           86 DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI----------KQG---  152 (329)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~~---  152 (329)
                          |..|=..|...|.|++|.++-+.--+..+   ..||......+...++.+.|++.|++..          ...   
T Consensus       829 ----~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~  901 (1416)
T KOG3617|consen  829 ----YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQ  901 (1416)
T ss_pred             ----HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHH
Confidence                34455667788999999988765433222   3466667777777888888888876532          111   


Q ss_pred             ------CccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 020202          153 ------FVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPF  226 (329)
Q Consensus       153 ------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  226 (329)
                            -..|...|......+-..|+.+.|+.+|.....         |-.+++..|-.|+.++|.++-++   .|   |
T Consensus       902 ~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~e---sg---d  966 (1416)
T KOG3617|consen  902 IEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEE---SG---D  966 (1416)
T ss_pred             HHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHh---cc---c
Confidence                  112445566666666678888888888876543         55677777888999999887664   22   5


Q ss_pred             hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHh---------------ccCCHHHHHHHHHHHHhC
Q 020202          227 PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCG---------------RGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       227 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------------~~~~~~~a~~~~~~~~~~  291 (329)
                      ......+...|...|++.+|..+|.+...         |...|+.|-               ...+.-.|-++|++.   
T Consensus       967 ~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~--- 1034 (1416)
T KOG3617|consen  967 KAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL--- 1034 (1416)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---
Confidence            56666789999999999999999988653         223333322               222333344444432   


Q ss_pred             CCCCChhhHHHHHHHHHhCCchhHHHHHH
Q 020202          292 GLTPISRCFDLVTDGLKNCGKHDLAEKIE  320 (329)
Q Consensus       292 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  320 (329)
                      |.     .+..-+..|.++|.+.+|.++.
T Consensus      1035 g~-----~~~~AVmLYHkAGm~~kALelA 1058 (1416)
T KOG3617|consen 1035 GG-----YAHKAVMLYHKAGMIGKALELA 1058 (1416)
T ss_pred             ch-----hhhHHHHHHHhhcchHHHHHHH
Confidence            21     1233445688888888887763

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

Probab=98.46  E-value=1.2e-05  Score=66.16  Aligned_cols=121  Identities=17%  Similarity=0.154  Sum_probs=70.5

Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhC--CCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHH
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK--GFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFN  161 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  161 (329)
                      +.+......+++.+....+.+.+..++-+....  ....-+.|..++++.|.+.|..+.++.+++.=...|+.||..+++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            334555555666666656666666666655443  122223445566666666666666666666666666666666666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 020202          162 SLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK  204 (329)
Q Consensus       162 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  204 (329)
                      .++..+.+.|++..|.++...|...+...+..|+...+.+|.+
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            6666666666666666666666555544555555544444443

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=98.45  E-value=1.6e-05  Score=65.12  Aligned_cols=122  Identities=11%  Similarity=0.078  Sum_probs=71.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAG  206 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  206 (329)
                      .+++.+...++++.|.++++++.+..  |+  ....+++.+...++..+|.+++++..+..+ -+......-...+.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p-~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENP-QDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcC
Confidence            34445555566666666666666652  22  333455555556666666666666654432 34445555555566666


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          207 MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       207 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      +++.|..+.+++.+..+. +..+|..|..+|...|+++.|+..++.+.
T Consensus       249 ~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            666666666666654221 34466666666666666666666665554

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

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

Probab=98.44  E-value=5.8e-06  Score=68.05  Aligned_cols=124  Identities=15%  Similarity=0.166  Sum_probs=80.2

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhc--CCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHH
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAF--NCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRT   89 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~   89 (329)
                      +.+.++.....+++.+....+++.+..++-+....  ....-..+.+++++.|.+.|..+.++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44566666667777776666777777766666543  1112233445777777777777777777777667777777777


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNA  135 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  135 (329)
                      ++.|++.+.+.|++..|.++...|...+...+..|+..-+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            7777777777777777777777766655555555555555555444

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 [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.43  E-value=5e-07  Score=46.47  Aligned_cols=33  Identities=36%  Similarity=0.496  Sum_probs=19.2

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI  296 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  296 (329)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455555555555555555555555555555554

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.

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

Probab=98.42  E-value=3e-05  Score=54.95  Aligned_cols=116  Identities=17%  Similarity=0.124  Sum_probs=50.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh--hhHHHHHHHHhccCCHHH
Q 020202          205 AGMIDEAFRLLHNLVEDGHKP--FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR--PVYTMLITMCGRGGRFVE  280 (329)
Q Consensus       205 ~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~  280 (329)
                      .++...+...++.+.......  .......+...+...|++++|...|+.+......|+.  ...-.+...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            444455555555544432110  0112222334445555555555555555544311111  122223444455555555


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHH
Q 020202          281 AANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELL  322 (329)
Q Consensus       281 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  322 (329)
                      |+..++.....  ......+....+++.+.|++++|+..|+.
T Consensus       104 Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555442211  12233444455555555555555555543

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

Probab=98.42  E-value=0.00095  Score=58.92  Aligned_cols=109  Identities=17%  Similarity=0.158  Sum_probs=51.1

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHH--HHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHH
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLF--ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREA  106 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  106 (329)
                      ..+++..|..-...+.+..  ||.. |...+.  .+.+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|
T Consensus        21 d~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHH
Confidence            4455555555555554432  2211 111222  223455555555555544433322 445555555555555555555


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHH
Q 020202          107 QEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQ  143 (329)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  143 (329)
                      ..+|++..+..  |+......+..+|.+.+.+.+-.+
T Consensus        97 ~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQk  131 (932)
T KOG2053|consen   97 VHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQK  131 (932)
T ss_pred             HHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555432  444444444555555555444333

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.41  E-value=5.4e-07  Score=46.33  Aligned_cols=33  Identities=33%  Similarity=0.672  Sum_probs=18.2

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD   86 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~   86 (329)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            355555555555555555555555555555554

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.

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

Probab=98.40  E-value=0.00046  Score=57.31  Aligned_cols=222  Identities=15%  Similarity=0.097  Sum_probs=113.4

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH----
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN----   95 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----   95 (329)
                      ...+.+...+..+++.|++-+.......  .++.-++....+|...|.+..+........+.|-. ...-|+.+..    
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            3455566666667777777777666654  45555666666677777766666666555554422 1222222222    


Q ss_pred             ---HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC
Q 020202           96 ---AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE  172 (329)
Q Consensus        96 ---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  172 (329)
                         ++.+.++++.++..|.+.......|         ....+....+++....+...-.+... ..-...-.+.+.+.|+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~---------~~ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gd  373 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTP---------DLLSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGD  373 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCH---------HHHHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccC
Confidence               3334445555666665544332111         11222223333333333332222111 1111222444556666


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHH
Q 020202          173 VEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSE  252 (329)
Q Consensus       173 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  252 (329)
                      +..|...|.+++...+ .|...|..-.-+|.+.|.+..|+.=.+...+.+. +....|..=..++....++++|.+.|.+
T Consensus       374 y~~Av~~YteAIkr~P-~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p-~~~kgy~RKg~al~~mk~ydkAleay~e  451 (539)
T KOG0548|consen  374 YPEAVKHYTEAIKRDP-EDARLYSNRAACYLKLGEYPEALKDAKKCIELDP-NFIKAYLRKGAALRAMKEYDKALEAYQE  451 (539)
T ss_pred             HHHHHHHHHHHHhcCC-chhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666552 4566666666666666666666666555555421 1233333334444444556666666666


Q ss_pred             HHHc
Q 020202          253 MKIK  256 (329)
Q Consensus       253 ~~~~  256 (329)
                      .++.
T Consensus       452 ale~  455 (539)
T KOG0548|consen  452 ALEL  455 (539)
T ss_pred             HHhc
Confidence            6654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.39  E-value=6.7e-07  Score=45.63  Aligned_cols=33  Identities=30%  Similarity=0.555  Sum_probs=21.1

Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC
Q 020202          263 PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTP  295 (329)
Q Consensus       263 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  295 (329)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            356666666666666666666666666666655

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.37  E-value=7.7e-07  Score=45.40  Aligned_cols=31  Identities=29%  Similarity=0.295  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCc
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFV   84 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~   84 (329)
                      +|+.++.+|++.|+++.|.++|++|.+.|++
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~   33 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVK   33 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            3444444444444444444444444444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.34  E-value=3.6e-05  Score=52.42  Aligned_cols=97  Identities=13%  Similarity=-0.030  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc---HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--cChHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC---VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV--PDKRTYAIL   93 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l   93 (329)
                      ++..+...+.+.|++++|.+.|+.+.+.. +.+   ...+..+..++.+.|+++.|.+.|+.+......  .....+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY-PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            34444555555555555555555554432 111   234444555555555555555555555443211  112334444


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhC
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      ..++...|+.++|.+.++.+.+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHH
Confidence            44555555555555555555444

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.

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

Probab=98.32  E-value=2e-05  Score=51.06  Aligned_cols=74  Identities=14%  Similarity=0.232  Sum_probs=35.2

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCC-CccHHHHHHHHHHHHhcc--------hHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNC-QQCVLLYNSLLFALCEVK--------LFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      |..+...+++...-.+|+.+++.|+ .|++.+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3334444555555555555555555 455555555555444321        1223444444444444555555555444


Q ss_pred             HHH
Q 020202           95 NAW   97 (329)
Q Consensus        95 ~~~   97 (329)
                      ..+
T Consensus       112 ~~L  114 (120)
T PF08579_consen  112 GSL  114 (120)
T ss_pred             HHH
Confidence            443

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 [, , ].

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

Probab=98.30  E-value=1.7e-05  Score=51.43  Aligned_cols=80  Identities=14%  Similarity=0.232  Sum_probs=60.0

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCC-ccChHHHHHHHHHHHhcC--------chhHHHHHHHHHHhCCCCCCcccH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGF-VPDKRTYAILVNAWCSSG--------KMREAQEFLQEMSDKGFNPPVRGR  125 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  125 (329)
                      ....|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34456666677889999999999999988 889999999888776543        234566677777777777877788


Q ss_pred             HHHHHHHHh
Q 020202          126 DLLVQGLLN  134 (329)
Q Consensus       126 ~~l~~~~~~  134 (329)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            777776654

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 [, , ].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.29  E-value=5e-05  Score=53.09  Aligned_cols=99  Identities=13%  Similarity=-0.003  Sum_probs=72.9

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      +......+...+...|++++|.++|+.+...++. +..-|-.|.-++...|++++|+..|......+ +-++..+-.+..
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            3445555666677788888888888877766433 56667777777888888888888888887766 456777777788


Q ss_pred             HHHhcCChHHHHHHHHHHHHc
Q 020202          131 GLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ++...|+.+.|.+.|+..+..
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            888888888888888877665

>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=98.27  E-value=3e-05  Score=50.15  Aligned_cols=94  Identities=20%  Similarity=0.204  Sum_probs=55.1

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      +..+...+...|++++|...++...+.. +.+...+..+...+...+++++|.+.++....... .+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHHH
Confidence            3445555566666666666666665544 34445566666666666666666666666655432 233455555566666


Q ss_pred             cCchhHHHHHHHHHHh
Q 020202          100 SGKMREAQEFLQEMSD  115 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~  115 (329)
                      .|+++.|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            6666666666655543

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

Probab=98.25  E-value=0.0019  Score=54.01  Aligned_cols=208  Identities=11%  Similarity=0.040  Sum_probs=123.6

Q ss_pred             hHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc---hHHHHHHHHHHHHHc-CCccChHHHHHHHHHHHhcCchhHHHHH
Q 020202           34 DNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK---LFHGAYALIRRMIRK-GFVPDKRTYAILVNAWCSSGKMREAQEF  109 (329)
Q Consensus        34 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~  109 (329)
                      +++..+++.....-...+..+|..+...--..-   ..+.....+++++.. .+.|+ .+|..+++...+..-...|..+
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHH
Confidence            445555555443322233334443333221111   255566666666644 23433 3677777777777778888888


Q ss_pred             HHHHHhCCCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          110 LQEMSDKGFNP-PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       110 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      |.+..+.+..+ .+...+++|..+| .++..-|.++|+--...- .-++.--...+..+...++-..+..+|++....+.
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l  466 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVL  466 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccC
Confidence            88887776555 5666677776665 456677888887544441 11334445666677777888888888888877755


Q ss_pred             CCc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCChhhHHHHHHHHHccCChh
Q 020202          189 CAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVEDG---HKPFPSLYAPIIKGMFRRGQFD  244 (329)
Q Consensus       189 ~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~  244 (329)
                      .++  ...|..++..-+.-|+...+.++-+++...=   ..+....-..+++-|.-.+.+.
T Consensus       467 ~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~  527 (656)
T KOG1914|consen  467 SADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYP  527 (656)
T ss_pred             ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccc
Confidence            444  4678888888888888888877777765431   2222233344555555555443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.23  E-value=0.00087  Score=51.84  Aligned_cols=183  Identities=9%  Similarity=-0.049  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHH---HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRT---YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      ...+-.....+...|++++|.+.|+.+....+.+ ...   .-.+..++.+.+++++|...+++..+........-+...
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            3334345556667888889999888888763322 222   235667788888899998888888776411112233333


Q ss_pred             HHHHHh--cC---------------C---hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          129 VQGLLN--AG---------------Y---LESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       129 ~~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      +.+.+.  .+               +   ...|++.|+++.+.  -|+.             .-..+|...+..+...  
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH--
Confidence            333321  11               1   23455666666655  2332             1123333333332221  


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          189 CADVSTYKILIPAVSKAGMIDEAFRLLHNLVED--GHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       189 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                       .-.. --.+...|.+.|.+..|..=++.+.+.  +.+........++.+|...|..++|..+...+.
T Consensus       174 -la~~-e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 -LAKY-ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             -HHHH-HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence             0001 114456677777777777777777765  333345566677777888888887777665543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.21  E-value=0.00011  Score=50.00  Aligned_cols=98  Identities=17%  Similarity=0.114  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--cChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCCcccHHHHH
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFV--PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF--NPPVRGRDLLV  129 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~  129 (329)
                      ++..+...+.+.|++++|.+.|..+......  .....+..+..++.+.|+++.|...++.+.....  +.....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3445555566666666666666666544211  0123444555666666666666666666654320  11123445555


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .++.+.|+.++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5566666666666666666555

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

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

Probab=98.18  E-value=7.4e-05  Score=59.20  Aligned_cols=143  Identities=10%  Similarity=0.150  Sum_probs=93.1

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          158 ETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK-AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKG  236 (329)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  236 (329)
                      .+|..+++..-+.+..+.|..+|.+..+.+. .+...|......-.. .++.+.|.++|+...+. ...+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            4677778888888888888888888875432 334445444444223 56666688888887765 34466777788888


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCCh---hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 020202          237 MFRRGQFDDAFCFFSEMKIKGHPPNR---PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTD  305 (329)
Q Consensus       237 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  305 (329)
                      +...|+.+.|..+|++.... +.++.   ..|...+.-=.+.|+.+.+.++.+++.+.  -|+...+..+.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            88888888888888888765 33322   47777777777788888888888887764  344444444444

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.

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

Probab=98.16  E-value=0.0045  Score=54.92  Aligned_cols=209  Identities=15%  Similarity=0.130  Sum_probs=143.2

Q ss_pred             hhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChH
Q 020202            9 KPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKR   88 (329)
Q Consensus         9 ~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   88 (329)
                      ++++-.+...++.++.  +.+.|..++|..+++.....+ +.|..+...+-.+|.+.++.++|..+|++....  .|+..
T Consensus        37 kk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~ee  111 (932)
T KOG2053|consen   37 KKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEE  111 (932)
T ss_pred             HHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHH
Confidence            3333333333344433  458899999998888887666 458889999999999999999999999998876  56777


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC----------hHHHHHHHHHHHHcC-CccCH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGY----------LESAKQMVNKMIKQG-FVLDL  157 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~-~~~~~  157 (329)
                      ....+..+|.+.+++.+-.+.--++.+. .+-++..+-++++.....-.          ..-|.+.++.+.+.+ ..-+.
T Consensus       112 ll~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~  190 (932)
T KOG2053|consen  112 LLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESE  190 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchH
Confidence            8888889999998887765555455442 34556666667766655321          234555666666554 22223


Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHH-HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 020202          158 ETFNSLIETICKSGEVEFCVEMYY-SVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH  223 (329)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  223 (329)
                      .-.......+...|++++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.++...+.
T Consensus       191 aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~  257 (932)
T KOG2053|consen  191 AEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGN  257 (932)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCC
Confidence            333333445567888999999984 344433334455556677888889999999999999988764

>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=98.16  E-value=6.9e-05  Score=48.42  Aligned_cols=94  Identities=16%  Similarity=0.113  Sum_probs=53.1

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN  134 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  134 (329)
                      +..+...+...|++++|...+++..+... .+...+..+..++...+++++|.+.++...... +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            34455555666666666666666655422 133455555666666666666666666665543 2333455555556666


Q ss_pred             cCChHHHHHHHHHHHH
Q 020202          135 AGYLESAKQMVNKMIK  150 (329)
Q Consensus       135 ~~~~~~a~~~~~~~~~  150 (329)
                      .|+++.|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            6666666666655543

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

Probab=98.15  E-value=9.8e-05  Score=58.51  Aligned_cols=130  Identities=12%  Similarity=0.101  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh-cchHHHHHHHHHHHHHcCCccChHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE-VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAW   97 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (329)
                      +|-.+++...+.+..+.|..+|.+..+.+ ..+..+|-.....-.+ .++.+.|.++|+...+. +..+...|...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            56667777777777777777777776543 3334444444443222 45556677777777665 344666677777777


Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCC---cccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPP---VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ...++.+.|..+|+..... ++++   ...|...++.-.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777654 2222   236666666666777777777776666654

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.

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

Probab=98.15  E-value=0.00045  Score=61.65  Aligned_cols=182  Identities=14%  Similarity=0.062  Sum_probs=132.0

Q ss_pred             hhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHH
Q 020202           33 VDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQE  112 (329)
Q Consensus        33 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  112 (329)
                      ...|...|-+..+.+ +.-...|..|...|....+...|.+.|+...+.+.. +..........|+...+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld-~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLD-VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            555666665555554 344677888999999888999999999998876533 677888899999999999999998433


Q ss_pred             HHhCC-CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc
Q 020202          113 MSDKG-FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCAD  191 (329)
Q Consensus       113 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  191 (329)
                      .-+.. ...-...|....-.|.+.++...|..-|+......+. |...|..+.++|...|++..|.++|.+.....  |+
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr--P~  628 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLLR--PL  628 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhcC--cH
Confidence            32221 0011223333555677888999999999988877654 88899999999999999999999999887743  33


Q ss_pred             hhhHHHH--HHHHHhcCCHHHHHHHHHHHHh
Q 020202          192 VSTYKIL--IPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       192 ~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                       .+|...  ...-+..|.+.++...+..+..
T Consensus       629 -s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  629 -SKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -hHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             233322  2234567889999888877653

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

Probab=98.15  E-value=1.8e-05  Score=50.12  Aligned_cols=81  Identities=16%  Similarity=0.213  Sum_probs=47.5

Q ss_pred             cCchhHHHHHHHHhhhcCCC-ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHH
Q 020202           30 HGLVDNAVEVFNKCTAFNCQ-QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      .|+++.|+.+++++.+.... ++...+..+..++.+.|++++|..+++. ...+.. +......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            46677777777777665421 2444555567777777777777777766 222111 22333445667777777777777


Q ss_pred             HHHH
Q 020202          109 FLQE  112 (329)
Q Consensus       109 ~~~~  112 (329)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7654

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

Probab=98.15  E-value=0.00012  Score=60.13  Aligned_cols=102  Identities=16%  Similarity=0.056  Sum_probs=84.2

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK  102 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (329)
                      -...+...|++++|++.|+++.+.+ +.+...|..+..++...|++++|+..++++..... .+...|..+..++...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCC
Confidence            3456678899999999999999887 77888999999999999999999999999988753 366788888999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202          103 MREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      +++|...|+......  |+.......
T Consensus        86 ~~eA~~~~~~al~l~--P~~~~~~~~  109 (356)
T PLN03088         86 YQTAKAALEKGASLA--PGDSRFTKL  109 (356)
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHH
Confidence            999999999998864  444433333

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

Probab=98.13  E-value=6.7e-06  Score=52.11  Aligned_cols=81  Identities=22%  Similarity=0.248  Sum_probs=43.5

Q ss_pred             cchHHHHHHHHHHHHHcCCc-cChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHH
Q 020202           65 VKLFHGAYALIRRMIRKGFV-PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQ  143 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  143 (329)
                      .|+++.|+.+++++.+.... ++...+..+..++.+.|++++|..+++. .+.+ +.+......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            45666666666666655331 2333444466666666666666666666 2221 1122333344566666666666666


Q ss_pred             HHHH
Q 020202          144 MVNK  147 (329)
Q Consensus       144 ~~~~  147 (329)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.13  E-value=0.00013  Score=51.10  Aligned_cols=95  Identities=7%  Similarity=-0.080  Sum_probs=55.2

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK  169 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  169 (329)
                      .-.+...+...|++++|.++|+.+.... +-+..-|-.|.-++-..|++++|+..|......++. |+..+-.+..++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHH
Confidence            3344445556666666666666665543 234444555566666666666666666666655533 55566666666666


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 020202          170 SGEVEFCVEMYYSVCKL  186 (329)
Q Consensus       170 ~~~~~~a~~~~~~~~~~  186 (329)
                      .|+.+.|.+.|+.....
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            66666666666655543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.10  E-value=0.0004  Score=50.80  Aligned_cols=88  Identities=9%  Similarity=0.030  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC--hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD--KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      ...+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+++..+.. +.+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            44566677777777888888888877775432222  3466777777777788888888777776653 23445555666


Q ss_pred             HHHHhcCChHH
Q 020202          130 QGLLNAGYLES  140 (329)
Q Consensus       130 ~~~~~~~~~~~  140 (329)
                      .++...|+...
T Consensus       114 ~~~~~~g~~~~  124 (172)
T PRK02603        114 VIYHKRGEKAE  124 (172)
T ss_pred             HHHHHcCChHh
Confidence            66666665443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.09  E-value=0.0018  Score=50.08  Aligned_cols=58  Identities=12%  Similarity=0.121  Sum_probs=30.0

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCCcccH---HHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGR---DLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ....+...|++++|.+.|+.+.... +-+...-   -.+..++.+.++++.|...+++..+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            3334445566666666666665542 1111111   23445556666666666666666555

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

Probab=98.08  E-value=6.2e-06  Score=40.89  Aligned_cols=29  Identities=38%  Similarity=0.492  Sum_probs=15.7

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555444

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.07  E-value=0.00076  Score=58.12  Aligned_cols=136  Identities=15%  Similarity=0.071  Sum_probs=77.2

Q ss_pred             CccHHHHHHHHHHHHhc-----chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhc--------CchhHHHHHHHHHHh
Q 020202           49 QQCVLLYNSLLFALCEV-----KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSS--------GKMREAQEFLQEMSD  115 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~  115 (329)
                      +.|...|...+++....     ++.+.|..+|++..+..+. ....|..+..++...        .++..+.+..+....
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            55666666666654332     2355667777766665321 223333332222211        112333444443333


Q ss_pred             CC-CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 020202          116 KG-FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLG  187 (329)
Q Consensus       116 ~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  187 (329)
                      .. .+.++..+..+.-.....|++++|...+++..+.+  |+...|..+...+...|+.++|.+.+++....+
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            21 23344556666555566778888888888777764  466677777777778888888888887776644

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.05  E-value=0.0002  Score=52.20  Aligned_cols=94  Identities=14%  Similarity=0.086  Sum_probs=47.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 020202          193 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP--FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLIT  270 (329)
Q Consensus       193 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  270 (329)
                      ..+..+...+...|++++|...|++.......+  ...++..+...+...|++++|...++...... +....++..+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            344445555555566666666666655432221  12345555566666666666666666655431 222333444444


Q ss_pred             HHh-------ccCCHHHHHHHHHH
Q 020202          271 MCG-------RGGRFVEAANYLVE  287 (329)
Q Consensus       271 ~~~-------~~~~~~~a~~~~~~  287 (329)
                      .+.       ..|+++.|...+++
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHH
Confidence            444       56666655544443

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

Probab=98.05  E-value=0.0034  Score=50.04  Aligned_cols=92  Identities=18%  Similarity=0.112  Sum_probs=46.1

Q ss_pred             HHHHhc-CChHHHHHHHHHHHHc----CCcc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-----Cchh-hHHH
Q 020202          130 QGLLNA-GYLESAKQMVNKMIKQ----GFVL-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC-----ADVS-TYKI  197 (329)
Q Consensus       130 ~~~~~~-~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~-~~~~  197 (329)
                      ..|... |+++.|.+.|++..+.    +... -..++..+...+.+.|++++|.++|+++......     .+.. .+..
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            344444 6677777776665442    2100 1234455566667777777777777776543221     1111 2223


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          198 LIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       198 l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      .+-++...|++-.|...+++....
T Consensus       202 a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh
Confidence            333455566777777777766543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.04  E-value=0.00022  Score=52.01  Aligned_cols=81  Identities=10%  Similarity=-0.019  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc--ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP--DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      ...|..+...+...|++++|+..|++.......+  ...++..+..++...|++++|+..++...... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            4556666666667777777777777776543222  12356666677777777777777777766542 22333444444


Q ss_pred             HHHH
Q 020202          130 QGLL  133 (329)
Q Consensus       130 ~~~~  133 (329)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

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

Probab=98.03  E-value=0.0003  Score=55.99  Aligned_cols=26  Identities=15%  Similarity=0.184  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMS  114 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~  114 (329)
                      .|......|...+++++|...|.+..
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa   62 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAA   62 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHH
Confidence            46666677777777777777776663

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

Probab=98.02  E-value=9.8e-06  Score=40.17  Aligned_cols=26  Identities=23%  Similarity=0.408  Sum_probs=10.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIK  150 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~  150 (329)
                      |+.++++|++.|++++|.++|++|.+
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~   28 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRE   28 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhH
Confidence            34444444444444444444444433

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.

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

Probab=98.01  E-value=0.00029  Score=57.98  Aligned_cols=92  Identities=14%  Similarity=-0.032  Sum_probs=79.8

Q ss_pred             HHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 020202           59 LFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL  138 (329)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  138 (329)
                      ...+...|++++|++.|++.++.... +...|..+..++...|++++|+..++.+.... +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            45667889999999999999987543 67788889999999999999999999998875 45677888899999999999


Q ss_pred             HHHHHHHHHHHHcC
Q 020202          139 ESAKQMVNKMIKQG  152 (329)
Q Consensus       139 ~~a~~~~~~~~~~~  152 (329)
                      ++|...|++..+..
T Consensus        87 ~eA~~~~~~al~l~  100 (356)
T PLN03088         87 QTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999999874

>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=98.01  E-value=3.2e-05  Score=46.67  Aligned_cols=53  Identities=21%  Similarity=0.204  Sum_probs=37.0

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      .+.|++++|.+.|+.+.... |.+...+..+..+|.+.|++++|.++++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            35677777777777777665 556777777777777777777777777777665

...

>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=97.96  E-value=0.00011  Score=44.53  Aligned_cols=64  Identities=14%  Similarity=0.213  Sum_probs=42.2

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc-hHHHHHHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK-LFHGAYALIRRMIR   80 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~   80 (329)
                      ++..|..+...+...|++++|+..|++..+.+ |.+...|..+..++...| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34566666666667777777777777766665 556666666666666666 56666666666554

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.96  E-value=0.001  Score=48.68  Aligned_cols=83  Identities=20%  Similarity=0.122  Sum_probs=36.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 020202          160 FNSLIETICKSGEVEFCVEMYYSVCKLGLCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGM  237 (329)
Q Consensus       160 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  237 (329)
                      +..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.... +...+..+...+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~  116 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            34444444444555555555554443322111  234444455555555555555555554443211 233334444444


Q ss_pred             HccCCh
Q 020202          238 FRRGQF  243 (329)
Q Consensus       238 ~~~~~~  243 (329)
                      ...|+.
T Consensus       117 ~~~g~~  122 (172)
T PRK02603        117 HKRGEK  122 (172)
T ss_pred             HHcCCh
Confidence            444443

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

Probab=97.93  E-value=0.0001  Score=44.00  Aligned_cols=58  Identities=16%  Similarity=0.161  Sum_probs=40.8

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      +...+.+.|++++|.+.|+.+.+.. |-+...+..+..++...|++++|...|+++.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455667777777777777777766 556777777777777777777777777777654

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

Probab=97.90  E-value=0.00042  Score=51.02  Aligned_cols=49  Identities=18%  Similarity=0.269  Sum_probs=29.2

Q ss_pred             CCHHHHHHHHHHHHcc-----CchhHHHHHHHHhhhcCCCccHHHHHHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKH-----GLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALC   63 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   63 (329)
                      -+-.+|..+++.|.+.     |..+-....+..|.+.|+..|..+|+.|++.+=
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFP   98 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFP   98 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCC
Confidence            3555566666666533     455555566666666666666666666666543

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

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.89  E-value=0.0003  Score=56.63  Aligned_cols=132  Identities=14%  Similarity=0.036  Sum_probs=84.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHH----hCCCC-CChhhHHHHHHHHHccCChhHHHHHHHHHHHc----CC-CCChh
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLV----EDGHK-PFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK----GH-PPNRP  263 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~  263 (329)
                      .|..|...|.-.|+++.|....+.-.    +-|-+ .....+..+..++.-.|+++.|.+.|+.....    |- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            45555555556677887776654322    11211 12345667778888888888888887765432    21 22344


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHh----CC-CCCChhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMTE----MG-LTPISRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      +.-+|...|.-..++++|+.++.+-..    .+ ..-..+.+.+|..+|...|..++|..+.++-.+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            556677777777788888887766431    11 122466788888889888999998888776544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.88  E-value=0.0016  Score=56.11  Aligned_cols=63  Identities=17%  Similarity=0.134  Sum_probs=32.1

Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          263 PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       263 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ..|..+.......|++++|...+++..+.+  |+...|..+...+...|+.++|.+.++....++
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            444444444444455555555555555433  344455555555555555555555555554444

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.85  E-value=0.0063  Score=45.84  Aligned_cols=65  Identities=18%  Similarity=0.132  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcC--CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFN--CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      +..+-.....+...|++.+|.+.|+.+....  -+-.....-.++.++.+.|+++.|...+++..+.
T Consensus         5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen    5 AEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444445556667888888888888887643  1222445556777788888888888888887765

>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=97.84  E-value=0.00011  Score=44.45  Aligned_cols=67  Identities=15%  Similarity=0.109  Sum_probs=41.2

Q ss_pred             ChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCC-chhHHHHHHHHHhhhcc
Q 020202          261 NRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCG-KHDLAEKIELLEVSLRS  328 (329)
Q Consensus       261 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~  328 (329)
                      +..+|..+...+...|++++|+..|++.++.. +-+...|..+..++.+.| ++++|.+.++...+++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            34456666666666666666666666666543 224556666666666666 56666666666665543

...

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

Probab=97.83  E-value=0.00089  Score=49.38  Aligned_cols=104  Identities=18%  Similarity=0.225  Sum_probs=57.1

Q ss_pred             ccHHHHHHHHHHHHhc-----chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCccc
Q 020202           50 QCVLLYNSLLFALCEV-----KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRG  124 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  124 (329)
                      .+-.+|..+++.+.+.     |..+-....+..|.+-|+.-|..+|+.|++.+=+ |.+- -..+|+.+           
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~-----------  111 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAE-----------  111 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHH-----------
Confidence            4455566666555532     4455555555566666666666666666655543 2111 00111111           


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE  172 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  172 (329)
                          -..|  -.+.+-|++++++|...|+.||..++..+++.+++.+.
T Consensus       112 ----F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 ----FMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ----hccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                0000  12345677788888888888888888888887777655

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

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.83  E-value=0.009  Score=48.45  Aligned_cols=280  Identities=15%  Similarity=0.082  Sum_probs=156.6

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      .....+.+..++..|+..+...++.. |.+...|..-+..+...++++++.--.+.-.+.... ........-+++...+
T Consensus        54 ~~gn~~yk~k~Y~nal~~yt~Ai~~~-pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   54 EEGNAFYKQKTYGNALKNYTFAIDMC-PDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALS  131 (486)
T ss_pred             hhcchHHHHhhHHHHHHHHHHHHHhC-ccchhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhH
Confidence            34445566677788888888888776 556666766666777777777776655444432100 1112222333333333


Q ss_pred             chhHHHHHHH---------------HHHhCCC-CCCcccHHHH-HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHH
Q 020202          102 KMREAQEFLQ---------------EMSDKGF-NPPVRGRDLL-VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLI  164 (329)
Q Consensus       102 ~~~~a~~~~~---------------~~~~~~~-~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  164 (329)
                      +..+|.+.++               ....... +|.-.++..+ ..++.-.|+.++|.+.--...+.... +......--
T Consensus       132 ~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg  210 (486)
T KOG0550|consen  132 DLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRG  210 (486)
T ss_pred             HHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc-hhHHHHhcc
Confidence            3333333322               1111111 1222223222 24556678888888777666655321 222222222


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCchhhHHH-------------HHHHHHhcCCHHHHHHHHHHHHhC---CCCCChh
Q 020202          165 ETICKSGEVEFCVEMYYSVCKLGLCADVSTYKI-------------LIPAVSKAGMIDEAFRLLHNLVED---GHKPFPS  228 (329)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------------l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~  228 (329)
                      .++...++.+.+...|.+....+  |+...-..             =..-..+.|.+..|.+.|.+.+..   +..|+..
T Consensus       211 ~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nak  288 (486)
T KOG0550|consen  211 LCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAK  288 (486)
T ss_pred             cccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHH
Confidence            33445677888888888877654  33221111             122234678888999998887754   3455666


Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHH---HHHHhccCCHHHHHHHHHHHHhCCCCC-ChhhHHHHH
Q 020202          229 LYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTML---ITMCGRGGRFVEAANYLVEMTEMGLTP-ISRCFDLVT  304 (329)
Q Consensus       229 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~  304 (329)
                      .|........+.|+..+|+.--++..+.    |..-...+   ..++...++|++|.+-++...+....+ ...++....
T Consensus       289 lY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~  364 (486)
T KOG0550|consen  289 LYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQ  364 (486)
T ss_pred             HHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHH
Confidence            6777777788888988888887777764    33322222   234556788888888888776543332 234555544


Q ss_pred             HHHHhC
Q 020202          305 DGLKNC  310 (329)
Q Consensus       305 ~~~~~~  310 (329)
                      .++.++
T Consensus       365 ~aLkkS  370 (486)
T KOG0550|consen  365 LALKKS  370 (486)
T ss_pred             HHHHHh
Confidence            444433

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.78  E-value=0.003  Score=42.67  Aligned_cols=56  Identities=23%  Similarity=0.287  Sum_probs=27.2

Q ss_pred             HHHHhcchHHHHHHHHHHHHHcCCccC--hHHHHHHHHHHHhcCchhHHHHHHHHHHh
Q 020202           60 FALCEVKLFHGAYALIRRMIRKGFVPD--KRTYAILVNAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        60 ~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      .++-..|+.++|+.+|++....|....  ...+-.+...+...|++++|..+++....
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344445555555555555555443322  12333444455555555555555555543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.78  E-value=0.0083  Score=45.69  Aligned_cols=131  Identities=10%  Similarity=0.061  Sum_probs=72.4

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH-----
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV-----  129 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----  129 (329)
                      -+.++.++...|.+.-...++.+..+...+.++.....|.+...+.||.+.|...|+...+..-..+..+++.+.     
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            345555555566666666666666665555556666666666666666666666666654443333444443332     


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKL  186 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  186 (329)
                      ..|.-.+++..|...+.++...+.. ++...|.-.-+..-.|+..+|.+..+.|...
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            2233445566666666665555332 4444444444444456666666666666554

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.75  E-value=0.0072  Score=43.47  Aligned_cols=128  Identities=15%  Similarity=0.085  Sum_probs=72.7

Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc-cCHHhHHH
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV-LDLETFNS  162 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  162 (329)
                      .|+...-..|..+....|+..+|...|++....-+.-|....-.+.++....+++..|..+++.+-+.... .++.+...
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            45555555666666677777777777766665445555666666666666667777777776666654210 12233445


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHH
Q 020202          163 LIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFR  213 (329)
Q Consensus       163 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  213 (329)
                      +.+.+...|.+.+|..-|+.....-  |+...-..-...+.+.|+.+++..
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHHH
Confidence            5566666677776776666665532  333332233333445555444433

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.72  E-value=0.014  Score=47.57  Aligned_cols=166  Identities=15%  Similarity=0.085  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcC---CccChHHHHHHHHHHHh---cCchhHHHHHHHHHHhCCCCCCcccHHH
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKG---FVPDKRTYAILVNAWCS---SGKMREAQEFLQEMSDKGFNPPVRGRDL  127 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  127 (329)
                      +...++-+|....+++...++++.+....   +.-....-....-++.+   .|+.++|++++..+....-.+++.++..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            33344445555556666666665555431   11111112223333334   5555666666555433333455555555


Q ss_pred             HHHHHHh---------cCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC----HHHHHHHH---HH-HHHcC---
Q 020202          128 LVQGLLN---------AGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE----VEFCVEMY---YS-VCKLG---  187 (329)
Q Consensus       128 l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~a~~~~---~~-~~~~~---  187 (329)
                      +.+.|-.         ....++|...|.+.-+..  |+...--.++..+...|.    -.+..++-   .. +.+.|   
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            5544421         112455666665554432  232221111111111221    11122222   11 11222   


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          188 LCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       188 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      ...+--.+..++.++.-.|+.++|.+..++|.+.
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            2234445566777777777777777777777765

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

Probab=97.72  E-value=0.0002  Score=43.14  Aligned_cols=52  Identities=15%  Similarity=0.330  Sum_probs=29.8

Q ss_pred             hcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 020202           64 EVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      +.|++++|.++|+++....+. +...+..+..++.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            456666666666666555322 4555555666666666666666666666554

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.71  E-value=0.0024  Score=49.59  Aligned_cols=128  Identities=15%  Similarity=0.071  Sum_probs=90.2

Q ss_pred             hhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC---chhHHHHH
Q 020202           33 VDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG---KMREAQEF  109 (329)
Q Consensus        33 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~  109 (329)
                      .+....-++.-...+ |.|...|-.|...|...|+++.|...|.+..+.. .++...+..+..++..+.   +-.++..+
T Consensus       138 ~~~l~a~Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~l  215 (287)
T COG4235         138 MEALIARLETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARAL  215 (287)
T ss_pred             HHHHHHHHHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            334444444444555 7788899999999999999999999998888763 335566666666554433   45678888


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHH
Q 020202          110 LQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIE  165 (329)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  165 (329)
                      ++++.... +-++.+...|...+...|++.+|...|+.|.+..  |....+..+++
T Consensus       216 l~~al~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~~rr~~ie  268 (287)
T COG4235         216 LRQALALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLL--PADDPRRSLIE  268 (287)
T ss_pred             HHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--CCCCchHHHHH
Confidence            88888775 4566777777888888999999999999988874  33334444444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.71  E-value=0.0043  Score=48.20  Aligned_cols=103  Identities=11%  Similarity=0.082  Sum_probs=87.5

Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCccCHHhH
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG---YLESAKQMVNKMIKQGFVLDLETF  160 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  160 (329)
                      +-|...|-.|..+|...|+.+.|..-|....+.. ++++..+..+..++....   ...++.++|+++...... +..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHH
Confidence            3488999999999999999999999999998874 567777877777766543   357889999999988654 77888


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          161 NSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       161 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      ..|...+...|++.+|...|+.|.+...
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            8888999999999999999999998754

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.70  E-value=0.012  Score=44.39  Aligned_cols=49  Identities=12%  Similarity=0.163  Sum_probs=30.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHhCCchhHHHH
Q 020202          268 LITMCGRGGRFVEAANYLVEMTEMGLTPI----SRCFDLVTDGLKNCGKHDLAEK  318 (329)
Q Consensus       268 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~  318 (329)
                      +.+-|.+.|.+..|..-++.+++.=  |+    ......++.+|.+.|..+.|..
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~y--p~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENY--PDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            4556777777777777777777532  22    3355667777777777775443

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

Probab=97.68  E-value=0.00097  Score=51.48  Aligned_cols=101  Identities=17%  Similarity=0.111  Sum_probs=67.3

Q ss_pred             HHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH
Q 020202           61 ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLES  140 (329)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  140 (329)
                      -+.+.+++++|+..|.+.+..... |.+.|..-..+|.+.|.++.|++-.+..+..+ +....+|..|..+|...|++.+
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            445667777777777777765433 66666777777777777777777776666654 3335567777777777777777


Q ss_pred             HHHHHHHHHHcCCccCHHhHHHHHH
Q 020202          141 AKQMVNKMIKQGFVLDLETFNSLIE  165 (329)
Q Consensus       141 a~~~~~~~~~~~~~~~~~~~~~l~~  165 (329)
                      |.+.|++..+.  .|+-.+|..=+.
T Consensus       168 A~~aykKaLel--dP~Ne~~K~nL~  190 (304)
T KOG0553|consen  168 AIEAYKKALEL--DPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHhhhcc--CCCcHHHHHHHH
Confidence            77777777665  455555544443

>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=97.67  E-value=0.00092  Score=47.42  Aligned_cols=73  Identities=23%  Similarity=0.335  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHH-----hCCCCCCcccH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMS-----DKGFNPPVRGR  125 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~  125 (329)
                      ..+...++..+...|++++|..+++.+.... +.|...|..+|.++...|+...|.+.|+.+.     +.|+.|+..+-
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            4566677778888888888888888888775 3377788888888888888888888888773     34777776554

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

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

Probab=97.66  E-value=0.02  Score=46.14  Aligned_cols=110  Identities=16%  Similarity=0.179  Sum_probs=80.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 020202          193 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMC  272 (329)
Q Consensus       193 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (329)
                      .+.+..+.-+...|+...|.++-.+.   . .|+...|...+.+++..++|++-.++...      +-++.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            45556667777788888887776654   2 36888888899999999999887776432      12457788899999


Q ss_pred             hccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHH
Q 020202          273 GRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELL  322 (329)
Q Consensus       273 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  322 (329)
                      .+.|+..+|..+..++          .+..-+..|.++|++.+|.+..-.
T Consensus       248 ~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999998888888662          224556777888888888776443

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

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

Probab=97.65  E-value=0.0012  Score=51.00  Aligned_cols=86  Identities=13%  Similarity=0.013  Sum_probs=41.1

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCV  177 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  177 (329)
                      .+.+++.+|+..|.+.+... +.|..-|..-..+|.+.|.++.|.+-.+..+..+.. -..+|..|..+|...|++++|.
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHHHH
Confidence            34445555555555555442 333444444455555555555555555444443211 2334555555555555555555


Q ss_pred             HHHHHHHH
Q 020202          178 EMYYSVCK  185 (329)
Q Consensus       178 ~~~~~~~~  185 (329)
                      +.|++.++
T Consensus       170 ~aykKaLe  177 (304)
T KOG0553|consen  170 EAYKKALE  177 (304)
T ss_pred             HHHHhhhc
Confidence            55554444

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.65  E-value=0.0052  Score=41.52  Aligned_cols=54  Identities=17%  Similarity=0.234  Sum_probs=24.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          202 VSKAGMIDEAFRLLHNLVEDGHKPF--PSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       202 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      +-..|+.++|..+|++....|....  ...+-.+...+...|++++|..++++...
T Consensus        11 ~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen   11 HDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344555555555555444443322  12233344444455555555555554443

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

Probab=97.63  E-value=0.00035  Score=41.60  Aligned_cols=56  Identities=23%  Similarity=0.463  Sum_probs=30.9

Q ss_pred             HHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          234 IKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       234 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      ...+...|++++|...|+.+.+.. +-+...+..+..++...|++++|...|+++.+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344555666666666666665543 22445555555566666666666666665554

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.61  E-value=0.015  Score=47.23  Aligned_cols=261  Identities=14%  Similarity=0.034  Sum_probs=156.7

Q ss_pred             HHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 020202           58 LLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGY  137 (329)
Q Consensus        58 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  137 (329)
                      ....+.+..++..|+..+....+..+. +...|..=+..+...++++++.--.+.-.+.. +-......-.-+++...++
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~a~~~  132 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHLALSD  132 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhhhhHH
Confidence            334566778888999999888887543 45556656666667777777766555443321 0111122222233333333


Q ss_pred             hHHHHHHHH---------------HHHHcCC-ccCHHhHHHH-HHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 020202          138 LESAKQMVN---------------KMIKQGF-VLDLETFNSL-IETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIP  200 (329)
Q Consensus       138 ~~~a~~~~~---------------~~~~~~~-~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  200 (329)
                      ..+|...++               ....... +|.-.++..+ ..++...|+.++|.++--.+.+...   ...+...++
T Consensus       133 ~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~---~n~~al~vr  209 (486)
T KOG0550|consen  133 LIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDA---TNAEALYVR  209 (486)
T ss_pred             HHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhccc---chhHHHHhc
Confidence            333332222               2222211 1222333333 3456678899999888777766432   222333332


Q ss_pred             --HHHhcCCHHHHHHHHHHHHhCCCCCChhhH-------------HHHHHHHHccCChhHHHHHHHHHHHc---CCCCCh
Q 020202          201 --AVSKAGMIDEAFRLLHNLVEDGHKPFPSLY-------------APIIKGMFRRGQFDDAFCFFSEMKIK---GHPPNR  262 (329)
Q Consensus       201 --~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~  262 (329)
                        ++-..++.+.+...|++.+..+  |+...-             ..=..-..+.|++..|.+.+.+.+..   +..|+.
T Consensus       210 g~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~na  287 (486)
T KOG0550|consen  210 GLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNA  287 (486)
T ss_pred             ccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhH
Confidence              3345678888999998877653  332211             11122356789999999999998865   446667


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          263 PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       263 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ..|.....+..+.|+.++|+.-.++..+.  .|. ...+..-..++.-.++|++|.+-++...+..
T Consensus       288 klY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  288 KLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            77877778888999999999999887643  222 2334444456667789999998887776654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.59  E-value=0.013  Score=50.38  Aligned_cols=259  Identities=14%  Similarity=0.157  Sum_probs=136.9

Q ss_pred             CCCCHHHHHHHHHHHHccCchhHHHHHH---------HHhhhcCCCccHHHHHHHHHHHHhcch--HHHHHHHHHHHHHc
Q 020202           13 LSVSPQTLSLIIEEFGKHGLVDNAVEVF---------NKCTAFNCQQCVLLYNSLLFALCEVKL--FHGAYALIRRMIRK   81 (329)
Q Consensus        13 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~---------~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~   81 (329)
                      +.+.+..+.+-+..|...|.+++|.++-         +.+...  ..+.--++..=.+|.+.++  +-+...-+++++++
T Consensus       552 i~~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~r  629 (1081)
T KOG1538|consen  552 ISAVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKR  629 (1081)
T ss_pred             eecccccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhc
Confidence            4555666777777888888888886542         111110  0112223334445555443  33444455667777


Q ss_pred             CCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHH-----HHHHHHHhcCChHHHHHHHHHHHHcCCccC
Q 020202           82 GFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRD-----LLVQGLLNAGYLESAKQMVNKMIKQGFVLD  156 (329)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  156 (329)
                      |-.|+..   .+...++-.|++.+|-++|.+--..+-  -...|+     -..+-+...|..++-..+.++-.+-  ..+
T Consensus       630 ge~P~~i---LlA~~~Ay~gKF~EAAklFk~~G~enR--AlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W--Ar~  702 (1081)
T KOG1538|consen  630 GETPNDL---LLADVFAYQGKFHEAAKLFKRSGHENR--ALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW--ARN  702 (1081)
T ss_pred             CCCchHH---HHHHHHHhhhhHHHHHHHHHHcCchhh--HHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH--hhh
Confidence            8777764   345567777888888888765422110  001111     1122333444443333333322111  001


Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHH------HHHcCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh
Q 020202          157 LETFNSLIETICKSGEVEFCVEMYYS------VCKLGLC---ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFP  227 (329)
Q Consensus       157 ~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  227 (329)
                      ..--.+..+.+...|+.++|..+.-+      +.+.+-+   .+..+...+...+-+...+..|.++|..|-..      
T Consensus       703 ~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~------  776 (1081)
T KOG1538|consen  703 IKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL------  776 (1081)
T ss_pred             cCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH------
Confidence            11112334555566777776654321      1111111   23344455555555666777788888776432      


Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChh-----------hHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 020202          228 SLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRP-----------VYTMLITMCGRGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       228 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~  291 (329)
                         ..+++.....+++++|..+-+...+.  .||..           -|...-++|.+.|+-.+|.++++++...
T Consensus       777 ---ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  777 ---KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             ---HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence               34667778889999998887776553  33322           2333445677778888888888777543

>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=97.59  E-value=0.0061  Score=43.20  Aligned_cols=72  Identities=17%  Similarity=0.344  Sum_probs=49.1

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH-----hCCCCCChhhHH
Q 020202          229 LYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT-----EMGLTPISRCFD  301 (329)
Q Consensus       229 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~p~~~~~~  301 (329)
                      +...++..+...|++++|..+.+.+.... |.|...|..++.+|...|+...|.++|+.+.     +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            34556667778888888888888888763 4477788888888888888888888887765     468888766543

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

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.55  E-value=0.031  Score=45.26  Aligned_cols=286  Identities=14%  Similarity=0.073  Sum_probs=169.6

Q ss_pred             HHHHHHHHH--ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHH--HhcchHHHHHHHHHHHHHcCCccChHHH----H
Q 020202           20 LSLIIEEFG--KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFAL--CEVKLFHGAYALIRRMIRKGFVPDKRTY----A   91 (329)
Q Consensus        20 ~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~   91 (329)
                      |..|-..+.  -.|+-..|.++-.+..+. +..|....-.++.+-  .-.|+++.|.+-|+.|..     |+.|-    .
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLR  158 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLR  158 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHH
Confidence            445544444  357778888777665432 234444454555443  346999999999999986     33333    2


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcC-CccCHHh--HHHHHHHHH
Q 020202           92 ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG-FVLDLET--FNSLIETIC  168 (329)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~--~~~l~~~~~  168 (329)
                      .|.-...+.|+.+.|.++-+..-..- +.-...+...+...+..|+|+.|+++++.-.+.. +.++..-  -..|+.+-.
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA  237 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKA  237 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHH
Confidence            33334457788898988888876553 3346778889999999999999999998766542 2333321  122222211


Q ss_pred             ---ccCCHHHHHHHHHHHHHcCCCCchh-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChh
Q 020202          169 ---KSGEVEFCVEMYYSVCKLGLCADVS-TYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFD  244 (329)
Q Consensus       169 ---~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  244 (329)
                         -..+...|...-.+..+  ..|+.. .-..-..++.+.|+..++-.+++.+-+....|  ..+.  +..+.+.|+  
T Consensus       238 ~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP--~ia~--lY~~ar~gd--  309 (531)
T COG3898         238 MSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHP--DIAL--LYVRARSGD--  309 (531)
T ss_pred             HHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCCh--HHHH--HHHHhcCCC--
Confidence               12345555555444433  345533 22334567788888888888888888764443  3222  222344444  


Q ss_pred             HHHHHHHHHHHc-CCCC-ChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhC-CchhHHHHHHH
Q 020202          245 DAFCFFSEMKIK-GHPP-NRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNC-GKHDLAEKIEL  321 (329)
Q Consensus       245 ~a~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~  321 (329)
                      .+..-+++.... .++| |....-.+..+-...|++..|..--+....  ..|....|..|.+.-... |+-.++....-
T Consensus       310 ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlA  387 (531)
T COG3898         310 TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLA  387 (531)
T ss_pred             cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHH
Confidence            343333333322 1233 445555666777777888777766555543  457777777777765544 77777666544


Q ss_pred             H
Q 020202          322 L  322 (329)
Q Consensus       322 ~  322 (329)
                      .
T Consensus       388 q  388 (531)
T COG3898         388 Q  388 (531)
T ss_pred             H
Confidence            3

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.52  E-value=0.0042  Score=48.56  Aligned_cols=97  Identities=13%  Similarity=0.080  Sum_probs=50.3

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCCccC--hHHHHHHHHHHHhcCchhHHHHHHHHHHhCC--CCCCcccHHHHHH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPD--KRTYAILVNAWCSSGKMREAQEFLQEMSDKG--FNPPVRGRDLLVQ  130 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~  130 (329)
                      |...+....+.|++++|...|+.+.+..+...  ...+..+..++...|++++|...|+.+.+.-  .+.....+..+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            44434333445666666666666665421110  2345555566666666666666666665431  1112233333445


Q ss_pred             HHHhcCChHHHHHHHHHHHHc
Q 020202          131 GLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .+...|+.++|..+++++.+.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            555666666666666666655

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.51  E-value=0.0024  Score=51.72  Aligned_cols=264  Identities=14%  Similarity=0.049  Sum_probs=159.9

Q ss_pred             HHHHccCchhHHHHHHHHhhhcCCCcc----HHHHHHHHHHHHhcchHHHHHHHHHH--HHHc--CC-ccChHHHHHHHH
Q 020202           25 EEFGKHGLVDNAVEVFNKCTAFNCQQC----VLLYNSLLFALCEVKLFHGAYALIRR--MIRK--GF-VPDKRTYAILVN   95 (329)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~--~~~~--~~-~~~~~~~~~l~~   95 (329)
                      .-+++.|+....+.+|+...+.| ..|    ..+|..|..+|.-.+++++|+++-..  .+.+  |- .-...+...|.+
T Consensus        25 ERLck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            45789999999999999999887 444    34577777888888999999886432  1111  10 011223344555


Q ss_pred             HHHhcCchhHHHHHHHHH----HhCCC-CCCcccHHHHHHHHHhcCC--------------------hHHHHHHHHHHHH
Q 020202           96 AWCSSGKMREAQEFLQEM----SDKGF-NPPVRGRDLLVQGLLNAGY--------------------LESAKQMVNKMIK  150 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~----~~~~~-~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~  150 (329)
                      .+--.|.+++|...-.+-    .+.|- ......+..+.+.|...|+                    ++.|.+.|.+-.+
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~  183 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLE  183 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHH
Confidence            566667777766543222    22220 1122344455666655442                    2334444432211


Q ss_pred             ----cCC-ccCHHhHHHHHHHHHccCCHHHHHHHHHHHHH----cCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHHHH-
Q 020202          151 ----QGF-VLDLETFNSLIETICKSGEVEFCVEMYYSVCK----LGLC-ADVSTYKILIPAVSKAGMIDEAFRLLHNLV-  219 (329)
Q Consensus       151 ----~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-  219 (329)
                          .|- ...-..|..|.+.|.-.|+++.|+...+.-..    -|-. ..-..+..+..++.-.|+++.|.+.|+... 
T Consensus       184 l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~  263 (639)
T KOG1130|consen  184 LSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLN  263 (639)
T ss_pred             HHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHH
Confidence                110 01123456666667778899999877665322    1211 123467778888888899999999887743 


Q ss_pred             ---hCCC-CCChhhHHHHHHHHHccCChhHHHHHHHHHHHc-----CCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          220 ---EDGH-KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK-----GHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       220 ---~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                         +.|- .....+..+|...|.-..++++|+.++.+-+..     ...-....+.+|..+|...|..++|+.+.+...
T Consensus       264 LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  264 LAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence               2221 123345556778888888889998877654321     122345688899999999999999988776654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.51  E-value=0.001  Score=40.69  Aligned_cols=57  Identities=12%  Similarity=0.163  Sum_probs=42.0

Q ss_pred             HHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202           25 EEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      ..+.+.+++++|.++++.+...+ |.+...|.....++.+.|++++|.+.|+...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            45667777777777777777776 6677777777777777777777777777777653

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

Probab=97.47  E-value=0.0042  Score=42.41  Aligned_cols=102  Identities=11%  Similarity=0.094  Sum_probs=66.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 020202          191 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLIT  270 (329)
Q Consensus       191 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  270 (329)
                      |..++..++.++++.|+.+....+++..-  |+.++...         ..+.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            34567777777777888777777776543  22221110         0000         1122346788888888888


Q ss_pred             HHhccCCHHHHHHHHHHHH-hCCCCCChhhHHHHHHHHHhCCc
Q 020202          271 MCGRGGRFVEAANYLVEMT-EMGLTPISRCFDLVTDGLKNCGK  312 (329)
Q Consensus       271 ~~~~~~~~~~a~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~g~  312 (329)
                      +|+..|++..|+++++... ..+++.+..+|..|++-....-+
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcC
Confidence            8888888888888888876 46677778888888876554443

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.47  E-value=0.0056  Score=47.87  Aligned_cols=88  Identities=10%  Similarity=-0.012  Sum_probs=36.5

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHccCCh
Q 020202          168 CKSGEVEFCVEMYYSVCKLGLCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH--KPFPSLYAPIIKGMFRRGQF  243 (329)
Q Consensus       168 ~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  243 (329)
                      .+.|++++|...|+.+.+..+...  ...+-.+..+|...|++++|...|+.+.+.-.  ......+..+...+...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            334455555555555544322111  12334444444445555555555554443211  11122233333344444444


Q ss_pred             hHHHHHHHHHHH
Q 020202          244 DDAFCFFSEMKI  255 (329)
Q Consensus       244 ~~a~~~~~~~~~  255 (329)
                      ++|..+|+.+.+
T Consensus       234 ~~A~~~~~~vi~  245 (263)
T PRK10803        234 AKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHHHHH
Confidence            555444444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.41  E-value=0.025  Score=40.83  Aligned_cols=135  Identities=13%  Similarity=0.119  Sum_probs=97.0

Q ss_pred             CCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CchhhHHH
Q 020202          119 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC-ADVSTYKI  197 (329)
Q Consensus       119 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  197 (329)
                      .|+...-..|..++.+.|+..+|...|.+....-+.-|......+.++....+++..|...++++.+..+. .++.+...
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            47777777888889999999999999998887666667888888888888889999999999888765321 12334456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHH----HHHHHHHH
Q 020202          198 LIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAF----CFFSEMKI  255 (329)
Q Consensus       198 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~----~~~~~~~~  255 (329)
                      +.+.+...|.+.+|+.-|+.....  -|+...-......+.+.|+.+++.    .+++.+.+
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d~~~r  225 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAVVDTAKR  225 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence            677888889999999999888775  344444444445566777666554    44444443

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

Probab=97.36  E-value=0.092  Score=46.23  Aligned_cols=109  Identities=14%  Similarity=0.146  Sum_probs=70.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHh
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCG  273 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (329)
                      +.+--+.-+...|+..+|.++-.+..    .|+...|..=+.+++..+++++-+++-+..+      ++.-|...+.+|.
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~  755 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACL  755 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHH
Confidence            34444445555666666666655442    3566677777777777777777666544432      2456777788888


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHH
Q 020202          274 RGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEL  321 (329)
Q Consensus       274 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  321 (329)
                      +.|+.++|.+++.+..     +    +.....+|.+.|++.+|.++.-
T Consensus       756 ~~~n~~EA~KYiprv~-----~----l~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  756 KQGNKDEAKKYIPRVG-----G----LQEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             hcccHHHHhhhhhccC-----C----hHHHHHHHHHhccHHHHHHHHH
Confidence            8888888888775432     1    1156778888888888877643

>PRK15331 chaperone protein SicA; Provisional

Probab=97.34  E-value=0.0069  Score=42.86  Aligned_cols=93  Identities=11%  Similarity=-0.022  Sum_probs=66.1

Q ss_pred             HHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 020202           57 SLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG  136 (329)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (329)
                      ....-+...|++++|..+|+-+...++. +..-+..|..++-..+++++|...|......+ .-|+..+-....++...|
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhC
Confidence            4445556778888888888877765533 55666777777777888888888887765554 244555556677888888


Q ss_pred             ChHHHHHHHHHHHHc
Q 020202          137 YLESAKQMVNKMIKQ  151 (329)
Q Consensus       137 ~~~~a~~~~~~~~~~  151 (329)
                      +.+.|...|....+.
T Consensus       120 ~~~~A~~~f~~a~~~  134 (165)
T PRK15331        120 KAAKARQCFELVNER  134 (165)
T ss_pred             CHHHHHHHHHHHHhC
Confidence            888888888877774

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.29  E-value=0.072  Score=43.67  Aligned_cols=97  Identities=11%  Similarity=0.038  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCC---CCCCcccHHHHHHHHHh---cCChHHHHHHHHHHHHcCCccCHHhHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKG---FNPPVRGRDLLVQGLLN---AGYLESAKQMVNKMIKQGFVLDLETFNS  162 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  162 (329)
                      +...++-+|....+++...++++.+....   +..+...-....-++.+   .|+.++|++++..+......+++.+|..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            33455556777788888888888886642   11122222234445556   7788888888887655555667777777


Q ss_pred             HHHHHHc---------cCCHHHHHHHHHHHHH
Q 020202          163 LIETICK---------SGEVEFCVEMYYSVCK  185 (329)
Q Consensus       163 l~~~~~~---------~~~~~~a~~~~~~~~~  185 (329)
                      +...|-.         ....++|+..|.+.-+
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe  254 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFE  254 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHc
Confidence            6665532         1124555555555443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.23  E-value=0.0037  Score=38.13  Aligned_cols=52  Identities=15%  Similarity=0.097  Sum_probs=20.4

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIK  150 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  150 (329)
                      .+.+++++|.++++.+...+ |.++..+.....++.+.|++++|.+.+++..+
T Consensus         6 ~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    6 LQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            33344444444444443332 22333333334444444444444444444433

>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=97.19  E-value=0.0028  Score=39.31  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEM  113 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~  113 (329)
                      ++..+..++...|++++|++.+++.
T Consensus        48 ~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen   48 TLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444444444444444443

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.17  E-value=0.03  Score=46.56  Aligned_cols=67  Identities=13%  Similarity=0.054  Sum_probs=53.8

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccH---HHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCV---LLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      +.++..++.+..+|.+.|++++|+..|++..+.+ |.+.   .+|..+..+|...|+.++|++.+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~-Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN-PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4467788888888888999999999998888775 3333   35888888888899999998888888775

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

Probab=97.15  E-value=0.011  Score=40.34  Aligned_cols=98  Identities=17%  Similarity=0.156  Sum_probs=68.6

Q ss_pred             CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 020202          156 DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIK  235 (329)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  235 (329)
                      |..++..++.++++.|+.+....+++..-.  +.++...         ..+.         .-......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~Wg--I~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWG--IDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcC--CCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            467889999999999999999999877643  2222100         0000         1113356788888888888


Q ss_pred             HHHccCChhHHHHHHHHHHHc-CCCCChhhHHHHHHHHh
Q 020202          236 GMFRRGQFDDAFCFFSEMKIK-GHPPNRPVYTMLITMCG  273 (329)
Q Consensus       236 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  273 (329)
                      +|+.+|++..|.++.+...+. +++.+..+|..|+.-+.
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            888888888888888887654 66667778888777544

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

>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=97.14  E-value=0.0026  Score=39.43  Aligned_cols=64  Identities=11%  Similarity=0.147  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhc----CC-Ccc-HHHHHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAF----NC-QQC-VLLYNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      ..+|+.+...|...|++++|+..|++..+.    |- .|+ ..+++.+..++...|++++|++.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            457899999999999999999999988643    20 122 66788999999999999999999988764

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.12  E-value=0.051  Score=38.62  Aligned_cols=85  Identities=13%  Similarity=-0.018  Sum_probs=44.7

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHH
Q 020202          204 KAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAAN  283 (329)
Q Consensus       204 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  283 (329)
                      ..|++++|..+|+-+...++. +..-+..|..++-..+++++|...|......+. -|+..+-....++...|+.+.|..
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~~  126 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKARQ  126 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHHH
Confidence            455666666666555544332 334444455555555566666665555544332 244444445555556666666666


Q ss_pred             HHHHHHh
Q 020202          284 YLVEMTE  290 (329)
Q Consensus       284 ~~~~~~~  290 (329)
                      .|...++
T Consensus       127 ~f~~a~~  133 (165)
T PRK15331        127 CFELVNE  133 (165)
T ss_pred             HHHHHHh
Confidence            6555554

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

Probab=96.96  E-value=0.17  Score=42.02  Aligned_cols=69  Identities=12%  Similarity=0.116  Sum_probs=56.5

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF   83 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (329)
                      |.|...|-.|+..+...|..++..++++++...- |--..+|..-+.+-...+++..+..+|.+-+....
T Consensus        39 PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pf-p~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l  107 (660)
T COG5107          39 PTNILSYFQLIQYLETQESMDAEREMYEQLSSPF-PIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL  107 (660)
T ss_pred             chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCC-ccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc
Confidence            5678899999999999999999999999997643 55567788888877777888888888877766543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.91  E-value=0.14  Score=40.10  Aligned_cols=144  Identities=16%  Similarity=0.188  Sum_probs=76.0

Q ss_pred             HHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 020202           60 FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLE  139 (329)
Q Consensus        60 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  139 (329)
                      ......|++.+|..+|......... +...-..++.++...|+.+.|..++..+...--.........-+..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            3445566666677766666655322 344555666667777777777777666543321111122223344455555444


Q ss_pred             HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCchhhHHHHHHHHHhcC
Q 020202          140 SAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-LCADVSTYKILIPAVSKAG  206 (329)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~  206 (329)
                      +...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+.+.+ -.-|...-..++..+.--|
T Consensus       221 ~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         221 EIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             CHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            444444444332  1145555566666666777777766665554432 1234445555666555555

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.90  E-value=0.17  Score=41.16  Aligned_cols=256  Identities=16%  Similarity=0.147  Sum_probs=117.1

Q ss_pred             HHHHHHHHHh--cchHHHHHHHHHHHHHcCCccChHHHHHHHHH--HHhcCchhHHHHHHHHHHhCCCCCCcc--cHHHH
Q 020202           55 YNSLLFALCE--VKLFHGAYALIRRMIRKGFVPDKRTYAILVNA--WCSSGKMREAQEFLQEMSDKGFNPPVR--GRDLL  128 (329)
Q Consensus        55 ~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l  128 (329)
                      |..|-.+++.  .|+-..|.++-.+..+. +..|......++.+  -.-.|+++.|.+-|+.|...   |...  ....|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHH
Confidence            4444444333  34555555544433211 22233333444432  33456777777777776543   1111  12223


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCchh--hHHHHHHHHH--
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-LCADVS--TYKILIPAVS--  203 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~--~~~~l~~~~~--  203 (329)
                      .-.--+.|+.+.|.+.-+.....-.. -...+...+...+..|+|+.|+++++.-.... +.++..  .-..|+.+-.  
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            33334566666666666665554322 34556666666777777777777766554322 223321  1122222111  


Q ss_pred             -hcCCHHHHHHHHHHHHhCCCCCChh-hHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHH
Q 020202          204 -KAGMIDEAFRLLHNLVEDGHKPFPS-LYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEA  281 (329)
Q Consensus       204 -~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  281 (329)
                       -..+...|...-.+..+  ..|+.. .--.-..++.+.|+..++-.+++.+-+..  |.+..+..++  ..+.|+  .+
T Consensus       240 ~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~e--PHP~ia~lY~--~ar~gd--ta  311 (531)
T COG3898         240 LLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAE--PHPDIALLYV--RARSGD--TA  311 (531)
T ss_pred             HhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcC--CChHHHHHHH--HhcCCC--cH
Confidence             12334445444444333  233321 11223355666777777777777666653  3333222222  223343  23


Q ss_pred             HHHHHHHHh-CCCCCC-hhhHHHHHHHHHhCCchhHHHHHHHHH
Q 020202          282 ANYLVEMTE-MGLTPI-SRCFDLVTDGLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       282 ~~~~~~~~~-~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~  323 (329)
                      ..-+++... ..++|| ......+.++-...|++..|..-.+..
T Consensus       312 ~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa  355 (531)
T COG3898         312 LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAA  355 (531)
T ss_pred             HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            333333221 112333 445555566666666666665444433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.89  E-value=0.13  Score=39.53  Aligned_cols=140  Identities=16%  Similarity=0.078  Sum_probs=94.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHH----
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPII----  234 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----  234 (329)
                      +.+.++.++.-.+.+.-....+.+..+...+-++.....+.+.-.+.|+.+.|...|++..+..-..+..+++.++    
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3455666666777788888888888887766777788888888888888888888888776553344444444333    


Q ss_pred             -HHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHH
Q 020202          235 -KGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFD  301 (329)
Q Consensus       235 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  301 (329)
                       ..|...+++..|...+.++...+- .|+...|.-.-+..-.|+..+|.+.++.|.+.-  |...+-+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~--P~~~l~e  323 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQD--PRHYLHE  323 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhccC--Cccchhh
Confidence             345566778888888887776532 244444554445555778888888888887653  4444433

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

Probab=96.88  E-value=0.17  Score=40.92  Aligned_cols=109  Identities=17%  Similarity=0.232  Sum_probs=75.1

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMF  238 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  238 (329)
                      +.+.-+.-+...|+...|.++-.+.   .+ |+...|-..+.+++..++|++..++-..      +-++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F---kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF---KV-PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc---CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            4444456666778877777775554   23 7888888888888888888877765432      124567888888888


Q ss_pred             ccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHH
Q 020202          239 RRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVE  287 (329)
Q Consensus       239 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  287 (329)
                      ..|+..+|..++.+     +     .+..-+..|.+.|++.+|.+.-.+
T Consensus       249 ~~~~~~eA~~yI~k-----~-----~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  249 KYGNKKEASKYIPK-----I-----PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HCCCHHHHHHHHHh-----C-----ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            88888888877766     1     124456677788888888776544

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

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.84  E-value=0.089  Score=36.90  Aligned_cols=126  Identities=14%  Similarity=0.166  Sum_probs=76.7

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      ...++..+.+.+........++.+...+ +.+...++.++..|++.+ ..+..+.+..   .   .+.......++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHH
Confidence            4566777777788888888888887776 567778888888887654 3333444432   1   123334557777777


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc-CChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNA-GYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                      .+-++++..++.++..         +...+..+... ++++.|.+.+.+-      .+...|..++..+.
T Consensus        82 ~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       82 AKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             cCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            7777777777765522         22233333333 6666666666641      14556666665554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.82  E-value=0.0039  Score=33.59  Aligned_cols=40  Identities=13%  Similarity=0.228  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSL   58 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   58 (329)
                      .++..+...|.+.|++++|.++|+++.+.. |.|...+..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHHh
Confidence            345566666666666666666666666655 5555555544

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

Probab=96.82  E-value=0.18  Score=43.37  Aligned_cols=176  Identities=18%  Similarity=0.076  Sum_probs=106.2

Q ss_pred             HHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC-CccCh-----HHHHHHHHHHHh----cCchhHH
Q 020202           37 VEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG-FVPDK-----RTYAILVNAWCS----SGKMREA  106 (329)
Q Consensus        37 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a  106 (329)
                      .-+|+-+... +||.   ...++....=.|+-+.+++.+.+..+.+ +.-..     -.|...+..++.    ..+.+.|
T Consensus       177 ~G~f~L~lSl-LPp~---~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a  252 (468)
T PF10300_consen  177 FGLFNLVLSL-LPPK---VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEA  252 (468)
T ss_pred             HHHHHHHHHh-CCHH---HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHH
Confidence            3345555543 2444   4455666666777788887777665432 22111     223444443333    3467788


Q ss_pred             HHHHHHHHhCCCCCCcccHHH-HHHHHHhcCChHHHHHHHHHHHHcC---CccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          107 QEFLQEMSDKGFNPPVRGRDL-LVQGLLNAGYLESAKQMVNKMIKQG---FVLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      .++++.+.+.  -|+...|.. -.+.+...|++++|.+.|++.....   .+.....+--+.-++.-..+|++|.+.|..
T Consensus       253 ~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~  330 (468)
T PF10300_consen  253 EELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLR  330 (468)
T ss_pred             HHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHH
Confidence            8888888776  355555543 3466677888899988888655321   111234455556667778889999998888


Q ss_pred             HHHcCCCCchhhHHHHHHH-HHhcCCH-------HHHHHHHHHHH
Q 020202          183 VCKLGLCADVSTYKILIPA-VSKAGMI-------DEAFRLLHNLV  219 (329)
Q Consensus       183 ~~~~~~~~~~~~~~~l~~~-~~~~~~~-------~~a~~~~~~~~  219 (329)
                      +.+.+- .+..+|.-+..+ +...++.       ++|..+|.++.
T Consensus       331 L~~~s~-WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  331 LLKESK-WSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhccc-cHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            887543 344555544433 3445666       78888888765

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.63  E-value=0.2  Score=43.62  Aligned_cols=189  Identities=18%  Similarity=0.157  Sum_probs=106.9

Q ss_pred             HhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHH---------
Q 020202            5 IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALI---------   75 (329)
Q Consensus         5 ~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~---------   75 (329)
                      +++|+++|-.|+...   +...++-.|.+.+|-++|.+--..+         ..+..|...+.++.|.+++         
T Consensus       623 L~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~en---------RAlEmyTDlRMFD~aQE~~~~g~~~eKK  690 (1081)
T KOG1538|consen  623 LEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHEN---------RALEMYTDLRMFDYAQEFLGSGDPKEKK  690 (1081)
T ss_pred             HHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchh---------hHHHHHHHHHHHHHHHHHhhcCChHHHH
Confidence            567788887777654   3445666778888888876643221         2233333334444443333         


Q ss_pred             ---HHHHHc--CC-ccChHHHHHHHHHHHhcCchhHHHHHHH------HHHhCCC---CCCcccHHHHHHHHHhcCChHH
Q 020202           76 ---RRMIRK--GF-VPDKRTYAILVNAWCSSGKMREAQEFLQ------EMSDKGF---NPPVRGRDLLVQGLLNAGYLES  140 (329)
Q Consensus        76 ---~~~~~~--~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~------~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~  140 (329)
                         ++-.+.  ++ +|     ......+...|+.++|..+.-      .+.+.+-   ..+..+...+...+.+...+.-
T Consensus       691 mL~RKRA~WAr~~keP-----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gL  765 (1081)
T KOG1538|consen  691 MLIRKRADWARNIKEP-----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGL  765 (1081)
T ss_pred             HHHHHHHHHhhhcCCc-----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccch
Confidence               221110  11 11     123344556666666655421      1122111   1234455555556666777788


Q ss_pred             HHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCch-----------hhHHHHHHHHHhcCCHH
Q 020202          141 AKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADV-----------STYKILIPAVSKAGMID  209 (329)
Q Consensus       141 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~l~~~~~~~~~~~  209 (329)
                      |-++|.+|-+.         ..+++.....++|.+|+.+-++..+.  .|++           .-|...-.+|.+.|+-.
T Consensus       766 AaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~  834 (1081)
T KOG1538|consen  766 AAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQR  834 (1081)
T ss_pred             HHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchH
Confidence            88888877543         34566677888999998887775442  2332           12344456778888888


Q ss_pred             HHHHHHHHHHhC
Q 020202          210 EAFRLLHNLVED  221 (329)
Q Consensus       210 ~a~~~~~~~~~~  221 (329)
                      +|..+++++...
T Consensus       835 EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  835 EAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHHHHHhhhh
Confidence            888888887654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.57  E-value=0.16  Score=42.45  Aligned_cols=66  Identities=12%  Similarity=0.055  Sum_probs=57.9

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh----HHHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK----RTYAILVNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      |.+...++.+..+|.+.|++++|+..|++.++..  |+.    .+|..+..+|...|+.++|+..+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4568899999999999999999999999988764  443    35899999999999999999999999875

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.54  E-value=0.3  Score=38.96  Aligned_cols=123  Identities=20%  Similarity=0.175  Sum_probs=56.4

Q ss_pred             HHccCchhHHHHHHHHhhhcC--CCccH------HHHHHHHHHHHhcc-hHHHHHHHHHHHHHc--------CCccCh--
Q 020202           27 FGKHGLVDNAVEVFNKCTAFN--CQQCV------LLYNSLLFALCEVK-LFHGAYALIRRMIRK--------GFVPDK--   87 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~--~~~~~------~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~--------~~~~~~--   87 (329)
                      ..+.|+++.|..++.++....  ..|+.      ..||.-. .....+ +++.|..++++..+.        ...|+.  
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~-~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGK-SLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHH-HHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            356788888888888776432  12221      1222222 223334 666666665554432        111111  


Q ss_pred             ---HHHHHHHHHHHhcCchh---HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           88 ---RTYAILVNAWCSSGKMR---EAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        88 ---~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                         .++..++.++...+..+   +|..+++.+.... +-.+..+..-++.+.+.++.+.+.+.+.+|...
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence               23344455555544432   3333444443221 122333434444455555555555555555554

It is also involved in sporulation [].

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

Probab=96.51  E-value=0.14  Score=34.82  Aligned_cols=136  Identities=17%  Similarity=0.208  Sum_probs=69.2

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHH---HHHHHHHHhcCchh
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTY---AILVNAWCSSGKMR  104 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~  104 (329)
                      .-.|..++..++..+.....   +..-+|.+|--....-+-+-..+.++..   |--.|....   ..++.+++..|.  
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDis~C~NlKrVi~C~~~~n~--   84 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSI---GKIFDISKCGNLKRVIECYAKRNK--   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-GGG-S-THHHHHHHHHTT---
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHH---hhhcCchhhcchHHHHHHHHHhcc--
Confidence            44677888888888877643   5666777776666555544444444443   322232211   223333333221  


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 020202          105 EAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVC  184 (329)
Q Consensus       105 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  184 (329)
                                      +.......+..+...|+-+.-.+++..+.+. -.+++.....+..+|.+.|+..++.+++.+.-
T Consensus        85 ----------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   85 ----------------LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             ------------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             ----------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence                            2233444555666666666666666666542 24466666666777777777777777777766


Q ss_pred             HcCC
Q 020202          185 KLGL  188 (329)
Q Consensus       185 ~~~~  188 (329)
                      +.|.
T Consensus       148 ekG~  151 (161)
T PF09205_consen  148 EKGL  151 (161)
T ss_dssp             HTT-
T ss_pred             Hhch
Confidence            6665

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

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

Probab=96.49  E-value=0.39  Score=41.44  Aligned_cols=161  Identities=16%  Similarity=0.157  Sum_probs=99.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCch------hhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhh
Q 020202          160 FNSLIETICKSGEVEFCVEMYYSVCKLGLCADV------STYKILIPAVSK----AGMIDEAFRLLHNLVEDGHKPFPSL  229 (329)
Q Consensus       160 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  229 (329)
                      +..+++..+-.|+-+.+++.+....+.+-...+      ..|..++..++.    ....+.|.++++.+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            345566667788999999988887654221221      234444433332    45678899999998875  356555


Q ss_pred             HHHH-HHHHHccCChhHHHHHHHHHHHcC--C-CCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 020202          230 YAPI-IKGMFRRGQFDDAFCFFSEMKIKG--H-PPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTD  305 (329)
Q Consensus       230 ~~~l-~~~~~~~~~~~~a~~~~~~~~~~~--~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  305 (329)
                      |... .+.+...|++++|++.|++.....  . ......+.-+.-++.-.++|++|...|..+.+..-. +..+|..+.-
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHH
Confidence            5433 345667899999999999765321  1 122334555666777889999999999999875422 3334433333


Q ss_pred             -HHHhCCch-------hHHHHHHHHH
Q 020202          306 -GLKNCGKH-------DLAEKIELLE  323 (329)
Q Consensus       306 -~~~~~g~~-------~~a~~~~~~~  323 (329)
                       ++...|+.       ++|.++++..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHH
Confidence             34456777       6666665543

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PRK11906 transcriptional regulator; Provisional

Probab=96.45  E-value=0.45  Score=40.04  Aligned_cols=117  Identities=13%  Similarity=0.055  Sum_probs=65.4

Q ss_pred             chhHHHHHHHHhh---hcCCCccHHHHHHHHHHHHh---------cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           32 LVDNAVEVFNKCT---AFNCQQCVLLYNSLLFALCE---------VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        32 ~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      +.+.|..+|.+..   ..+ |.....|..+..++..         ..+..+|.++-+...+.+.. |......+..+..-
T Consensus       273 ~~~~Al~lf~ra~~~~~ld-p~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~  350 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQ-TLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV-DGKILAIMGLITGL  350 (458)
T ss_pred             HHHHHHHHHHHHhhcccCC-cccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHh
Confidence            3456777788877   333 3335555554444332         12334555555555555422 55555555555566


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .++++.+...|++....+ +....+|......+.-.|+.++|.+.+++..+.
T Consensus       351 ~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        351 SGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             hcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            666777777777766654 223344444555555567777777777665554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.45  E-value=0.28  Score=37.66  Aligned_cols=54  Identities=20%  Similarity=0.124  Sum_probs=26.8

Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCCh---hhHHHHHHHHhccCCHHHHHHHHHH
Q 020202          233 IIKGMFRRGQFDDAFCFFSEMKIKGHPPNR---PVYTMLITMCGRGGRFVEAANYLVE  287 (329)
Q Consensus       233 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~  287 (329)
                      +...|.+.|.+..|..-++++.+. .+-+.   ..+-.+..+|...|-.++|.+.-+-
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~v  229 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKV  229 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHH
Confidence            334455566666666666665554 21111   2333444555555555555554433

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.43  E-value=0.18  Score=42.95  Aligned_cols=23  Identities=22%  Similarity=0.450  Sum_probs=9.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHH
Q 020202          159 TFNSLIETICKSGEVEFCVEMYY  181 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~  181 (329)
                      .|..|.....+.|+++-|.+.|.
T Consensus       349 ~W~~Lg~~AL~~g~~~lAe~c~~  371 (443)
T PF04053_consen  349 KWKQLGDEALRQGNIELAEECYQ  371 (443)
T ss_dssp             HHHHHHHHHHHTTBHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHH
Confidence            44444444444444444444433

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.41  E-value=0.11  Score=42.44  Aligned_cols=95  Identities=20%  Similarity=0.099  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                      +++.+.-++.+.+++..|++.-...+..+ ++|.-..---..++...|+++.|...|+++.+..+. |..+-+.++.+-.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~~  336 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLKQ  336 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            44555566666666666666666666554 455555555566666666666666666666665322 3333333333333


Q ss_pred             ccCC-HHHHHHHHHHHHH
Q 020202          169 KSGE-VEFCVEMYYSVCK  185 (329)
Q Consensus       169 ~~~~-~~~a~~~~~~~~~  185 (329)
                      +..+ .+...++|..|..
T Consensus       337 k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  337 KIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence            3222 2333556666543

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

Probab=96.39  E-value=0.061  Score=42.13  Aligned_cols=80  Identities=20%  Similarity=0.233  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHh-----CCCCCCcccHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSD-----KGFNPPVRGRD  126 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  126 (329)
                      ..++..++..+...|+++.+...++++..... -+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            55677778888888888888888888877653 3777788888888888888888888777754     46777777666


Q ss_pred             HHHHHH
Q 020202          127 LLVQGL  132 (329)
Q Consensus       127 ~l~~~~  132 (329)
                      ......
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            666653

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

Probab=96.38  E-value=0.64  Score=41.11  Aligned_cols=204  Identities=15%  Similarity=0.052  Sum_probs=118.0

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH----------HHHHhcCchhHHHHHHHHHHhCCC
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV----------NAWCSSGKMREAQEFLQEMSDKGF  118 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----------~~~~~~~~~~~a~~~~~~~~~~~~  118 (329)
                      .|.+..|..+.......-.++-|...|-+...-   |.......|-          ...+--|.+++|+++|-++-+++ 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY---~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD-  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDY---AGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD-  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccc---cchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh-
Confidence            478899999988888888888888777554321   1221111111          11223477888888887775543 


Q ss_pred             CCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc-CCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHH
Q 020202          119 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ-GFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKI  197 (329)
Q Consensus       119 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  197 (329)
                              ..+..+.+.|++-.+.++++.--.. .-..-...|+.+...++....|+.|.+.|..-..         ...
T Consensus       765 --------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e~  827 (1189)
T KOG2041|consen  765 --------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------TEN  827 (1189)
T ss_pred             --------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------hHh
Confidence                    3466777788887766665431100 0000124677777777777777777777765322         123


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 020202          198 LIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGR  277 (329)
Q Consensus       198 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  277 (329)
                      .+.++.+..++++.+.+-+.+.+     +....-.+.+++.+.|.-++|.+.+-+.-   . |     ...+..|...++
T Consensus       828 ~~ecly~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~s---~-p-----kaAv~tCv~LnQ  893 (1189)
T KOG2041|consen  828 QIECLYRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRRS---L-P-----KAAVHTCVELNQ  893 (1189)
T ss_pred             HHHHHHHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhcc---C-c-----HHHHHHHHHHHH
Confidence            45555565566655555444332     44455566777777777777766654321   1 1     123455666666


Q ss_pred             HHHHHHHHHH
Q 020202          278 FVEAANYLVE  287 (329)
Q Consensus       278 ~~~a~~~~~~  287 (329)
                      |.+|.++-++
T Consensus       894 W~~avelaq~  903 (1189)
T KOG2041|consen  894 WGEAVELAQR  903 (1189)
T ss_pred             HHHHHHHHHh
Confidence            6666665544

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.36  E-value=0.21  Score=40.84  Aligned_cols=98  Identities=13%  Similarity=0.120  Sum_probs=74.0

Q ss_pred             cccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 020202          122 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA  201 (329)
Q Consensus       122 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  201 (329)
                      ..+++.+.-++.+.+++..|++..++....+.. |.-....-..++...|+++.|...|.++.+..+ .|..+-+.++.+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P-~Nka~~~el~~l  334 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVKALYRRGQALLALGEYDLARDDFQKALKLEP-SNKAARAELIKL  334 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHH
Confidence            346778889999999999999999999988644 777777778999999999999999999998543 334444445544


Q ss_pred             HHhcCCH-HHHHHHHHHHHhC
Q 020202          202 VSKAGMI-DEAFRLLHNLVED  221 (329)
Q Consensus       202 ~~~~~~~-~~a~~~~~~~~~~  221 (329)
                      -.+.... +...++|..|...
T Consensus       335 ~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhhc
Confidence            4444443 3457888888754

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.35  E-value=0.16  Score=40.47  Aligned_cols=152  Identities=14%  Similarity=0.060  Sum_probs=95.3

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh--HHH--HHHHHHHHhcCchh
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK--RTY--AILVNAWCSSGKMR  104 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~--~~l~~~~~~~~~~~  104 (329)
                      -.|++.+|-..++++.+.- |.|...++..=++|.-.|+.+.....+++.... -.||.  .+|  ..+.-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            3466666666777776643 777777777777888888888777777776643 12222  222  23334455778888


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc---CCccCHHhHHHHHHHHHccCCHHHHHHHHH
Q 020202          105 EAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ---GFVLDLETFNSLIETICKSGEVEFCVEMYY  181 (329)
Q Consensus       105 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  181 (329)
                      +|++.-++..+.+ +.|...-.+....+...|++.++.+...+-...   +--.-...|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            8888888777765 455666667777777788888888776654322   000011122223334556688888888887


Q ss_pred             HH
Q 020202          182 SV  183 (329)
Q Consensus       182 ~~  183 (329)
                      .-
T Consensus       272 ~e  273 (491)
T KOG2610|consen  272 RE  273 (491)
T ss_pred             HH
Confidence            63

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.33  E-value=0.32  Score=37.05  Aligned_cols=90  Identities=12%  Similarity=0.028  Sum_probs=44.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCh-hhHHHHHHHHHccCChhHHHHHHHHHHHc---CCCCChhhHH
Q 020202          195 YKILIPAVSKAGMIDEAFRLLHNLVED----GHKPFP-SLYAPIIKGMFRRGQFDDAFCFFSEMKIK---GHPPNRPVYT  266 (329)
Q Consensus       195 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~  266 (329)
                      +...-..+.+...+.+|-..+.+-...    .--++. ..|-..|-.+....++..|.++++.--+.   .-+-+..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            344445555666666555544432111    111111 22444444555566677777776664332   1233455666


Q ss_pred             HHHHHHhccCCHHHHHHHH
Q 020202          267 MLITMCGRGGRFVEAANYL  285 (329)
Q Consensus       267 ~l~~~~~~~~~~~~a~~~~  285 (329)
                      .|+.+| ..|+.+++.+++
T Consensus       233 nLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHh-ccCCHHHHHHHH
Confidence            666665 445666555544

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.29  E-value=0.18  Score=42.87  Aligned_cols=158  Identities=16%  Similarity=0.090  Sum_probs=98.2

Q ss_pred             HHHHccCchhHHHHHHHHhh-hcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           25 EEFGKHGLVDNAVEVFNKCT-AFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      +...-.++++++.++.+.-. -..+|  ....+.++..+-+.|..+.|+++..+         .   ..-.....+.|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D---------~---~~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTD---------P---DHRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCC---------h---HHHhHHHHhcCCH
Confidence            44556788888777765211 11222  44578888888889999999877533         2   1234455678888


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSV  183 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  183 (329)
                      +.|.++.++.      .+...|..|.....+.|+++-|.+.|.+..+         +..|+-.|.-.|+.+...++.+..
T Consensus       335 ~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  335 DIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             HHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHH
Confidence            8887665432      3566888888888888998888888887653         455666777788888877777777


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          184 CKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       184 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      ...|-      ++....++...|+.++..+++.+
T Consensus       400 ~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  400 EERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            66553      44455555666788777777754

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.27  E-value=0.14  Score=34.69  Aligned_cols=91  Identities=16%  Similarity=0.048  Sum_probs=51.1

Q ss_pred             HHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc---cHHHHHHHHHhcCC
Q 020202           61 ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR---GRDLLVQGLLNAGY  137 (329)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~  137 (329)
                      ++...|+.+.|++.|.+....- +-....||.-..++.-.|+.++|+.=+++..+..-+.+..   .|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            4455666666666666665542 2255566666666666666666666666655432122221   22233344556666


Q ss_pred             hHHHHHHHHHHHHcC
Q 020202          138 LESAKQMVNKMIKQG  152 (329)
Q Consensus       138 ~~~a~~~~~~~~~~~  152 (329)
                      .+.|..-|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            677776666666555

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.25  E-value=0.49  Score=38.33  Aligned_cols=45  Identities=18%  Similarity=0.228  Sum_probs=21.0

Q ss_pred             hcchHHHHHHHHHHHHHcC--CccChHHHHHHHHHHHhcCchhHHHH
Q 020202           64 EVKLFHGAYALIRRMIRKG--FVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      ...+.++|+..+.+-..+-  ...-..++..+..+.++.|.+++++.
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~   64 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLK   64 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHH
Confidence            4455556665555544320  11112344455555555555555443

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

Probab=96.21  E-value=0.066  Score=41.49  Aligned_cols=86  Identities=20%  Similarity=0.266  Sum_probs=42.5

Q ss_pred             CHHHHHHHHHHHHcc-----CchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc----------------hHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKH-----GLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK----------------LFHGAYAL   74 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----------------~~~~a~~~   74 (329)
                      |-.+|-..+..+...     +.++-.-..++.|.+.|+..|..+|+.|+..+-+-.                +-+=++++
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~v  145 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKV  145 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHH
Confidence            344454445444332     344444455555666666666666666665543211                11124455


Q ss_pred             HHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           75 IRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      +++|...|+.||..+-..+++++.+.+
T Consensus       146 LeqME~hGVmPdkE~e~~lvn~FGr~~  172 (406)
T KOG3941|consen  146 LEQMEWHGVMPDKEIEDILVNAFGRWN  172 (406)
T ss_pred             HHHHHHcCCCCchHHHHHHHHHhcccc
Confidence            555555555555555555555554444

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

Probab=96.18  E-value=0.62  Score=38.92  Aligned_cols=128  Identities=15%  Similarity=0.155  Sum_probs=62.5

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHHcC-CccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhH-HHHHHH
Q 020202          124 GRDLLVQGLLNAGYLESAKQMVNKMIKQG-FVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTY-KILIPA  201 (329)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~  201 (329)
                      +|...++...+..-.+.|..+|-++.+.+ ..+++.++++++..++. |+...|..+|+.-...-  ||...| ...+..
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~f--~d~~~y~~kyl~f  475 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLKF--PDSTLYKEKYLLF  475 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHhC--CCchHHHHHHHHH
Confidence            44455555555555566666666666555 34455555555554443 45555555555433321  232222 233344


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          202 VSKAGMIDEAFRLLHNLVEDGHKPF--PSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       202 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      +...++-..|..+|+..++. +..+  ...|..+|..-..-|+...+..+=+++..
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            44555556666666543322 0111  33455555555555555555544444443

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

Probab=96.16  E-value=0.86  Score=40.37  Aligned_cols=31  Identities=23%  Similarity=0.255  Sum_probs=25.0

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhh
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCT   44 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   44 (329)
                      .|.+..|..+.......-.++.|...|-+..
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~  719 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCG  719 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhc
Confidence            5888999999988888888888887776654

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.16  E-value=0.26  Score=38.17  Aligned_cols=97  Identities=20%  Similarity=0.246  Sum_probs=62.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC-C-CCChhhHHHHH
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVEDGH--KPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG-H-PPNRPVYTMLI  269 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~  269 (329)
                      .|+.-+..+ +.|++..|..-|...++..+  .-....+-.|..++...|++++|..+|..+.+.- - +--+..+--|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            466665544 45667888888877776522  1233445567777888888888888777776541 1 11234566666


Q ss_pred             HHHhccCCHHHHHHHHHHHHhC
Q 020202          270 TMCGRGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       270 ~~~~~~~~~~~a~~~~~~~~~~  291 (329)
                      .+..+.|+.++|..+|++..+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            6777778888888888777754

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.15  E-value=0.4  Score=36.52  Aligned_cols=115  Identities=7%  Similarity=0.013  Sum_probs=61.9

Q ss_pred             cCChHHHHHHHHHHHHc---CCc--cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCCc-hhhHHHHHHHHHh
Q 020202          135 AGYLESAKQMVNKMIKQ---GFV--LDLETFNSLIETICKSGEVEFCVEMYYSVCKL----GLCAD-VSTYKILIPAVSK  204 (329)
Q Consensus       135 ~~~~~~a~~~~~~~~~~---~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~  204 (329)
                      ..++++|++++.+...-   +-.  --...+...-+.+.+...+.+|-..+.+-...    .-.++ ...|...|-.+..
T Consensus       123 nv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~  202 (308)
T KOG1585|consen  123 NVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLY  202 (308)
T ss_pred             cCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhh
Confidence            34566677766654332   100  01223444555666667776665555443211    11122 2345566666777


Q ss_pred             cCCHHHHHHHHHHHHhCCC---CCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          205 AGMIDEAFRLLHNLVEDGH---KPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       205 ~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                      ..++..|...++.--+.+-   .-+..+...|+.+| ..|+.+++.+++
T Consensus       203 ~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  203 AHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            7788888888887543311   22455667777766 456666665543

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

Probab=96.14  E-value=0.059  Score=41.70  Aligned_cols=46  Identities=17%  Similarity=0.169  Sum_probs=32.6

Q ss_pred             hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH-HHHHHHHHHH
Q 020202          138 LESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV-EFCVEMYYSV  183 (329)
Q Consensus       138 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~  183 (329)
                      -+-+++++++|...|+.||..+-..+++++.+.+-. .+..++.--|
T Consensus       139 Q~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  139 QNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             hhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence            345778888888888888888888888888876653 3333333333

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.14  E-value=0.18  Score=38.95  Aligned_cols=97  Identities=16%  Similarity=0.184  Sum_probs=66.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCChhhHHHHH
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCA--DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH--KPFPSLYAPII  234 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~  234 (329)
                      .|+..+.. .+.|++..|...|....+..+..  ....+-.|..++...|+++.|..+|..+.+.-.  +--+..+--|.
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            46655554 45566888888888887764311  234566678888888888888888888776522  11235666677


Q ss_pred             HHHHccCChhHHHHHHHHHHHc
Q 020202          235 KGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       235 ~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      .+..+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            7778888888888888888776

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=96.12  E-value=0.53  Score=37.54  Aligned_cols=19  Identities=5%  Similarity=-0.174  Sum_probs=13.3

Q ss_pred             HhcchHHHHHHHHHHHHHc
Q 020202           63 CEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~   81 (329)
                      .+.|+++.|..++.+....
T Consensus         4 ~~~~~~~~A~~~~~K~~~~   22 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDL   22 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhH
Confidence            4567777887777776653

It is also involved in sporulation [].

>PRK11906 transcriptional regulator; Provisional

Probab=96.06  E-value=0.74  Score=38.78  Aligned_cols=163  Identities=11%  Similarity=0.047  Sum_probs=99.7

Q ss_pred             HhH--HHHHHHHHcc-----CCHHHHHHHHHHHHHc-CCCCc-hhhHHHHHHHHHh---------cCCHHHHHHHHHHHH
Q 020202          158 ETF--NSLIETICKS-----GEVEFCVEMYYSVCKL-GLCAD-VSTYKILIPAVSK---------AGMIDEAFRLLHNLV  219 (329)
Q Consensus       158 ~~~--~~l~~~~~~~-----~~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~  219 (329)
                      ..|  ..++.+....     ...+.|..+|.+.... ...|+ ...|..+..++..         .....+|.++-++..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            345  5555554431     2356777788887722 23343 3344444433322         233456677777777


Q ss_pred             hCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC--
Q 020202          220 EDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPN-RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI--  296 (329)
Q Consensus       220 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--  296 (329)
                      +.+.. |+.....+..+....++++.|...|++....  .|| ..+|......+.-.|+.++|.+.+++..+.  .|.  
T Consensus       332 eld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~  406 (458)
T PRK11906        332 DITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRR  406 (458)
T ss_pred             hcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--Cchhh
Confidence            76543 6777777777777888899999999988875  344 345555555666789999999988886653  343  


Q ss_pred             -hhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          297 -SRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       297 -~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                       .......++.|+.. ..++|.+++-...+.
T Consensus       407 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  436 (458)
T PRK11906        407 KAVVIKECVDMYVPN-PLKNNIKLYYKETES  436 (458)
T ss_pred             HHHHHHHHHHHHcCC-chhhhHHHHhhcccc
Confidence             33444445566554 477777776555443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.89  E-value=0.64  Score=36.57  Aligned_cols=51  Identities=22%  Similarity=0.297  Sum_probs=23.6

Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                      ...|++.+|...|+...... +-+...-..+..+|...|+.+.|..++..+.
T Consensus       145 ~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP  195 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALP  195 (304)
T ss_pred             hhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCc
Confidence            34445555555555444432 2223334444455555555555555555443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.87  E-value=0.36  Score=33.56  Aligned_cols=56  Identities=14%  Similarity=0.002  Sum_probs=27.8

Q ss_pred             HHccCCHHHHHHHHHHHHHcCCC--CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 020202          167 ICKSGEVEFCVEMYYSVCKLGLC--ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  222 (329)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  222 (329)
                      ..+.|++++|.+.|+.+...-+.  -....--.++.+|.+.+++++|...+++.++.+
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            34455555555555555543211  112334445555555555555555555555543

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

Probab=95.86  E-value=0.33  Score=33.06  Aligned_cols=135  Identities=13%  Similarity=0.110  Sum_probs=68.5

Q ss_pred             hcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCccc---HHHHHHHHHhcCChHH
Q 020202           64 EVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRG---RDLLVQGLLNAGYLES  140 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~  140 (329)
                      -.|..++..+++.+.....   +..-+|.+|--....-+-+-..+.++.+-+.   -|...   ...++.+|.+.|.   
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDis~C~NlKrVi~C~~~~n~---   84 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDISKCGNLKRVIECYAKRNK---   84 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-GGG-S-THHHHHHHHHTT----
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCchhhcchHHHHHHHHHhcc---
Confidence            3466666677776666542   4445566665555555555555555444321   22221   2233444443332   


Q ss_pred             HHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          141 AKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       141 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                                     +.......+......|+-++..+++..+.+. -.+++...-.+..+|.+.|+..++.+++.+.-+
T Consensus        85 ---------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   85 ---------------LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             -----------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             ---------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence                           2334445556666677777777777776543 236666667777777777777777777777766


Q ss_pred             CCC
Q 020202          221 DGH  223 (329)
Q Consensus       221 ~~~  223 (329)
                      .|.
T Consensus       149 kG~  151 (161)
T PF09205_consen  149 KGL  151 (161)
T ss_dssp             TT-
T ss_pred             hch
Confidence            664

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

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.85  E-value=0.28  Score=33.35  Aligned_cols=93  Identities=15%  Similarity=0.102  Sum_probs=63.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhh---HHHHHHHHhccCC
Q 020202          201 AVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPV---YTMLITMCGRGGR  277 (329)
Q Consensus       201 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~  277 (329)
                      +....|+.+.|++.|.+....- +-....||.-.+++.-.|+.++|++=+++..+..-.-+...   |..=...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            5567788888888888877653 23667788888888888888888888888776522222222   2222334556788


Q ss_pred             HHHHHHHHHHHHhCCCC
Q 020202          278 FVEAANYLVEMTEMGLT  294 (329)
Q Consensus       278 ~~~a~~~~~~~~~~~~~  294 (329)
                      -+.|..-|+..-+.|-+
T Consensus       131 dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGSK  147 (175)
T ss_pred             hHHHHHhHHHHHHhCCH
Confidence            88888888887777643

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

Probab=95.81  E-value=1  Score=38.29  Aligned_cols=79  Identities=15%  Similarity=0.107  Sum_probs=52.0

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHHcCCc-cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-CchhhHHHHHHH
Q 020202          124 GRDLLVQGLLNAGYLESAKQMVNKMIKQGFV-LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC-ADVSTYKILIPA  201 (329)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~  201 (329)
                      +-..+..++-+.|+.++|.+.+.++.+.... ....+...|++++...+.+.++..++.+..+...+ .-...|+..+-.
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            3344666677788888888888888765322 23456778888888888888888888886543331 223456655433


Q ss_pred             H
Q 020202          202 V  202 (329)
Q Consensus       202 ~  202 (329)
                      +
T Consensus       341 a  341 (539)
T PF04184_consen  341 A  341 (539)
T ss_pred             H
Confidence            3

The molecular function of this protein is uncertain.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.80  E-value=0.046  Score=29.34  Aligned_cols=26  Identities=12%  Similarity=0.208  Sum_probs=11.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          126 DLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       126 ~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ..+...|...|++++|.+++++..+.
T Consensus         5 ~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    5 LALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33444444444444444444444443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.74  E-value=0.43  Score=33.44  Aligned_cols=42  Identities=19%  Similarity=0.120  Sum_probs=19.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK  169 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  169 (329)
                      .++..+...+........++.+...+. .+....+.++..|++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            344444444445555555555444432 244444555555544

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

Probab=95.74  E-value=1  Score=37.75  Aligned_cols=138  Identities=13%  Similarity=0.198  Sum_probs=80.3

Q ss_pred             HHccCchhHHHHHHHHhhhcCCCccH------HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH--HH
Q 020202           27 FGKHGLVDNAVEVFNKCTAFNCQQCV------LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA--WC   98 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~   98 (329)
                      +-+.+++.+|..+|.++.+.. ..++      ..-+.++++|.. ++.+.....+..+.+.  .| ...|..+..+  +.
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHH
Confidence            456788888988888886542 2221      223455566654 3455555555555543  22 2234444443  34


Q ss_pred             hcCchhHHHHHHHHHHhC--CCCC------------CcccHHHHHHHHHhcCChHHHHHHHHHHHHcC----CccCHHhH
Q 020202           99 SSGKMREAQEFLQEMSDK--GFNP------------PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG----FVLDLETF  160 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~  160 (329)
                      +.+++.+|.+.+..-...  +..+            +...-+..++++...|++.++..+++++...=    ..-+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            677788888877766544  2111            11112345677778888888888887776542    23567777


Q ss_pred             HHHHHHHHc
Q 020202          161 NSLIETICK  169 (329)
Q Consensus       161 ~~l~~~~~~  169 (329)
                      +.++-.+++
T Consensus       171 d~~vlmlsr  179 (549)
T PF07079_consen  171 DRAVLMLSR  179 (549)
T ss_pred             HHHHHHHhH
Confidence            776655554

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

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.72  E-value=0.42  Score=33.24  Aligned_cols=54  Identities=17%  Similarity=0.116  Sum_probs=21.9

Q ss_pred             HccCchhHHHHHHHHhhhcCC--CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           28 GKHGLVDNAVEVFNKCTAFNC--QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      .+.|++++|.+.|+.+..+-.  +-...+.-.++.+|.+.+++++|...+++.++.
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            344444444444444443210  111223333444444444444444444444443

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

Probab=95.63  E-value=0.24  Score=36.33  Aligned_cols=63  Identities=10%  Similarity=0.119  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC--hHHHHHHHHHHHhcCchhHHHHHHHHHHh
Q 020202           53 LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD--KRTYAILVNAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      ..+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|+.....+++..+...+.+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4566777788888888888888888776543332  34556677777777787777777766644

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

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.53  E-value=0.49  Score=42.57  Aligned_cols=176  Identities=17%  Similarity=0.221  Sum_probs=94.3

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHH----HHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAI----LVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      ...-+..+.+...++-|+.+-+.   .+.  |..+...    ..+-+.+.|++++|...|-+-... +.|     ..++.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~---~~~--d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~  405 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKS---QHL--DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIK  405 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHh---cCC--CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHH
Confidence            33445566666666666665433   222  2333333    333445677788777766555432 122     23455


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDE  210 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  210 (329)
                      -|....+...-..+++.+.+.|.. +...-..|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.++
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            556666666666777777777766 55666777788888777777666655443 2211  1113344555555555555


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHH
Q 020202          211 AFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEM  253 (329)
Q Consensus       211 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  253 (329)
                      |..+-.....     +......+   +-..+++++|.+.+..+
T Consensus       482 a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  482 AELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            5544433221     22222222   33455666666655443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.46  E-value=1.1  Score=36.08  Aligned_cols=135  Identities=12%  Similarity=0.113  Sum_probs=80.2

Q ss_pred             hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc--cC----CHHHHHHHHHHHHHcCC---CCchhhHHHHHHHHHhcCC-
Q 020202          138 LESAKQMVNKMIKQGFVLDLETFNSLIETICK--SG----EVEFCVEMYYSVCKLGL---CADVSTYKILIPAVSKAGM-  207 (329)
Q Consensus       138 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~-  207 (329)
                      +++...+++.+.+.|+.-+..+|-+.......  ..    ....+..+|+.|.+..+   .++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            34455677788888888777666554333333  22    25678888888887653   2344555555443  3333 


Q ss_pred             ---HHHHHHHHHHHHhCCCCCChh--hHHHHHHHHHccCC--hhHHHHHHHHHHHcCCCCChhhHHHHHHHHhc
Q 020202          208 ---IDEAFRLLHNLVEDGHKPFPS--LYAPIIKGMFRRGQ--FDDAFCFFSEMKIKGHPPNRPVYTMLITMCGR  274 (329)
Q Consensus       208 ---~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  274 (329)
                         .+.++.+|+.+.+.|+..+..  ....++........  ..++..+++.+.+.|+++....|..+.-...-
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall  229 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALL  229 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhc
Confidence               345677778887777654433  33333332222222  34677888888888888887777766544433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.38  E-value=0.93  Score=34.95  Aligned_cols=72  Identities=11%  Similarity=0.075  Sum_probs=38.2

Q ss_pred             HHhcchHHHHHHHHHHHHHcC--CccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 020202           62 LCEVKLFHGAYALIRRMIRKG--FVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLL  133 (329)
Q Consensus        62 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (329)
                      -.+.|++++|.+.|+.+....  -+-...+...++.++.+.++++.|....++....-.......|...|.+++
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            345666677777776666542  111234455555666666677777766666655431122233444444443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.37  E-value=1  Score=36.55  Aligned_cols=228  Identities=13%  Similarity=0.100  Sum_probs=141.6

Q ss_pred             HHccCchhHHHHHHHHhhhcC--CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--CCc---cChHHHHHHHHHHHh
Q 020202           27 FGKHGLVDNAVEVFNKCTAFN--CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK--GFV---PDKRTYAILVNAWCS   99 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~---~~~~~~~~l~~~~~~   99 (329)
                      +....+.++|+..|.....+-  ...-..++..+..+.++.|.+++++..--.-.+.  ...   .--..|..+.+++-+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            446778889998888776431  1122456778888999999988876543221111  011   112345566666666


Q ss_pred             cCchhHHHHHHHHHHhC-CCCC---CcccHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CccCHHhHHHHHHHHHcc
Q 020202          100 SGKMREAQEFLQEMSDK-GFNP---PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG-----FVLDLETFNSLIETICKS  170 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~  170 (329)
                      .-++.+++++-..-... |..|   ......++..++...+.++++++.|+...+-.     ......++..+-+.|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            66677777665554432 2122   11233456677778888999999998776531     112335788899999999


Q ss_pred             CCHHHHHHHHHHHHHc----CCCCch-h-----hHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC-ChhhHHHHHH
Q 020202          171 GEVEFCVEMYYSVCKL----GLCADV-S-----TYKILIPAVSKAGMIDEAFRLLHNLVE----DGHKP-FPSLYAPIIK  235 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~----~~~~~~-~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~  235 (329)
                      .++++|.-...+..+.    ++ .|. .     ..-.|.-++...|....|.+.-++..+    .|-.+ .......+.+
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l-~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aD  254 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGL-KDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFAD  254 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCc-CchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            9999998777665432    22 221 1     222344566778888888888777543    34222 2234456777


Q ss_pred             HHHccCChhHHHHHHHHHHH
Q 020202          236 GMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       236 ~~~~~~~~~~a~~~~~~~~~  255 (329)
                      .|...|+.+.|+.-|+....
T Consensus       255 IyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  255 IYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHhcccHhHHHHHHHHHHH
Confidence            88889999998887777664

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.37  E-value=0.88  Score=34.59  Aligned_cols=224  Identities=17%  Similarity=0.108  Sum_probs=142.8

Q ss_pred             cchHHHHHHHHHHHHHcCCcc-ChHHHHHHHHHHHhcCchhHHHHHHHHHHhC-CCCCCcccHHHHHHHHHhcCChHHHH
Q 020202           65 VKLFHGAYALIRRMIRKGFVP-DKRTYAILVNAWCSSGKMREAQEFLQEMSDK-GFNPPVRGRDLLVQGLLNAGYLESAK  142 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  142 (329)
                      .+....+...+.......... ....+......+...+++..+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            455666666666666543221 2456777777888888888888888777652 22344556666777777788888888


Q ss_pred             HHHHHHHHcCCccCHHhHHHHHH-HHHccCCHHHHHHHHHHHHHcCC--CCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 020202          143 QMVNKMIKQGFVLDLETFNSLIE-TICKSGEVEFCVEMYYSVCKLGL--CADVSTYKILIPAVSKAGMIDEAFRLLHNLV  219 (329)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  219 (329)
                      ..+.........+ ......... .+...|+++.+...+........  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8888887754332 222222333 67788888888888888755222  1233344444444666778888888888877


Q ss_pred             hCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 020202          220 EDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPN-RPVYTMLITMCGRGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       220 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  291 (329)
                      ..........+..+...+...++++.+...+......  .|+ ...+..+...+...+..+.+...+......
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6532213556677777777788888888888877765  222 334444444444666677777777776654

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

Probab=95.28  E-value=0.35  Score=38.02  Aligned_cols=60  Identities=22%  Similarity=0.267  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLV  219 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  219 (329)
                      ++..++..+...|+.+.+...++++....+ -+...|..++.+|.+.|+...|+..|+.+.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            334444445555555555555555554433 344455555555555555555555555443

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

Probab=95.26  E-value=0.71  Score=33.89  Aligned_cols=96  Identities=9%  Similarity=0.072  Sum_probs=65.8

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc--HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC-hHHHH--H
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC--VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD-KRTYA--I   92 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~--~   92 (329)
                      ..+..+...|.+.|+.+.|.+.|.++......+.  ...+-.+|+.....+++..+...+.+....-..+. ...-+  .
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            5688999999999999999999999987653333  45677888999999999999988887765422211 11111  1


Q ss_pred             HHH--HHHhcCchhHHHHHHHHH
Q 020202           93 LVN--AWCSSGKMREAQEFLQEM  113 (329)
Q Consensus        93 l~~--~~~~~~~~~~a~~~~~~~  113 (329)
                      ...  .+...+++..|-+.|-..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            111  223456777776666554

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

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.20  E-value=0.94  Score=33.98  Aligned_cols=28  Identities=21%  Similarity=0.234  Sum_probs=15.5

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          229 LYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       229 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      ||--+.+.+...|+.++|..+|+-....
T Consensus       239 tyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         239 TYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            4455555555555555555555555544

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

Probab=95.14  E-value=0.042  Score=27.97  Aligned_cols=25  Identities=8%  Similarity=-0.017  Sum_probs=13.8

Q ss_pred             HHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          300 FDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       300 ~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      |..|...|.+.|++++|.++++...
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455566666666666666655533

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.09  E-value=0.85  Score=32.86  Aligned_cols=28  Identities=14%  Similarity=0.386  Sum_probs=13.4

Q ss_pred             HHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           76 RRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        76 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      +.+.+.+++|+...+..+++.+.+.|.+
T Consensus        18 rSl~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   18 RSLNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            3333444455555555555555555543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.08  E-value=1.1  Score=34.04  Aligned_cols=225  Identities=18%  Similarity=0.116  Sum_probs=146.3

Q ss_pred             cCchhHHHHHHHHhhhcCCC-ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-CCccChHHHHHHHHHHHhcCchhHHH
Q 020202           30 HGLVDNAVEVFNKCTAFNCQ-QCVLLYNSLLFALCEVKLFHGAYALIRRMIRK-GFVPDKRTYAILVNAWCSSGKMREAQ  107 (329)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  107 (329)
                      .+....+...+......... .....+......+...+.+..+...+...... ........+..........+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            35556666666666554411 13567777777888888888888888777652 23335556667777777778888888


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHH-HHHhcCChHHHHHHHHHHHHcCC--ccCHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 020202          108 EFLQEMSDKGFNPPVRGRDLLVQ-GLLNAGYLESAKQMVNKMIKQGF--VLDLETFNSLIETICKSGEVEFCVEMYYSVC  184 (329)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  184 (329)
                      ..+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8888887654222 222333333 67888888888888888755321  1233344444444667788888888888887


Q ss_pred             HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          185 KLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       185 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      ..........+..+...+...++++.+...+......... ....+..+...+...+..+.+...+......
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7543214567777778888888888888888887765322 2334444444455666788888888777765

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

Probab=95.07  E-value=1.9  Score=36.75  Aligned_cols=60  Identities=12%  Similarity=0.121  Sum_probs=36.4

Q ss_pred             HHHHHHHHccCChhHHHHHHHHHHHcC-CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          231 APIIKGMFRRGQFDDAFCFFSEMKIKG-HPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       231 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      ..+..++.+.|+.++|.+.++++.+.. ...+......|+.++...+++.++..++.+-.+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            445555666677777777777766431 111334555666777777777777777766543

The molecular function of this protein is uncertain.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.99  E-value=0.038  Score=27.70  Aligned_cols=31  Identities=19%  Similarity=0.160  Sum_probs=18.9

Q ss_pred             HHhhhcCCCccHHHHHHHHHHHHhcchHHHHH
Q 020202           41 NKCTAFNCQQCVLLYNSLLFALCEVKLFHGAY   72 (329)
Q Consensus        41 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   72 (329)
                      ++.++.+ |-+..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444444 556666666666666666666664

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.94  E-value=0.95  Score=32.62  Aligned_cols=123  Identities=12%  Similarity=0.118  Sum_probs=52.6

Q ss_pred             hcchHHHHHHHHHHHHHcCCccCh-HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc-cHHHH--HHHHHhcCChH
Q 020202           64 EVKLFHGAYALIRRMIRKGFVPDK-RTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR-GRDLL--VQGLLNAGYLE  139 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l--~~~~~~~~~~~  139 (329)
                      +.+..++|+.-|..+.+.|...=+ -..-.........|+-..|...|+++-.....|... -..-|  .-.+...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            344455555555555554422100 011112223444555555555555554432222111 01111  11233445555


Q ss_pred             HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 020202          140 SAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKL  186 (329)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  186 (329)
                      ......+.+...+-+.-...-..|.-+-.+.|++.+|.+.|..+...
T Consensus       150 dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         150 DVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            55555555444333323333344444555556666666666555443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.92  E-value=1.8  Score=35.78  Aligned_cols=54  Identities=17%  Similarity=0.077  Sum_probs=34.4

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      ...+..+.|+|+...+.........  ++...+.++...  +.++++++...++....
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~~--~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNEDS--PEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCCC--hhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            3566778888888656555554322  345555555444  77888888777776654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.76  E-value=1.1  Score=32.37  Aligned_cols=132  Identities=14%  Similarity=0.141  Sum_probs=61.5

Q ss_pred             HHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC
Q 020202           39 VFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF  118 (329)
Q Consensus        39 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  118 (329)
                      .+..+.+.+++|+...+..+++.+.+.|++....    .+...++-+|.......+-.+..  ....+.++--+|..+= 
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkRL-   88 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKRL-   88 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHHh-
Confidence            3344445566666666666777766666654433    33334444454444333322221  2233333333332210 


Q ss_pred             CCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 020202          119 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVC  184 (329)
Q Consensus       119 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  184 (329)
                         ...+..+++.+...|++-+|+++.+.....    +......++++..+.+|...-..+++-..
T Consensus        89 ---~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   89 ---GTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             ---hhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence               013445556666666666666666554222    11222344555555555444444444443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.66  E-value=4.1  Score=38.66  Aligned_cols=108  Identities=15%  Similarity=0.153  Sum_probs=55.5

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 020202          161 NSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR  240 (329)
Q Consensus       161 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  240 (329)
                      .+....+.....+++|.-.|+..-+         ..-.+.+|..+|+|.+|..+-.++....-. -..+-..|+.-+...
T Consensus       943 ~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~~de-~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  943 EAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEGKDE-LVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCCHHH-HHHHHHHHHHHHHHc
Confidence            3334444445666666665554422         123456666777777777776655432100 111224456666667


Q ss_pred             CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHH
Q 020202          241 GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLV  286 (329)
Q Consensus       241 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  286 (329)
                      +++-+|-++..+....   |     .-.+..+++...|++|.++..
T Consensus      1013 ~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEALRVAS 1050 (1265)
T ss_pred             ccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHHHH
Confidence            7777777766665543   1     122333344445556555543

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

Probab=94.39  E-value=1.3  Score=31.61  Aligned_cols=53  Identities=13%  Similarity=0.036  Sum_probs=26.5

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      .+.++.+++..+++.+.-.. |.....-..-...+...|++.+|..+|+++...
T Consensus        21 l~~~~~~D~e~lL~ALrvLR-P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLR-PEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            34556666666666555432 222222222334445556666666666665443

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

Probab=94.34  E-value=1.1  Score=33.28  Aligned_cols=74  Identities=9%  Similarity=-0.090  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---CCCCcccHHHHHHHHHhcCChHHHH
Q 020202           68 FHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKG---FNPPVRGRDLLVQGLLNAGYLESAK  142 (329)
Q Consensus        68 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~  142 (329)
                      -+.|.+.|-.+...+.--++.....|...| ...+.+++.+++-...+..   -.+|+..+.+|+..+.+.|+++.|.
T Consensus       122 d~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  122 DQEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             cHHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            356777777777666544555555555444 4677788888877775432   2567788888888888888887764

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

Probab=94.34  E-value=0.13  Score=26.05  Aligned_cols=23  Identities=13%  Similarity=0.010  Sum_probs=11.6

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRR   77 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~   77 (329)
                      |+.|...|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44455555555555555555555

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.25  E-value=5.2  Score=38.07  Aligned_cols=115  Identities=16%  Similarity=0.147  Sum_probs=68.4

Q ss_pred             CchhhHHH----HHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChh--
Q 020202          190 ADVSTYKI----LIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRP--  263 (329)
Q Consensus       190 ~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--  263 (329)
                      |+...+..    ....+.....+++|.-.|+..-+         ..--+.+|..+|+|.+|..+..++...   -+..  
T Consensus       933 ~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~ 1000 (1265)
T KOG1920|consen  933 PDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELVI 1000 (1265)
T ss_pred             cCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHH
Confidence            45444443    34444556677777766655322         122466777888888888877766432   1221  


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      +-..|+.-+...++.-+|-++..+....   |     ...+..|++...|++|.++.....
T Consensus      1001 ~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1001 LAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHHHHHHhcc
Confidence            2255777778888888888888776532   1     223344556666777776655544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.24  E-value=0.28  Score=31.22  Aligned_cols=64  Identities=14%  Similarity=0.040  Sum_probs=44.9

Q ss_pred             chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           32 LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      +.=++.+-++.+...++.|++.+..+.+++|-+.+++..|.++|+-.+.+. ..+...|..+++-
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lqe   85 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQE   85 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHHH
Confidence            445677777777777888888888888888888888888888888776431 1134456655543

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.20  E-value=0.91  Score=36.06  Aligned_cols=102  Identities=14%  Similarity=0.175  Sum_probs=62.0

Q ss_pred             CccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC---CCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh
Q 020202          153 FVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLG---LCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSL  229 (329)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  229 (329)
                      ......+...++..-....+++.+...+-++....   ..|+...+ ..++.+. .-++++++.++..=+.-|+-||..+
T Consensus        60 ~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   60 LPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHH-ccChHHHHHHHhCcchhccccchhh
Confidence            33344555555555555667777777777665431   11222111 2222222 2356677777777667777788888


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          230 YAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       230 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      ++.+++.+.+.+++..|..+...|...
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            888888888888887777777666654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.05  E-value=4.6  Score=36.82  Aligned_cols=176  Identities=12%  Similarity=0.094  Sum_probs=115.4

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHH----HHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHH
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDL----LVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIE  165 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  165 (329)
                      ...-+..+.+...++-|+.+-+.-   +  .+..+...    ....+.+.|++++|...+-+.+.. +.|     ..++.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~---~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~  405 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQ---H--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIK  405 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhc---C--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHH
Confidence            345566666777777776655432   2  22333333    345567889999999988776643 222     23455


Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhH
Q 020202          166 TICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDD  245 (329)
Q Consensus       166 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  245 (329)
                      -|....+...-...++.+.+.|. .+...-+.|+.+|.+.++.++..++.+... .|..  ..-....+..+.+.+-.++
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            55667777888888999999988 566667889999999999999888876654 3322  1224456677777777788


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 020202          246 AFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEM  288 (329)
Q Consensus       246 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  288 (329)
                      |..+-.+...     +......++   -..+++++|+++++.+
T Consensus       482 a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  482 AELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            8776655442     333334443   3567888888887654

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

Probab=93.90  E-value=4.7  Score=36.29  Aligned_cols=87  Identities=14%  Similarity=0.093  Sum_probs=66.2

Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 020202          226 FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTD  305 (329)
Q Consensus       226 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  305 (329)
                      ..-+.+--+.-+...|+..+|.++-.+.+    -||...|..-+.+++..++|++-+++-+.+.      .+.-|.-...
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe  752 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVE  752 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHH
Confidence            34455556666777888888888877665    4789999999999999999998777665543      1346677888


Q ss_pred             HHHhCCchhHHHHHHHH
Q 020202          306 GLKNCGKHDLAEKIELL  322 (329)
Q Consensus       306 ~~~~~g~~~~a~~~~~~  322 (329)
                      +|.+.|+.++|.++.-+
T Consensus       753 ~c~~~~n~~EA~KYipr  769 (829)
T KOG2280|consen  753 ACLKQGNKDEAKKYIPR  769 (829)
T ss_pred             HHHhcccHHHHhhhhhc
Confidence            99999999999887644

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.81  E-value=0.79  Score=29.27  Aligned_cols=44  Identities=23%  Similarity=0.242  Sum_probs=20.9

Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          211 AFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       211 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      +.+-+..+...+..|++....+.+++|.+.+++..|.++|+..+
T Consensus        26 ~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          26 LRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33333444444444555555555555555555555555554444

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

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

Probab=93.78  E-value=0.19  Score=24.89  Aligned_cols=29  Identities=10%  Similarity=0.039  Sum_probs=14.6

Q ss_pred             hHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          299 CFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       299 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      +|..+..++...|++++|.+.++...+++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            34445555555555555555555555444

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

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.73  E-value=0.72  Score=29.79  Aligned_cols=44  Identities=23%  Similarity=0.224  Sum_probs=19.5

Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          212 FRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      .+-+..+......|++.+....+.+|.+.+++..|.++|+.++.
T Consensus        30 rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   30 RRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            33334444444455555555555555555555555555555443

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.72  E-value=3.4  Score=34.16  Aligned_cols=192  Identities=13%  Similarity=0.132  Sum_probs=99.0

Q ss_pred             HHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC---C-CCCcccHHHHHHHHHh
Q 020202           59 LFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKG---F-NPPVRGRDLLVQGLLN  134 (329)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~l~~~~~~  134 (329)
                      +.+.-+.|+++...+........  .++...+..+...  ..++++++....+.....-   + ......|......+.+
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~   80 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVK   80 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            45667788888855555443322  2344445544433  7888888888877765431   0 1112233333333333


Q ss_pred             cCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc-----cCCHHHHHHHH---HHHHH--cCCCCchhhHHHHHHHHHh
Q 020202          135 AGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK-----SGEVEFCVEMY---YSVCK--LGLCADVSTYKILIPAVSK  204 (329)
Q Consensus       135 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~---~~~~~--~~~~~~~~~~~~l~~~~~~  204 (329)
                      ...+.+..++.+-......  +......++.....     .++++.-..++   ..+..  ........++..+...+.+
T Consensus        81 lq~L~Elee~~~~~~~~~~--~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aRk  158 (352)
T PF02259_consen   81 LQQLVELEEIIELKSNLSQ--NPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLARK  158 (352)
T ss_pred             HhHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHH
Confidence            3333333333222211100  01111111111111     11111111111   11111  1123445678888899999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          205 AGMIDEAFRLLHNLVEDGHKP---FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       205 ~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      .|.++.|...+..+...+...   .+.....-++.....|+..+|...++.....
T Consensus       159 ~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  159 AGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             CCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999887653221   3444555667778889999999988888773

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.58  E-value=0.22  Score=24.60  Aligned_cols=29  Identities=10%  Similarity=0.033  Sum_probs=15.3

Q ss_pred             hHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          299 CFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       299 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      .+..+..++.+.|++++|++.++...+++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            34445555555566666655555555544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.58  E-value=2  Score=31.05  Aligned_cols=51  Identities=10%  Similarity=0.105  Sum_probs=20.8

Q ss_pred             cCChHHHHHHHHHHHHcCCccCHH-hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 020202          135 AGYLESAKQMVNKMIKQGFVLDLE-TFNSLIETICKSGEVEFCVEMYYSVCK  185 (329)
Q Consensus       135 ~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~  185 (329)
                      .+..++|+.-|..+.+.|...-+. ............|+...|...|+++-.
T Consensus        71 ~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~  122 (221)
T COG4649          71 ENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAA  122 (221)
T ss_pred             cCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhc
Confidence            344455555555555443321110 111112223344555555555555444

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

Probab=93.26  E-value=1.2  Score=33.00  Aligned_cols=71  Identities=8%  Similarity=0.032  Sum_probs=28.4

Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCChhhHHHHHHHHHccCChhHH
Q 020202          175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED---GHKPFPSLYAPIIKGMFRRGQFDDA  246 (329)
Q Consensus       175 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  246 (329)
                      .|.+.|-.+...+.--++.....+...|. ..+.+++..++.+..+.   +-.+|+..+..|+..+.+.|+++.|
T Consensus       124 ~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            34444444433333233333333333332 33444444444443322   1233444444444444444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.24  E-value=2.7  Score=33.55  Aligned_cols=137  Identities=15%  Similarity=0.232  Sum_probs=93.3

Q ss_pred             CCccChHHHHHHHHHHHhcCchhHHHHHHHHHH----------hCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           82 GFVPDKRTYAILVNAWCSSGKMREAQEFLQEMS----------DKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .++|...-| .|.++|.....|+.-....-.+-          ..|.+.+..+...++..-....+++.+...+-++...
T Consensus        15 ~l~p~~rr~-~LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs   93 (418)
T KOG4570|consen   15 QLSPAGRRY-LLSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHS   93 (418)
T ss_pred             cCCchhcch-hhHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcC
Confidence            344543332 36677777777776555543332          2344555566666666666778899999888877654


Q ss_pred             C---CccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          152 G---FVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       152 ~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      .   ..|+. +-.+.++.+ -.-++++++.++..-++-|+-||..+++.+|..+.+.+++.+|..+.-.|...
T Consensus        94 ~~a~~~~~~-~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen   94 PNAWYLRNW-TIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             cchhhhccc-cHHHHHHHH-HccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            1   11221 222333333 34567799999988889999999999999999999999999999998887755

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=93.18  E-value=0.96  Score=33.95  Aligned_cols=77  Identities=16%  Similarity=0.070  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC--CccChHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG--FVPDKRTYAILVNA   96 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~   96 (329)
                      +.+..++.+.+.+++++|+...+.-++.. |.|...-..+++.++-.|++++|..-++-.-...  ..+-..+|..++++
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            34556777888888899888888877766 7777888888899999999999887776655432  23344566666654

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

Probab=92.95  E-value=5.1  Score=33.89  Aligned_cols=45  Identities=9%  Similarity=0.093  Sum_probs=35.0

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCC----CccHHHHHHHHHHHHh
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNC----QQCVLLYNSLLFALCE   64 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~   64 (329)
                      =+..+.++...|++.++..+++++...-.    .-+..+|+.++-.+.+
T Consensus       131 ~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsr  179 (549)
T PF07079_consen  131 DEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSR  179 (549)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhH
Confidence            36677888999999999999988865433    4789999987666654

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

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.85  E-value=0.066  Score=37.71  Aligned_cols=85  Identities=16%  Similarity=0.320  Sum_probs=56.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 020202          198 LIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGR  277 (329)
Q Consensus       198 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  277 (329)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++.       .+..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcch
Confidence            5566666777777778888877665555677778888888888777777776651       122333456677777777


Q ss_pred             HHHHHHHHHHHH
Q 020202          278 FVEAANYLVEMT  289 (329)
Q Consensus       278 ~~~a~~~~~~~~  289 (329)
                      ++++.-++.++.
T Consensus        86 ~~~a~~Ly~~~~   97 (143)
T PF00637_consen   86 YEEAVYLYSKLG   97 (143)
T ss_dssp             HHHHHHHHHCCT
T ss_pred             HHHHHHHHHHcc
Confidence            777777776654

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.79  E-value=4.3  Score=32.69  Aligned_cols=132  Identities=14%  Similarity=0.149  Sum_probs=82.6

Q ss_pred             hhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh--cC----ChHHHHHHHHHHHHcCCc---cCHHhHHHHHHHHHccCC-
Q 020202          103 MREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN--AG----YLESAKQMVNKMIKQGFV---LDLETFNSLIETICKSGE-  172 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~-  172 (329)
                      +++...+++.+.+.|+..+..+|-+..-....  ..    ...+|..+++.|++..+-   ++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45567788899999988777666553333332  22    356788999999987432   334455555443  3333 


Q ss_pred             ---HHHHHHHHHHHHHcCCCCch--hhHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          173 ---VEFCVEMYYSVCKLGLCADV--STYKILIPAVSKAGM--IDEAFRLLHNLVEDGHKPFPSLYAPIIKG  236 (329)
Q Consensus       173 ---~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  236 (329)
                         .+.+..+|+.+.+.|...+.  ...+.++..+.....  ..++..+++.+.+.|+++....|..+.-.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence               35667788888887775543  333344433332222  44788899999999998887777655443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.78  E-value=2  Score=31.92  Aligned_cols=90  Identities=13%  Similarity=0.085  Sum_probs=59.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCC-----hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 020202          201 AVSKAGMIDEAFRLLHNLVEDGHKPF-----PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRG  275 (329)
Q Consensus       201 ~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (329)
                      -+.+.|++++|..-|...++. +++.     ...|..-..++.+.+.++.|+.-..+..+.+.. .......-..+|.+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhh
Confidence            466788999998888888775 2222     223445556677888888888777777765311 122222223467777


Q ss_pred             CCHHHHHHHHHHHHhCC
Q 020202          276 GRFVEAANYLVEMTEMG  292 (329)
Q Consensus       276 ~~~~~a~~~~~~~~~~~  292 (329)
                      ..+++|+.-|+.+.+..
T Consensus       182 ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESD  198 (271)
T ss_pred             hhHHHHHHHHHHHHHhC
Confidence            88888888888887654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.55  E-value=0.19  Score=25.12  Aligned_cols=20  Identities=25%  Similarity=0.381  Sum_probs=8.2

Q ss_pred             HHhHHHHHHHHHccCCHHHH
Q 020202          157 LETFNSLIETICKSGEVEFC  176 (329)
Q Consensus       157 ~~~~~~l~~~~~~~~~~~~a  176 (329)
                      ...|+.+...|...|++++|
T Consensus        13 ~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   13 AEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             HHHHHHHHHHHHHCcCHHhh
Confidence            33444444444444444433

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.50  E-value=4.4  Score=32.07  Aligned_cols=118  Identities=13%  Similarity=0.088  Sum_probs=69.6

Q ss_pred             cchHHHHHHHHHHHHH-cCCccChHHHHHHHHHHHh-cCc-hhHHHHHHHHHHhC-CCCCCcccHHHHHHHHHhcCChHH
Q 020202           65 VKLFHGAYALIRRMIR-KGFVPDKRTYAILVNAWCS-SGK-MREAQEFLQEMSDK-GFNPPVRGRDLLVQGLLNAGYLES  140 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~~-~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~  140 (329)
                      +....+|+.+|+..-. ..+--|..+...+++.... .+. ...-.++.+-+... +-.++..+...+++.++..+++.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            3345566666663221 2344466777777776665 221 22222333333222 235666677777777777777777


Q ss_pred             HHHHHHHHHHc-CCccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          141 AKQMVNKMIKQ-GFVLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       141 a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      -.++++..... +...|...|..+++.....|+..-...+.++
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            77777766654 5555777777777777777777655555443

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=92.38  E-value=0.4  Score=23.67  Aligned_cols=29  Identities=10%  Similarity=-0.006  Sum_probs=17.2

Q ss_pred             hHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          299 CFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       299 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      +|..+...|...|++++|.+.++...+++
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            44555556666666666666666655544

...

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=92.27  E-value=8.5  Score=34.81  Aligned_cols=159  Identities=13%  Similarity=0.134  Sum_probs=61.9

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCChhhHHHHHHHHHc---
Q 020202          164 IETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG-HKPFPSLYAPIIKGMFR---  239 (329)
Q Consensus       164 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~---  239 (329)
                      ...+.-.|+++.|.+.+..  ..+...+.+.+...+..|.-.+-.+...   ..+.... -.|.+..+..||..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            4455567888888888766  2223345555544444332222111111   2222111 11122456777777765   


Q ss_pred             cCChhHHHHHHHHHHHcCCCCChhhHHHHHH-HHhccCCHHHHH-----------HHHHHHHh-CCCCCC----hhhHHH
Q 020202          240 RGQFDDAFCFFSEMKIKGHPPNRPVYTMLIT-MCGRGGRFVEAA-----------NYLVEMTE-MGLTPI----SRCFDL  302 (329)
Q Consensus       240 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~-----------~~~~~~~~-~~~~p~----~~~~~~  302 (329)
                      ..+..+|.+.+--+....-+.....+...+. .....++++.-+           .++++-.+ .++..+    ......
T Consensus       340 ~td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r~~G~i~~~~~Li~~~~~~~~~~~i~~~  419 (613)
T PF04097_consen  340 ITDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDLLLGDINPDGSRTPGLIERRLSLIKFDDDEDFLREIIEQ  419 (613)
T ss_dssp             TT-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-EEE-HHHHTGGGGT-SSSSHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHHHCCCCCCCCccccceeeccccccCCCCcHHHHHHHHHH
Confidence            3456677776666554322111222222222 112222222111           11211000 012211    123333


Q ss_pred             HHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          303 VTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       303 l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ...-+...|++++|..++.+..+.+
T Consensus       420 ~A~~~e~~g~~~dAi~Ly~La~~~d  444 (613)
T PF04097_consen  420 AAREAEERGRFEDAILLYHLAEEYD  444 (613)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHTT-HH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhhHH
Confidence            4455667888888888888876654

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.19  E-value=0.51  Score=23.19  Aligned_cols=26  Identities=12%  Similarity=0.157  Sum_probs=11.9

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      |..+...+...|++++|.+.|++..+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444444445555555555544443

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.12  E-value=2  Score=32.35  Aligned_cols=56  Identities=20%  Similarity=0.210  Sum_probs=28.9

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                      -++.+.+.++..+++...+.-.+.. +.+..+-..+++.++-.|++++|..-++-.-
T Consensus         7 t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a   62 (273)
T COG4455           7 TISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAA   62 (273)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHh
Confidence            3444445555555555555544443 3344445555555555666655555554443

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

Probab=92.10  E-value=0.37  Score=25.08  Aligned_cols=27  Identities=7%  Similarity=0.138  Sum_probs=12.7

Q ss_pred             hHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          299 CFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       299 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      +++.|...|...|++++|.++++....
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            444445555555555555555444433

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.99  E-value=3.9  Score=30.27  Aligned_cols=90  Identities=10%  Similarity=0.080  Sum_probs=56.9

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHH-----HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHH
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRD-----LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETI  167 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  167 (329)
                      +...+...+++++|..-++......   ....+.     .|.+.....|.+++|+.+++...+.+..  ......-...+
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t---~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDil  169 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQT---KDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDIL  169 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccc---hhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHH
Confidence            3456677788888887777766432   222222     3445667778888888888777655332  22233444567


Q ss_pred             HccCCHHHHHHHHHHHHHcC
Q 020202          168 CKSGEVEFCVEMYYSVCKLG  187 (329)
Q Consensus       168 ~~~~~~~~a~~~~~~~~~~~  187 (329)
                      ...|+.++|..-|......+
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         170 LAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHcCchHHHHHHHHHHHHcc
Confidence            77788888888888777765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.97  E-value=2.3  Score=27.59  Aligned_cols=47  Identities=15%  Similarity=0.067  Sum_probs=27.6

Q ss_pred             HHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           35 NAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        35 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      +..+-++.+...++.|++.+..+.+++|.+.+++..|.++|+-.+.+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            45555666666666666666666666666666666666666666543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.91  E-value=1.7  Score=34.22  Aligned_cols=61  Identities=15%  Similarity=0.077  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEM  113 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  113 (329)
                      ..+++...+.|..+|.+.+|.++.+.....+ +.+...+..+++.+...||--.+.+-++.+
T Consensus       279 ~kllgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         279 MKLLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            3455666778888999999999888887764 447778888888999888877777776665

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.86  E-value=5.9  Score=32.11  Aligned_cols=114  Identities=13%  Similarity=0.096  Sum_probs=49.3

Q ss_pred             CchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCH----HhHHHHHHHHHccCCHHHH
Q 020202          101 GKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDL----ETFNSLIETICKSGEVEFC  176 (329)
Q Consensus       101 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a  176 (329)
                      |++.+|-..++++.+. .|.|...+...-.++.-.|+...-...++++... ..+|.    ..-..+.-++...|-+++|
T Consensus       117 g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             ccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            4444444444444443 2444444444445555555555555555544433 01111    1111222333345555555


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          177 VEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      ++.-++..+.+. .|.-.-.+....+.-.|+..++.++..+
T Consensus       195 Ek~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  195 EKQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            555555444332 3333333444444445555555544443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=91.71  E-value=8.6  Score=33.69  Aligned_cols=122  Identities=12%  Similarity=0.097  Sum_probs=59.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 020202          192 VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITM  271 (329)
Q Consensus       192 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  271 (329)
                      ..+|..-+..-.+.|+.+.+.-+|++..-. +..-...|-..+.-....|+.+-|..++....+-.++ +......+-..
T Consensus       297 l~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k-~~~~i~L~~a~  374 (577)
T KOG1258|consen  297 LKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVK-KTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCC-CCcHHHHHHHH
Confidence            345555555555666666666666665432 1111223333333334446666666665555444222 22222222222


Q ss_pred             H-hccCCHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHhCCchhHHH
Q 020202          272 C-GRGGRFVEAANYLVEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAE  317 (329)
Q Consensus       272 ~-~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~  317 (329)
                      + -..|++..|..+++...+.-  |+ ...-..-+....+.|..+.+.
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhh
Confidence            2 23567777777777776543  33 222222334455666666665

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

Probab=91.35  E-value=0.69  Score=24.01  Aligned_cols=26  Identities=19%  Similarity=0.199  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHH
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMI   79 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~   79 (329)
                      +++.|...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            44445555555555555555554443

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.11  E-value=0.073  Score=37.49  Aligned_cols=83  Identities=12%  Similarity=0.109  Sum_probs=46.6

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK  102 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (329)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++..       +..-...+++.|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            45555666667777777777765554455667777777777776656666555411       11222345555555555


Q ss_pred             hhHHHHHHHH
Q 020202          103 MREAQEFLQE  112 (329)
Q Consensus       103 ~~~a~~~~~~  112 (329)
                      ++++.-++.+
T Consensus        86 ~~~a~~Ly~~   95 (143)
T PF00637_consen   86 YEEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            5555555544

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

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

Probab=91.01  E-value=0.98  Score=22.21  Aligned_cols=25  Identities=20%  Similarity=0.248  Sum_probs=10.0

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMI   79 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~   79 (329)
                      |..+..++...|++++|+..|++.+
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHH
Confidence            3334444444444444444444433

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

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.89  E-value=3.5  Score=35.08  Aligned_cols=87  Identities=9%  Similarity=0.037  Sum_probs=39.2

Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEF  175 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  175 (329)
                      .+...|+++.+.+.+...... +.....+..++++...+.|+++.|..+-.-|....+. ++..........-..|-+++
T Consensus       332 i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~  409 (831)
T PRK15180        332 IFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDK  409 (831)
T ss_pred             HHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHH
Confidence            344455555555554444322 1233344555555555555555555555555544333 33332222222233344444


Q ss_pred             HHHHHHHHH
Q 020202          176 CVEMYYSVC  184 (329)
Q Consensus       176 a~~~~~~~~  184 (329)
                      +.-.|+++.
T Consensus       410 ~~~~wk~~~  418 (831)
T PRK15180        410 SYHYWKRVL  418 (831)
T ss_pred             HHHHHHHHh
Confidence            444444443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.80  E-value=4.3  Score=28.56  Aligned_cols=52  Identities=10%  Similarity=0.038  Sum_probs=26.0

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      ..++++++..+++.+.-.. |.....-..-...+...|++++|..+|+++.+.
T Consensus        22 ~~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            3556666666666554432 222222222233445566666666666665554

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

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.79  E-value=5.8  Score=30.02  Aligned_cols=185  Identities=12%  Similarity=0.027  Sum_probs=102.9

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHH
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFC  176 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  176 (329)
                      |-..|-+..|.-=|.+..... |.-+..||-+.-.+...|+++.|.+.|+...+....-+-...|.-+ ++.-.|++.-|
T Consensus        75 YDSlGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LA  152 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLA  152 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhh
Confidence            445566666666666665543 2335678888888888899999999998888875443322223222 23446788888


Q ss_pred             HHHHHHHHHcCC-CCchhhHHHHHHHHHhcCCHHHHHHHHH-HHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          177 VEMYYSVCKLGL-CADVSTYKILIPAVSKAGMIDEAFRLLH-NLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       177 ~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      .+-+-..-+.++ .|-...|--+.   ...-++.+|..-+. +....    +..-|...|-.|. .|+. ....+++++.
T Consensus       153 q~d~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~y-Lgki-S~e~l~~~~~  223 (297)
T COG4785         153 QDDLLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFY-LGKI-SEETLMERLK  223 (297)
T ss_pred             HHHHHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHH-Hhhc-cHHHHHHHHH
Confidence            777666655432 12222232222   23345666654443 33322    3344444333322 1222 1223344443


Q ss_pred             HcCCCC-------ChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC
Q 020202          255 IKGHPP-------NRPVYTMLITMCGRGGRFVEAANYLVEMTEMGL  293 (329)
Q Consensus       255 ~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  293 (329)
                      .. -..       -..||--+.+-+...|+.++|..+|+-.+..++
T Consensus       224 a~-a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         224 AD-ATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             hh-ccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            32 111       135677777788888999999999988775543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.74  E-value=0.83  Score=36.75  Aligned_cols=86  Identities=15%  Similarity=0.101  Sum_probs=56.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccC--
Q 020202          200 PAVSKAGMIDEAFRLLHNLVEDGHKP-FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGG--  276 (329)
Q Consensus       200 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  276 (329)
                      .-|.+.|.+++|++.|......  .| |+.++..-..+|.+...+..|+.=.......    |    ...+.+|.+.+  
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL----d----~~Y~KAYSRR~~A  174 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL----D----KLYVKAYSRRMQA  174 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh----h----HHHHHHHHHHHHH
Confidence            3588999999999999886654  34 7788888888899988888887766665543    1    22445555544  


Q ss_pred             -----CHHHHHHHHHHHHhCCCCCCh
Q 020202          277 -----RFVEAANYLVEMTEMGLTPIS  297 (329)
Q Consensus       277 -----~~~~a~~~~~~~~~~~~~p~~  297 (329)
                           ...+|.+-++...+  +.|+.
T Consensus       175 R~~Lg~~~EAKkD~E~vL~--LEP~~  198 (536)
T KOG4648|consen  175 RESLGNNMEAKKDCETVLA--LEPKN  198 (536)
T ss_pred             HHHHhhHHHHHHhHHHHHh--hCccc
Confidence                 44444444444433  45653

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=90.50  E-value=6.2  Score=31.08  Aligned_cols=89  Identities=10%  Similarity=0.071  Sum_probs=55.6

Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc--
Q 020202           92 ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK--  169 (329)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  169 (329)
                      .=|.+++..++|.+++...-+-.+..-+..+.....-|-.|.+.+.+..+.++-..-....-.-+...|.++++.|..  
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            346788888888887776555543321222344555566778888888888777766554222234447666665544  


Q ss_pred             ---cCCHHHHHHHH
Q 020202          170 ---SGEVEFCVEMY  180 (329)
Q Consensus       170 ---~~~~~~a~~~~  180 (329)
                         .|.+++|+++.
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence               68888887776

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=90.44  E-value=6.7  Score=30.90  Aligned_cols=127  Identities=11%  Similarity=0.034  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcC-----C-CccH-------HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFN-----C-QQCV-------LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP   85 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~   85 (329)
                      ......+.+.-..||..|++.-++-.+.=     . .++.       .....=|++++..+++.+++...-+-.+..-+.
T Consensus        37 lLe~Aad~LvV~rdF~aal~tCerglqsL~~~a~~ee~~~~~~evK~sLcvvGIQALAEmnrWreVLsWvlqyYq~pEkl  116 (309)
T PF07163_consen   37 LLEEAADLLVVHRDFQAALETCERGLQSLASDADAEEPAGSSLEVKCSLCVVGIQALAEMNRWREVLSWVLQYYQVPEKL  116 (309)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchhhhhhhhhhhhHHHHHHHhhHHHHHHHHHHHhcCcccC
Confidence            34445555666788888888877654210     0 1111       112334788999999999988876665543222


Q ss_pred             ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-----cCChHHHHHHH
Q 020202           86 DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN-----AGYLESAKQMV  145 (329)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~  145 (329)
                      .......-|-.|.+.+.+..+.++-..-.+..-..+...|.+++..|..     .|.+++|+++.
T Consensus       117 PpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  117 PPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLLPLGHFSEAEELV  181 (309)
T ss_pred             CHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence            3345666677789999999998888777665333445558887777665     59999999887

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.37  E-value=13  Score=33.26  Aligned_cols=183  Identities=16%  Similarity=0.155  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHHHHcCCccChHHHHHHH--HH-HHhcCchhHHHHHHHHHHh-------CCCCCCcccHHHHHHHHHhcC-
Q 020202           68 FHGAYALIRRMIRKGFVPDKRTYAILV--NA-WCSSGKMREAQEFLQEMSD-------KGFNPPVRGRDLLVQGLLNAG-  136 (329)
Q Consensus        68 ~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-  136 (329)
                      ...+.++++.....|.. ........+  .+ +....|.+.|..+++....       .+   .+.....+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~~-~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHS-EAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcch-HHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            46788888888777622 111122222  22 3456689999999988866       44   3446667777777753 


Q ss_pred             ----ChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc-cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHH--hcCCHH
Q 020202          137 ----YLESAKQMVNKMIKQGFVLDLETFNSLIETICK-SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVS--KAGMID  209 (329)
Q Consensus       137 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~  209 (329)
                          +...|..++.+..+.|.+ +....-..+..... ..+...|.++|....+.|. +....+..++....  -..+..
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCcCCCHH
Confidence                567799999988888744 44433333322222 2467899999999888775 33333322222222  335688


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC
Q 020202          210 EAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH  258 (329)
Q Consensus       210 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  258 (329)
                      .|..++.+..+.|. |....-...+..+.. +.++.+.-.+..+.+.|.
T Consensus       382 ~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  382 LAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             HHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhh
Confidence            89999999888873 222222222333333 667776666666665543

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.29  E-value=11  Score=32.39  Aligned_cols=106  Identities=14%  Similarity=0.089  Sum_probs=59.8

Q ss_pred             HHhcCCHHHHHHHHHHHH---hCCCCCC-----hhhHHHHHHHHHccCChhHHHHHHHHHHH-------cCCCCCh----
Q 020202          202 VSKAGMIDEAFRLLHNLV---EDGHKPF-----PSLYAPIIKGMFRRGQFDDAFCFFSEMKI-------KGHPPNR----  262 (329)
Q Consensus       202 ~~~~~~~~~a~~~~~~~~---~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~----  262 (329)
                      +.-.|++.+|.+++-..-   +.|...+     ...+|.+...+.+.|.+..+..+|.+..+       .|++|..    
T Consensus       250 eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tl  329 (696)
T KOG2471|consen  250 EYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTL  329 (696)
T ss_pred             HHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceeh
Confidence            344677777777665422   1121111     12235555556666666666666666553       2443321    


Q ss_pred             -------hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 020202          263 -------PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKN  309 (329)
Q Consensus       263 -------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  309 (329)
                             .+|| ..-.|...|++-.|.+.|.+.... +..++..|-.|.++|..
T Consensus       330 s~nks~eilYN-cG~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  330 SQNKSMEILYN-CGLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIM  381 (696)
T ss_pred             hcccchhhHHh-hhHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHH
Confidence                   1222 233456778888888888777643 34567788888877754

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.19  E-value=13  Score=33.16  Aligned_cols=244  Identities=15%  Similarity=0.081  Sum_probs=138.1

Q ss_pred             hhHHHHHHHHhhhcCCCccHHHHHHHHHH-----HHhcchHHHHHHHHHHHHH-------cCCccChHHHHHHHHHHHhc
Q 020202           33 VDNAVEVFNKCTAFNCQQCVLLYNSLLFA-----LCEVKLFHGAYALIRRMIR-------KGFVPDKRTYAILVNAWCSS  100 (329)
Q Consensus        33 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~  100 (329)
                      ...|...++...+.|   +......+..+     +....+++.|+.+|....+       .|   .......+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            457888888887776   33333333222     3356789999999998877       44   233456677777664


Q ss_pred             C-----chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc---CChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH--cc
Q 020202          101 G-----KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNA---GYLESAKQMVNKMIKQGFVLDLETFNSLIETIC--KS  170 (329)
Q Consensus       101 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~  170 (329)
                      .     +.+.|..++...-+.|. |+....  +...+...   .+...|.++|....+.|.. +...+..++-...  ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~--lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGN-PDAQYL--LGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCC-chHHHH--HHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcC
Confidence            3     56779999998888773 433333  33333332   4578999999999988754 2222222222222  34


Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH----HHc----cCC
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKG----MFR----RGQ  242 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----~~~----~~~  242 (329)
                      .+.+.|..++.+..+.|. |....-...+..+.. +.++.+...+..+.+.+.. ...+-...+..    ...    ..+
T Consensus       378 r~~~~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~-~~q~~a~~l~~~~~~~~~~~~~~~~  454 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE-VAQSNAAYLLDQSEEDLFSRGVIST  454 (552)
T ss_pred             CCHHHHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh-HHhhHHHHHHHhccccccccccccc
Confidence            578999999999988873 443333333344444 7777777777666665543 22221111111    111    123


Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHHHHhc----cCCHHHHHHHHHHHHhCC
Q 020202          243 FDDAFCFFSEMKIKGHPPNRPVYTMLITMCGR----GGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       243 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  292 (329)
                      .+.+...+......|   +......+...|..    ..+++.|...+......+
T Consensus       455 ~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~  505 (552)
T KOG1550|consen  455 LERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG  505 (552)
T ss_pred             hhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh
Confidence            455556666555443   33444444444432    234555666555554443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.11  E-value=7.8  Score=34.13  Aligned_cols=150  Identities=18%  Similarity=0.087  Sum_probs=92.6

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHH
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQ  107 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  107 (329)
                      .-.|+++.|..++..+.       ....+.++..+-+.|-.++|+++-         +|...   -.....+.|+++.|.
T Consensus       597 vmrrd~~~a~~vLp~I~-------k~~rt~va~Fle~~g~~e~AL~~s---------~D~d~---rFelal~lgrl~iA~  657 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIP-------KEIRTKVAHFLESQGMKEQALELS---------TDPDQ---RFELALKLGRLDIAF  657 (794)
T ss_pred             hhhccccccccccccCc-------hhhhhhHHhHhhhccchHhhhhcC---------CChhh---hhhhhhhcCcHHHHH
Confidence            44677777777655443       233455666677777777776542         23221   223345677888877


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 020202          108 EFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLG  187 (329)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  187 (329)
                      ++..+..      +..-|..|.++....+++..|.+.|.+..+         |..|+-.+...|+-+....+-....+.|
T Consensus       658 ~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g  722 (794)
T KOG0276|consen  658 DLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQG  722 (794)
T ss_pred             HHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhc
Confidence            7665542      345688888888888888888888876653         3455566666777665555555555554


Q ss_pred             CCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          188 LCADVSTYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       188 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      . .|..     .-+|...|+++++.+++..
T Consensus       723 ~-~N~A-----F~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  723 K-NNLA-----FLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             c-cchH-----HHHHHHcCCHHHHHHHHHh
Confidence            3 3322     2345567888888777754

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=89.98  E-value=1.9  Score=29.14  Aligned_cols=79  Identities=14%  Similarity=0.100  Sum_probs=49.1

Q ss_pred             CHHHHHHHHHHHHccC--chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHG--LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      +.+-|+.--.-|....  |-=+..+.++.+...++.|++.....-++++-+.+++..|.++|+-.+.+ ..+....|-.+
T Consensus        46 t~EEfd~ry~~yf~r~~iD~wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~  124 (149)
T KOG4077|consen   46 TAEEFDARYEKYFNRPEIDGWEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYY  124 (149)
T ss_pred             cHHHHHHHHHHHcCcccchHHHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHH
Confidence            4444444444444432  23346667777777778888888888888888888888888888777654 12222245544


Q ss_pred             HH
Q 020202           94 VN   95 (329)
Q Consensus        94 ~~   95 (329)
                      +.
T Consensus       125 v~  126 (149)
T KOG4077|consen  125 VK  126 (149)
T ss_pred             HH
Confidence            44

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

Probab=89.88  E-value=5.6  Score=28.45  Aligned_cols=51  Identities=16%  Similarity=0.112  Sum_probs=23.1

Q ss_pred             hcchHHHHHHHHHHHHHcCCccChHHHH-HHHHHHHhcCchhHHHHHHHHHHhC
Q 020202           64 EVKLFHGAYALIRRMIRKGFVPDKRTYA-ILVNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      +.++.+++..++..+.-.  .|...... .-...+...|+|.+|..+|+.+...
T Consensus        22 ~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            445555555555555433  22221111 1122344555666666666655443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=89.88  E-value=12  Score=32.33  Aligned_cols=165  Identities=12%  Similarity=0.066  Sum_probs=98.0

Q ss_pred             cChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHH
Q 020202           85 PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLI  164 (329)
Q Consensus        85 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  164 (329)
                      .|.....+++..+.....+.-...+..+|...|  .+...+..++++|... ..+.-..+|+++.+..+. |...-..|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHH
Confidence            355556677777777777777777777777765  4566677777777777 556667777777766443 444444444


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCC-----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCChhhHHHHHHHHH
Q 020202          165 ETICKSGEVEFCVEMYYSVCKLGLCA-----DVSTYKILIPAVSKAGMIDEAFRLLHNLVED-GHKPFPSLYAPIIKGMF  238 (329)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  238 (329)
                      .-|-+ ++.+.+...|.++...-++.     -...|..+...-  ..+.+....+...+... |...-...+..+-.-|.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            44444 66667777776665442210     112344444321  24556666666665543 33333444555556677


Q ss_pred             ccCChhHHHHHHHHHHHc
Q 020202          239 RRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       239 ~~~~~~~a~~~~~~~~~~  256 (329)
                      ...++++|++++..+.+.
T Consensus       217 ~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         217 ENENWTEAIRILKHILEH  234 (711)
T ss_pred             cccCHHHHHHHHHHHhhh
Confidence            777777777777766655

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

Probab=89.64  E-value=2.1  Score=26.23  Aligned_cols=47  Identities=11%  Similarity=-0.052  Sum_probs=30.1

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHhCCchhHHHHHH
Q 020202          274 RGGRFVEAANYLVEMTEMGLTPI--SRCFDLVTDGLKNCGKHDLAEKIE  320 (329)
Q Consensus       274 ~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~  320 (329)
                      ..++.++|+..|+...+.-..|.  -.++..++.+++..|+++++.++.
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666777777777665433322  335666777777777777776663

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

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=89.58  E-value=5.6  Score=27.97  Aligned_cols=83  Identities=12%  Similarity=0.182  Sum_probs=46.2

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcC-----CccChHHHHHHHHHHHhcCc-hhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKG-----FVPDKRTYAILVNAWCSSGK-MREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      .|.++.-....+++.....+++.+..-.     -..+...|..++.+..+... --.+..+|.-+++.+.++++.-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            3455555555555555555555443211     01244567777776655554 34455666666666666667777777


Q ss_pred             HHHHHhcCC
Q 020202          129 VQGLLNAGY  137 (329)
Q Consensus       129 ~~~~~~~~~  137 (329)
                      +.++.+...
T Consensus       122 i~~~l~g~~  130 (145)
T PF13762_consen  122 IKAALRGYF  130 (145)
T ss_pred             HHHHHcCCC
Confidence            776665533

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.18  E-value=1.4  Score=21.33  Aligned_cols=21  Identities=14%  Similarity=0.284  Sum_probs=9.3

Q ss_pred             HHHHhcchHHHHHHHHHHHHH
Q 020202           60 FALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        60 ~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      .++.+.|++++|.+.|+++.+
T Consensus         8 ~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    8 RCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHH
Confidence            334444444444444444443

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.07  E-value=10  Score=30.19  Aligned_cols=137  Identities=9%  Similarity=0.140  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHHH-cCCCCchhhHHHHHHHHHh-cC-CHHHHHHHHHHHHhC-CCCCChhhHHHHHHHHHccCChhHHHH
Q 020202          173 VEFCVEMYYSVCK-LGLCADVSTYKILIPAVSK-AG-MIDEAFRLLHNLVED-GHKPFPSLYAPIIKGMFRRGQFDDAFC  248 (329)
Q Consensus       173 ~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  248 (329)
                      +.+|+++|+.... ..+-.|..+...+++.... .+ ....-.++.+-+... +-.++..+...++..++..+++.+-.+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            4556666653221 2234566666666666554 22 222233333333322 345677778888888888888888888


Q ss_pred             HHHHHHHc-CCCCChhhHHHHHHHHhccCCHHHHHHHHHH-----HHhCCCCCChhhHHHHHHHHHh
Q 020202          249 FFSEMKIK-GHPPNRPVYTMLITMCGRGGRFVEAANYLVE-----MTEMGLTPISRCFDLVTDGLKN  309 (329)
Q Consensus       249 ~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~p~~~~~~~l~~~~~~  309 (329)
                      +++..... +..-|...|..+++.....|+..-..++..+     +...++..+...-..+-+.+.+
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            88877655 5556778888888888888887766666554     2234555555555555444433

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=89.04  E-value=6.1  Score=28.89  Aligned_cols=110  Identities=22%  Similarity=0.139  Sum_probs=48.7

Q ss_pred             hhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhc---chHHHHHHHHHHHHHc-----CCccCh-HHHHHHHHHHHhcC--
Q 020202           33 VDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEV---KLFHGAYALIRRMIRK-----GFVPDK-RTYAILVNAWCSSG--  101 (329)
Q Consensus        33 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~-----~~~~~~-~~~~~l~~~~~~~~--  101 (329)
                      ++.|.+..+.-...+ |.|...++.-..++...   ....++.+++++...+     .+.|+. .++..+..++...+  
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~l   85 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAFL   85 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhh
Confidence            455666666655555 66666555444443332   2223344444333321     134443 45555555554332  


Q ss_pred             --c-------hhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          102 --K-------MREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       102 --~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                        +       +++|...|++..+.  .|+...|+.-+....      +|-++..++.+.
T Consensus        86 ~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~~------kap~lh~e~~~~  136 (186)
T PF06552_consen   86 TPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMAA------KAPELHMEIHKQ  136 (186)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHH------THHHHHHHHHHS
T ss_pred             cCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHHH------hhHHHHHHHHHH
Confidence              1       34444444444443  366666666555542      344455554444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

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

Probab=88.74  E-value=0.71  Score=21.30  Aligned_cols=20  Identities=15%  Similarity=0.145  Sum_probs=10.4

Q ss_pred             HHHHHHHHccCchhHHHHHH
Q 020202           21 SLIIEEFGKHGLVDNAVEVF   40 (329)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~   40 (329)
                      ..+...+...|++++|.+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHH
Confidence            34445555555555555544

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

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.74  E-value=8.3  Score=28.83  Aligned_cols=89  Identities=18%  Similarity=0.070  Sum_probs=52.3

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCC-----cccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccC
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPP-----VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSG  171 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  171 (329)
                      +...|++++|..-|...+..- ++.     ...|..-..++.+.+.++.|+.-..+.++.+.. .......-..+|.+..
T Consensus       105 ~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKME  182 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhh
Confidence            446677777777777666542 221     123444445666777777777777666666432 2223333345666777


Q ss_pred             CHHHHHHHHHHHHHcC
Q 020202          172 EVEFCVEMYYSVCKLG  187 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~~  187 (329)
                      .++.|+.-|..+.+..
T Consensus       183 k~eealeDyKki~E~d  198 (271)
T KOG4234|consen  183 KYEEALEDYKKILESD  198 (271)
T ss_pred             hHHHHHHHHHHHHHhC
Confidence            7777777777777654

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.30  E-value=1.6  Score=23.35  Aligned_cols=22  Identities=23%  Similarity=0.564  Sum_probs=10.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIK  150 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~  150 (329)
                      ..+|...|+.+.|.++++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHHH
Confidence            3444444444444444444443

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.21  E-value=1.6  Score=23.39  Aligned_cols=21  Identities=29%  Similarity=0.316  Sum_probs=9.3

Q ss_pred             HHHHHhcchHHHHHHHHHHHH
Q 020202           59 LFALCEVKLFHGAYALIRRMI   79 (329)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~   79 (329)
                      ..+|...|+.+.|.+++++..
T Consensus         6 A~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         6 ARAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHHcCChHHHHHHHHHHH
Confidence            344444444444444444444

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=87.32  E-value=16  Score=32.75  Aligned_cols=33  Identities=33%  Similarity=0.369  Sum_probs=0.0

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          274 RGGRFVEAANYLVEMTEMGLTPISRCFDLVTDG  306 (329)
Q Consensus       274 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  306 (329)
                      +.|++.+|.+.+-.+.+.+..|...-...|.++
T Consensus       507 ~~~~~~~Aa~~Lv~Ll~~~~~Pk~f~~~LL~d~  539 (566)
T PF07575_consen  507 DEGDFREAASLLVSLLKSPIAPKSFWPLLLCDA  539 (566)
T ss_dssp             ---------------------------------
T ss_pred             hhhhHHHHHHHHHHHHCCCCCcHHHHHHHHHHH
Confidence            447777777777777776666665544444443

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=87.13  E-value=2.1  Score=20.95  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=19.4

Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456667777777777777777777654

...

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=86.50  E-value=28  Score=32.45  Aligned_cols=90  Identities=13%  Similarity=0.118  Sum_probs=50.6

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCccCH-------HhHHHHH-HHHHccCCHHHHHHHHHHHHHc----CCCCchhhHHHHH
Q 020202          132 LLNAGYLESAKQMVNKMIKQGFVLDL-------ETFNSLI-ETICKSGEVEFCVEMYYSVCKL----GLCADVSTYKILI  199 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~  199 (329)
                      .....++++|..++.++...-..|+.       ..++.+- ......|+++.|.++-+.....    -..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            34456777777777766554222211       1233222 2233467777777776665432    2223445566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 020202          200 PAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       200 ~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      .+..-.|++++|..+..+..+.
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~  526 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQM  526 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHH
Confidence            6667778888877777665543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.30  E-value=17  Score=32.21  Aligned_cols=25  Identities=20%  Similarity=0.116  Sum_probs=11.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          193 STYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       193 ~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      .-|..|..+..+.+++..|.+.|.+
T Consensus       667 ~Kw~~Lg~~al~~~~l~lA~EC~~~  691 (794)
T KOG0276|consen  667 VKWRQLGDAALSAGELPLASECFLR  691 (794)
T ss_pred             HHHHHHHHHHhhcccchhHHHHHHh
Confidence            3444444444455555444444443

>PRK09687 putative lyase; Provisional

Probab=85.35  E-value=17  Score=29.05  Aligned_cols=235  Identities=10%  Similarity=-0.012  Sum_probs=134.6

Q ss_pred             ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch----hHHHHHHHHHHhCCCCCCcccH
Q 020202           50 QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM----REAQEFLQEMSDKGFNPPVRGR  125 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~  125 (329)
                      +|.......+.++...|. +.+...+..+...   +|...-...+.++...|+.    +++...+..+...  .++...-
T Consensus        35 ~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR  108 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVR  108 (280)
T ss_pred             CCHHHHHHHHHHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHH
Confidence            455566666666666654 3344444444432   3555556666677777653    4566666665333  2555555


Q ss_pred             HHHHHHHHhcCCh-----HHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 020202          126 DLLVQGLLNAGYL-----ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIP  200 (329)
Q Consensus       126 ~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  200 (329)
                      ...+.++...+..     ..+...+.....   .++..+-...+.++.+.++. .+...+-.+.+.   ++...-...+.
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~d---~~~~VR~~A~~  181 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVINDE-AAIPLLINLLKD---PNGDVRNWAAF  181 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCCH-HHHHHHHHHhcC---CCHHHHHHHHH
Confidence            5566666554421     223333333332   23566666777777777764 455555555543   44455555556


Q ss_pred             HHHhcC-CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHH
Q 020202          201 AVSKAG-MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFV  279 (329)
Q Consensus       201 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  279 (329)
                      ++.+.+ ..+.+...+..+..   .++..+-...+.++.+.|+ ..+...+-+..+.+   +  .....+.++...|+. 
T Consensus       182 aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-  251 (280)
T PRK09687        182 ALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-  251 (280)
T ss_pred             HHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-
Confidence            665543 23455555555553   3466666777788888877 45555555555442   2  234677788888875 


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHh
Q 020202          280 EAANYLVEMTEMGLTPISRCFDLVTDGLKN  309 (329)
Q Consensus       280 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  309 (329)
                      +|...+..+.+..  ||..+-...+.++.+
T Consensus       252 ~a~p~L~~l~~~~--~d~~v~~~a~~a~~~  279 (280)
T PRK09687        252 TLLPVLDTLLYKF--DDNEIITKAIDKLKR  279 (280)
T ss_pred             hHHHHHHHHHhhC--CChhHHHHHHHHHhc
Confidence            6788887777533  466666666666543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=84.76  E-value=25  Score=30.31  Aligned_cols=130  Identities=10%  Similarity=0.049  Sum_probs=84.9

Q ss_pred             HHHHHHHHccCchhHHHH-HHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           21 SLIIEEFGKHGLVDNAVE-VFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      ..-|.--...|+.-.|.+ ++..+....-.|+....  ........|+++.+.+.+...... +.....+...+++....
T Consensus       293 ~~si~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l--~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~  369 (831)
T PRK15180        293 TLSITKQLADGDIIAASQQLFAALRNQQQDPVLIQL--RSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHG  369 (831)
T ss_pred             HHHHHHHhhccCHHHHHHHHHHHHHhCCCCchhhHH--HHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhc
Confidence            334444556677766654 44444443223443333  334456789999999988776543 34456688899999999


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV  154 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (329)
                      .|+++.|...-+.|....+. ++.......-..-..|-++++...|+++...+.+
T Consensus       370 l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~  423 (831)
T PRK15180        370 LARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPE  423 (831)
T ss_pred             hhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCCh
Confidence            99999999999988876643 3333333333344567789999999988765433

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=84.47  E-value=6.7  Score=27.71  Aligned_cols=44  Identities=18%  Similarity=0.025  Sum_probs=21.9

Q ss_pred             HHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           58 LLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        58 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      ++..+.+.++.-.|.++++.+.+.++..+..|...-++.+...|
T Consensus        26 vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G   69 (145)
T COG0735          26 VLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG   69 (145)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence            44444444444555555555555544444444444445555444

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.44  E-value=17  Score=28.05  Aligned_cols=24  Identities=4%  Similarity=0.104  Sum_probs=15.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC
Q 020202          201 AVSKAGMIDEAFRLLHNLVEDGHK  224 (329)
Q Consensus       201 ~~~~~~~~~~a~~~~~~~~~~~~~  224 (329)
                      .-...+++.+|..+|+++......
T Consensus       163 yaa~leqY~~Ai~iyeqva~~s~~  186 (288)
T KOG1586|consen  163 YAAQLEQYSKAIDIYEQVARSSLD  186 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcc
Confidence            334556777788887777665443

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=84.41  E-value=10  Score=25.85  Aligned_cols=44  Identities=23%  Similarity=0.320  Sum_probs=24.0

Q ss_pred             HHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          213 RLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       213 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      +-+..+..-++.|++.....-+.++.+.+++..|.++|+-++.+
T Consensus        70 kglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   70 KGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            33344444455555555555556666666666666666555543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=84.39  E-value=12  Score=26.43  Aligned_cols=20  Identities=15%  Similarity=0.488  Sum_probs=9.7

Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 020202          132 LLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~  151 (329)
                      +...|++++|.++|+++.+.
T Consensus        54 ~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        54 LIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHHcCCHHHHHHHHHhhhcc
Confidence            34445555555555554444

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

>PF12926 MOZART2: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR024332 The MOZART2 family of proteins (also known as FAM128 and Mitotic-spindle organizing protein 2) operate as part of the gamma-tubulin ring complex, gamma-TuRC, one of the complexes necessary for chromosome segregation

Probab=83.38  E-value=5.7  Score=24.84  Aligned_cols=65  Identities=8%  Similarity=0.050  Sum_probs=49.1

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      |+...|..-++...... .+++ ++|+-....|+..|+..|..++..+.-+=.++...++++.|...
T Consensus         8 ~~~~~~k~~~~rk~~Ls-~eE~-EL~ELa~~AGv~~dp~VFriildLL~~nVsP~AI~qmLK~m~s~   72 (88)
T PF12926_consen    8 PTAQVYKYSLRRKKVLS-AEEV-ELYELAQLAGVPMDPEVFRIILDLLRLNVSPDAIFQMLKSMCSG   72 (88)
T ss_pred             ChHHHHHHHHHHHhccC-HHHH-HHHHHHHHhCCCcChHHHHHHHHHHHcCCCHHHHHHHHHHHHcc
Confidence            45666666665433332 2333 88999999999999999999999988888888999999888754

This complex is located at centrosomes and mediates the formation of bipolar spindles in mitosis; it consists of six subunits. However, unlike the other four known subunits, the MOZART proteins, both 1 and 2, do not carry the conserved 'Spc97-Spc98' GCP domain, so the TUBGCP nomenclature cannot be used for it. The exact function of MOZART2 is not clear [].

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=83.29  E-value=6.8  Score=31.87  Aligned_cols=89  Identities=17%  Similarity=0.122  Sum_probs=58.1

Q ss_pred             HHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchh
Q 020202           25 EEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMR  104 (329)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  104 (329)
                      +.|.++|.+++|+..|....... |-|..++..-..+|.+.+.+..|..=.......+-. =...|..-+.+-...|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~-Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKL-YVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHH-HHHHHHHHHHHHHHHhhHH
Confidence            45778899999999999887765 558888888888999998888777666665543200 1123333333334445555


Q ss_pred             HHHHHHHHHHh
Q 020202          105 EAQEFLQEMSD  115 (329)
Q Consensus       105 ~a~~~~~~~~~  115 (329)
                      +|.+=++....
T Consensus       183 EAKkD~E~vL~  193 (536)
T KOG4648|consen  183 EAKKDCETVLA  193 (536)
T ss_pred             HHHHhHHHHHh
Confidence            55555555544

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.41  E-value=33  Score=29.93  Aligned_cols=180  Identities=9%  Similarity=0.009  Sum_probs=125.5

Q ss_pred             CCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHH
Q 020202          119 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKIL  198 (329)
Q Consensus       119 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  198 (329)
                      +.|.....+++..+.....+.-+..+..+|..-|  .+...|..++++|... ..++-..+|+++.+... .|++.-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHH
Confidence            4566777889999999999999999999999875  3678899999999988 66788899999988765 445555556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCC-----CChhhHHHHHHHHHccCChhHHHHHHHHHHHc-CCCCChhhHHHHHHHH
Q 020202          199 IPAVSKAGMIDEAFRLLHNLVEDGHK-----PFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK-GHPPNRPVYTMLITMC  272 (329)
Q Consensus       199 ~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~  272 (329)
                      ...|-+ ++.+.+..+|..+...-++     .-...|.-+...  -..+.+....+..++... |...-...+.-+-.-|
T Consensus       139 a~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         139 ADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            666655 8888999999887754221     012244444432  134667777777776543 4444455666677788


Q ss_pred             hccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          273 GRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDG  306 (329)
Q Consensus       273 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  306 (329)
                      ....++++|++++..+.+..- -|...-..++.-
T Consensus       216 s~~eN~~eai~Ilk~il~~d~-k~~~ar~~~i~~  248 (711)
T COG1747         216 SENENWTEAIRILKHILEHDE-KDVWARKEIIEN  248 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhcc-hhhhHHHHHHHH
Confidence            899999999999998776542 233333444443

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=82.34  E-value=71  Score=33.75  Aligned_cols=122  Identities=11%  Similarity=0.052  Sum_probs=81.1

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCC--CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNC--QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      .+..+-.+++.+.+|...++.-.....  ......|..+...|...+++|+..-+...-..     +.. ...-|-....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a-----~~s-l~~qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA-----DPS-LYQQILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc-----Ccc-HHHHHHHHHh
Confidence            455566788999999999988421111  12234455555589999999988877764111     222 2334445667


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHH
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIK  150 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  150 (329)
                      .|+|..|...|+.+.+.+ ++...+++.+++.....|.++.+.-..+-...
T Consensus      1462 ~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~ 1511 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLII 1511 (2382)
T ss_pred             hccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhh
Confidence            899999999999998876 45577788777777777777666665554443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.55  E-value=20  Score=26.78  Aligned_cols=91  Identities=14%  Similarity=0.030  Sum_probs=42.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 020202          200 PAVSKAGMIDEAFRLLHNLVEDGHKP--FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGR  277 (329)
Q Consensus       200 ~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  277 (329)
                      ..+...+++++|...++.........  ....--.|.......|.+++|..+++.....+.  .......-.+.+...|+
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~  174 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGD  174 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCc
Confidence            34455566666666665544321100  011112233444555666666666655544321  11222333445566666


Q ss_pred             HHHHHHHHHHHHhCC
Q 020202          278 FVEAANYLVEMTEMG  292 (329)
Q Consensus       278 ~~~a~~~~~~~~~~~  292 (329)
                      -++|..-|+...+.+
T Consensus       175 k~~Ar~ay~kAl~~~  189 (207)
T COG2976         175 KQEARAAYEKALESD  189 (207)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            666666666665543

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.13  E-value=34  Score=29.21  Aligned_cols=208  Identities=10%  Similarity=0.031  Sum_probs=105.3

Q ss_pred             HHHhcchHHHHHHHHHHHHHcCCccChHH--HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc--cHHHHHHHHHhcC
Q 020202           61 ALCEVKLFHGAYALIRRMIRKGFVPDKRT--YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR--GRDLLVQGLLNAG  136 (329)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~  136 (329)
                      ..+..|+.+-+    +.+.+.|..|+...  ..+.+...+..|+.+    +.+.+.+.|..|+..  ...+.+...+..|
T Consensus         8 ~A~~~g~~~iv----~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g   79 (413)
T PHA02875          8 DAILFGELDIA----RRLLDIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEEG   79 (413)
T ss_pred             HHHHhCCHHHH----HHHHHCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHCC
Confidence            34455666544    44456677766533  234555666777765    444555566544432  2234456667788


Q ss_pred             ChHHHHHHHHHHHHcCCccCHH---hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhh--HHHHHHHHHhcCCHHHH
Q 020202          137 YLESAKQMVNKMIKQGFVLDLE---TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVST--YKILIPAVSKAGMIDEA  211 (329)
Q Consensus       137 ~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a  211 (329)
                      +.+.+..+++    .|...+..   .-.+.+...+..|+.+    +++.+.+.|..|+...  -...+...+..|+.+-+
T Consensus        80 ~~~~v~~Ll~----~~~~~~~~~~~~g~tpL~~A~~~~~~~----iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v  151 (413)
T PHA02875         80 DVKAVEELLD----LGKFADDVFYKDGMTPLHLATILKKLD----IMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGI  151 (413)
T ss_pred             CHHHHHHHHH----cCCcccccccCCCCCHHHHHHHhCCHH----HHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHH
Confidence            8876655554    33221111   1123344445667664    4445555665554321  12234445567777665


Q ss_pred             HHHHHHHHhCCCCCC---hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhh---HHHHHHHHhccCCHHHHHHHH
Q 020202          212 FRLLHNLVEDGHKPF---PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPV---YTMLITMCGRGGRFVEAANYL  285 (329)
Q Consensus       212 ~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~  285 (329)
                      ..++    +.|..++   ..-.+.+. ..+..|+.+    +.+.+.+.|..|+...   ....+...+..|+.+    +.
T Consensus       152 ~~Ll----~~g~~~~~~d~~g~TpL~-~A~~~g~~e----iv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----iv  218 (413)
T PHA02875        152 ELLI----DHKACLDIEDCCGCTPLI-IAMAKGDIA----ICKMLLDSGANIDYFGKNGCVAALCYAIENNKID----IV  218 (413)
T ss_pred             HHHH----hcCCCCCCCCCCCCCHHH-HHHHcCCHH----HHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----HH
Confidence            5554    3443332   22233333 344556654    3444556666655432   123444344556654    55


Q ss_pred             HHHHhCCCCCCh
Q 020202          286 VEMTEMGLTPIS  297 (329)
Q Consensus       286 ~~~~~~~~~p~~  297 (329)
                      +.+.+.|..++.
T Consensus       219 ~~Ll~~gad~n~  230 (413)
T PHA02875        219 RLFIKRGADCNI  230 (413)
T ss_pred             HHHHHCCcCcch
Confidence            556677877764

>PRK09462 fur ferric uptake regulator; Provisional

Probab=80.73  E-value=13  Score=26.39  Aligned_cols=58  Identities=12%  Similarity=0.150  Sum_probs=23.7

Q ss_pred             hhhhhCCCCCCHHHHHHHHHHHHc-cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh
Q 020202            6 ELMKPYNLSVSPQTLSLIIEEFGK-HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE   64 (329)
Q Consensus         6 ~~m~~~g~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   64 (329)
                      +.+++.|+++++.-... +..+.. .+..-.|.++++.+.+.+...+..|....+..+..
T Consensus         6 ~~l~~~glr~T~qR~~I-l~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e   64 (148)
T PRK09462          6 TALKKAGLKVTLPRLKI-LEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDD   64 (148)
T ss_pred             HHHHHcCCCCCHHHHHH-HHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHH
Confidence            34444555544433222 222222 23344555555555544433333333333333333

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.59  E-value=27  Score=27.82  Aligned_cols=54  Identities=15%  Similarity=0.152  Sum_probs=33.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHh-------HHHHHHHHHccCCHHHHHHHH
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLET-------FNSLIETICKSGEVEFCVEMY  180 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~l~~~~~~~~~~~~a~~~~  180 (329)
                      -+.+-..+.+++++|...+.++...|...+..+       ...+...|...|+....-+..
T Consensus         8 e~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i   68 (421)
T COG5159           8 ELANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTI   68 (421)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHH
Confidence            345556677788888888888887776655543       334555566666655444433

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.52  E-value=26  Score=27.62  Aligned_cols=202  Identities=10%  Similarity=0.077  Sum_probs=122.3

Q ss_pred             CCCCCCHHHHHHHHHHH-HccCchhHHHHHHHHhhhcCCCcc---HHHHHHHHHHHHhcchHHHHHHHHHHHHHc---CC
Q 020202           11 YNLSVSPQTLSLIIEEF-GKHGLVDNAVEVFNKCTAFNCQQC---VLLYNSLLFALCEVKLFHGAYALIRRMIRK---GF   83 (329)
Q Consensus        11 ~g~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~   83 (329)
                      .+-.||+..-|..-..- .+..++++|+.-|++..+..-...   -.+...++....+.+++++....|.+|+.-   .+
T Consensus        20 s~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAV   99 (440)
T KOG1464|consen   20 SNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAV   99 (440)
T ss_pred             cCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence            44566665544322221 244588999999999876432222   334556788899999999999999888632   11


Q ss_pred             --ccChHHHHHHHHHHHhcCchhHHHHHHHHHHh----CC-CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc-----
Q 020202           84 --VPDKRTYAILVNAWCSSGKMREAQEFLQEMSD----KG-FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ-----  151 (329)
Q Consensus        84 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  151 (329)
                        .-+..+.|+++.....+.+.+....+++.-.+    .. -..--.|-..+...|...+.+.+..++++++..+     
T Consensus       100 TrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~ed  179 (440)
T KOG1464|consen  100 TRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTED  179 (440)
T ss_pred             hccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhcccc
Confidence              12345667777776666666665555554322    11 0111123345778888888888888888887653     


Q ss_pred             CCc------cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC-CCCchhhHHHHHHHH-----HhcCCHHHHHH
Q 020202          152 GFV------LDLETFNSLIETICKSGEVEFCVEMYYSVCKLG-LCADVSTYKILIPAV-----SKAGMIDEAFR  213 (329)
Q Consensus       152 ~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~-----~~~~~~~~a~~  213 (329)
                      |-.      .-...|..-++.|....+-.+...+|++..... -.|.+.... .|+-|     .+.|++++|..
T Consensus       180 GedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhT  252 (440)
T KOG1464|consen  180 GEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHT  252 (440)
T ss_pred             CchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHh
Confidence            110      023467777788888888888888888765321 224443333 33333     35677776644

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.39  E-value=54  Score=31.07  Aligned_cols=18  Identities=17%  Similarity=0.261  Sum_probs=12.1

Q ss_pred             HHccCchhHHHHHHHHhh
Q 020202           27 FGKHGLVDNAVEVFNKCT   44 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~   44 (329)
                      +..++++++|.+.|.++.
T Consensus       356 lf~q~~f~ea~~~F~~~~  373 (877)
T KOG2063|consen  356 LFLQKQFEEAMSLFEKSE  373 (877)
T ss_pred             HHHhhhHHHHHHHHHhhc
Confidence            345677777777777654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	329
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-04
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	4e-05

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.8 bits (174), Expect = 7e-14
 Identities = 20/119 (16%), Positives = 36/119 (30%), Gaps = 4/119 (3%)

Query: 185 KLGLCADVSTYKILIPAVSKAGMIDEAFRLL---HNLVEDGHKPFPSLYAPIIKGMFRRG 241
           +  L                   +  A  LL   H   +        +Y  ++ G  R+G
Sbjct: 120 QAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQG 179

Query: 242 QFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAAN-YLVEMTEMGLTPISRC 299
            F +       +K  G  P+   Y   +   GR  +        L +M++ GL   +  
Sbjct: 180 AFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALF 238

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 65.6 bits (158), Expect = 7e-12
 Identities = 22/183 (12%), Positives = 55/183 (30%), Gaps = 4/183 (2%)

Query: 3   KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVL---LYNSLL 59
                     LS   Q L    +       +  A  +         ++ +L   +YN+++
Sbjct: 113 APSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVM 172

Query: 60  FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREA-QEFLQEMSDKGF 118
                   F     ++  +   G  PD  +YA  +       +     +  L++MS +G 
Sbjct: 173 LGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGL 232

Query: 119 NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVE 178
                   +L+     A  L++  ++         +      + L+  +          +
Sbjct: 233 KLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPK 292

Query: 179 MYY 181
           ++ 
Sbjct: 293 LHL 295

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 63.7 bits (153), Expect = 3e-11
 Identities = 26/190 (13%), Positives = 60/190 (31%), Gaps = 4/190 (2%)

Query: 85  PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQM 144
           P +   A L+        +   Q    + S    +   +      +  L    L  A  +
Sbjct: 90  PWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHL 149

Query: 145 VNK---MIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA 201
           +       ++  +L L+ +N+++    + G  +  V + + V   GL  D+ +Y   +  
Sbjct: 150 LVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209

Query: 202 VSKAGMIDEAF-RLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPP 260
           + +         R L  + ++G K      A ++    R               +    P
Sbjct: 210 MGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLP 269

Query: 261 NRPVYTMLIT 270
                + L+ 
Sbjct: 270 PPVNTSKLLR 279

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.9 bits (99), Expect = 1e-04
 Identities = 18/115 (15%), Positives = 29/115 (25%), Gaps = 8/115 (6%)

Query: 193 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDA---FCF 249
                L+        +D          +              K      Q   A      
Sbjct: 93  EQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVV 152

Query: 250 FSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVT 304
               + K       +Y  ++    R G F E    L  + + GLTP     DL++
Sbjct: 153 HHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP-----DLLS 202

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 43.6 bits (102), Expect = 4e-05
 Identities = 36/238 (15%), Positives = 77/238 (32%), Gaps = 19/238 (7%)

Query: 62  LCEVK-LFH-GAY----ALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSD 115
           L +VK  F+ G+Y       +R+       D      L  A+ +  K     + ++  S 
Sbjct: 3   LFDVKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPSS- 61

Query: 116 KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETI-CKSGEVE 174
               P ++   +  + L +    ++    +++ + +   +   TF  +  +I       +
Sbjct: 62  ---APELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPD 118

Query: 175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE-DGHKPFPSLYAPI 233
             +   +    L   A      + +  + K   +D A + L  + + D       L    
Sbjct: 119 AALRTLHQGDSLECMA------MTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAW 172

Query: 234 IKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEM 291
           +       +  DA+  F EM      P   +           GR+  A   L E  + 
Sbjct: 173 VSLAAGGEKLQDAYYIFQEM-ADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK 229

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	329
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.9
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.89
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.89
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.82
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.82
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.81
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.79
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.77
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.77
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.77
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.77
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.76
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.75
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.75
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.75
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.74
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.74
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.72
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.7
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.7
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.7
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.69
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.69
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.67
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.66
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.64
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.64
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.64
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.64
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.63
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.63
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.6
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.59
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.59
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.59
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.58
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.58
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.55
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.52
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.49
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.48
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.48
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.48
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.42
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.41
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.41
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.37
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.35
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.35
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.34
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.34
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.33
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.32
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.32
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.32
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.31
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.29
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.29
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.27
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.26
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.25
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.25
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.25
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.25
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.24
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.23
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.23
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.22
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.2
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.19
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.19
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.17
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.15
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.1
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.08
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.07
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.07
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.07
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.07
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.06
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.04
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.04
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.01
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.0
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.0
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.0
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.0
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.99
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.98
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.98
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.97
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.96
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.94
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.94
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.94
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.93
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.92
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.92
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.91
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.9
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.89
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.88
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.88
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.87
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.86
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.86
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.85
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.85
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.85
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.84
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.83
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.78
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.77
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.76
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.75
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.75
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.75
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.74
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.72
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.71
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.7
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.69
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.67
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.67
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.65
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.65
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.64
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.64
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.63
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.63
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.57
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.55
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.55
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.53
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.51
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.5
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.49
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.48
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.47
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.46
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.44
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.41
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.35
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.35
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.34
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.31
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.29
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.27
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.25
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.22
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.19
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.18
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.17
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.16
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.15
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.1
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.07
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.04
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.02
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.01
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.0
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.91
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.83
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.78
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.58
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.54
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.46
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.39
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.35
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.35
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.31
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.22
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.2
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.17
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.13
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.12
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.05
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.02
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.0
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.93
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.87
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.79
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.78
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.48
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.34
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.33
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.21
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.17
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.93
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.78
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.77
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.56
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.06
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.95
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.81
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.66
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.62
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.6
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.43
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.39
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.21
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.05
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.72
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.29
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	92.42
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.31
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.07
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.79
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.3
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.24
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.9
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.72
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.61
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	88.83
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	88.75
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	88.33
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.22
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	88.09
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	86.37
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.94
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.68
2p58_C	116	Putative type III secretion protein YSCG; type III	84.01
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	82.31
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	82.11
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	82.11
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	82.07
2p58_C	116	Putative type III secretion protein YSCG; type III	81.6

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

Probab=100.00  E-value=9.4e-36  Score=251.75  Aligned_cols=203  Identities=16%  Similarity=0.216  Sum_probs=178.8

Q ss_pred             HHHhhhhhCCCCCCHH-HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc---------hHHHHH
Q 020202            3 KTIELMKPYNLSVSPQ-TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK---------LFHGAY   72 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---------~~~~a~   72 (329)
                      .+.+.+++.+...++. .++.+|+.|++.|++++|.++|++|.+.|++||..+||+||.+|++.+         .++.|.
T Consensus        11 ~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~   90 (501)
T 4g26_A           11 NLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGF   90 (501)
T ss_dssp             -------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHH
T ss_pred             HHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHH
Confidence            3556777788777765 588899999999999999999999999999999999999999998654         478899


Q ss_pred             HHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 020202           73 ALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      ++|++|...|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|
T Consensus        91 ~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G  170 (501)
T 4g26_A           91 DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESE  170 (501)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc
Q 020202          153 FVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA  205 (329)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  205 (329)
                      +.||..+|++++.+|++.|++++|.+++++|.+.+..|+..||+.++..|+..
T Consensus       171 ~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          171 VVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             CCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999988753

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

Probab=100.00  E-value=2.3e-35  Score=249.39  Aligned_cols=207  Identities=14%  Similarity=0.112  Sum_probs=182.5

Q ss_pred             hHHHHHHHHhhhcCCCccH-HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc---------h
Q 020202           34 DNAVEVFNKCTAFNCQQCV-LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK---------M  103 (329)
Q Consensus        34 ~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~  103 (329)
                      ..+..+.+.+.+.+..+.+ ..++.+|.+|++.|++++|+++|++|.+.|+.||..||+.||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3455666677766665544 35889999999999999999999999999999999999999999987664         6


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSV  183 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  183 (329)
                      +.|.++|++|...|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 020202          184 CKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR  240 (329)
Q Consensus       184 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  240 (329)
                      .+.|+.||..||+.||.+|++.|+.++|.+++++|.+.+..|+..||+.++..|+..
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999999998764

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

Probab=100.00  E-value=6.6e-32  Score=236.41  Aligned_cols=310  Identities=12%  Similarity=0.036  Sum_probs=198.6

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCC-------------------------------------------
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNC-------------------------------------------   48 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------------------------------------------   48 (329)
                      |.++++.+|+.++..|.+.|++++|.++|+++.+.+.                                           
T Consensus       195 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  274 (597)
T 2xpi_A          195 GIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSL  274 (597)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHH
Confidence            3455688899999999999999999999988876541                                           


Q ss_pred             ---------------------------CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           49 ---------------------------QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        49 ---------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                                                 +++..+|+.++..|.+.|++++|.++|+++.+.+.. +..++..++.++.+.|
T Consensus       275 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  353 (597)
T 2xpi_A          275 YMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESG  353 (597)
T ss_dssp             HHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhC
Confidence                                       134444455555555555555555555555544321 4444555555555555


Q ss_pred             chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHH
Q 020202          102 KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYY  181 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  181 (329)
                      ++++|..+++.+.+.. +.+..+++.++.+|.+.|++++|.++|+++.+.... +..+|+.++.+|.+.|++++|.++|+
T Consensus       354 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  431 (597)
T 2xpi_A          354 EKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYT  431 (597)
T ss_dssp             CHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5555555555554332 334556666666666666666776666666654322 45666667777777777777777777


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc----C
Q 020202          182 SVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK----G  257 (329)
Q Consensus       182 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~  257 (329)
                      ++.+.++ .+..+|..++.+|.+.|++++|.++|+++.+... .+..+|+.++..|.+.|++++|.++|+++.+.    +
T Consensus       432 ~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  509 (597)
T 2xpi_A          432 TAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQ  509 (597)
T ss_dssp             HHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccc
Confidence            6665543 4566666777777777777777777777665432 25666777777777777777777777776654    4


Q ss_pred             CCCC--hhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          258 HPPN--RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       258 ~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ..|+  ..+|..++.+|.+.|++++|.++++++.+.+ +.+..+|..+..+|.+.|++++|.+.++.+.+++
T Consensus       510 ~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          510 SNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             CCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            4555  5667777777777777777777777766554 3356677777777777777777777777666654

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

Probab=100.00  E-value=1.6e-32  Score=240.39  Aligned_cols=297  Identities=12%  Similarity=0.002  Sum_probs=263.5

Q ss_pred             HHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202            3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      ++++.+.+.  ++++.++..++..+.+.|++++|.++|+++.+.+ +.+..+++.++.++.+.|++++|.++++++.+..
T Consensus       293 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  369 (597)
T 2xpi_A          293 DYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH  369 (597)
T ss_dssp             HHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC
Confidence            455555544  5899999999999999999999999999999877 6788999999999999999999999999998764


Q ss_pred             CccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHH
Q 020202           83 FVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNS  162 (329)
Q Consensus        83 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  162 (329)
                       +.+..+++.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+. .+..+|..
T Consensus       370 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~  446 (597)
T 2xpi_A          370 -PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLF  446 (597)
T ss_dssp             -TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHH
T ss_pred             -cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHH
Confidence             4478899999999999999999999999998764 45678999999999999999999999999998754 37889999


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC--hhhHHHHHHH
Q 020202          163 LIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED----GHKPF--PSLYAPIIKG  236 (329)
Q Consensus       163 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~  236 (329)
                      ++.+|.+.|++++|.++|+++.+..+ .+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+
T Consensus       447 l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~  525 (597)
T 2xpi_A          447 LGMQHMQLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHA  525 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHH
Confidence            99999999999999999999998754 57889999999999999999999999999876    56777  6799999999


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHH
Q 020202          237 MFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLK  308 (329)
Q Consensus       237 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  308 (329)
                      |.+.|++++|.+.++++.+.+ +.+..+|..+..+|.+.|++++|.+.++++.+.. +-+...+..+..+|.
T Consensus       526 ~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          526 YRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAIS-PNEIMASDLLKRALE  595 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCChHHHHHHHHHHh
Confidence            999999999999999999874 4588999999999999999999999999999864 235667777766553

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1.1e-27  Score=198.72  Aligned_cols=307  Identities=15%  Similarity=0.100  Sum_probs=219.9

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      |.++.+|..+...+.+.|++++|...|+++.+.. |.+..+|..+..++.+.|++++|.+.|+++.+..+. +...+..+
T Consensus        64 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  141 (388)
T 1w3b_A           64 PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDL  141 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHH
T ss_pred             CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            4455566666666666666666666666665554 445555666666666666666666666666654321 33445555


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      ...+...|++++|.+.|+++.+.. +.+..+|..+...+...|++++|...|+++.+.+.. +...+..+...+...|++
T Consensus       142 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~  219 (388)
T 1w3b_A          142 GNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIF  219 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCT
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCH
Confidence            666666666666666666665543 334556666666666777777777777766665432 455666666677777777


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHH
Q 020202          174 EFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEM  253 (329)
Q Consensus       174 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  253 (329)
                      ++|...+++.....+ .+..++..+..++.+.|++++|...|+++.+.+.. +..++..+...+.+.|++++|...++++
T Consensus       220 ~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a  297 (388)
T 1w3b_A          220 DRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTA  297 (388)
T ss_dssp             THHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            777777776666543 35677888888999999999999999998886433 5678888999999999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          254 KIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       254 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      .+. .+.+..++..+...+...|++++|...++++.+.. +.+..++..+..++.+.|++++|.+.++.+.++.+
T Consensus       298 l~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p  370 (388)
T 1w3b_A          298 LRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             Hhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            876 45678889999999999999999999999988753 34577889999999999999999999988877654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=7.8e-27  Score=193.62  Aligned_cols=315  Identities=15%  Similarity=0.057  Sum_probs=273.6

Q ss_pred             HHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC
Q 020202            4 TIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF   83 (329)
Q Consensus         4 ~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (329)
                      .++.+.+.. |.++..+..+...+...|++++|...++...+.. |.+..+|..+...+.+.|++++|.+.|+++.+.. 
T Consensus        21 ~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-   97 (388)
T 1w3b_A           21 HCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-   97 (388)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-
Confidence            344444333 5567788888899999999999999999998876 7889999999999999999999999999999864 


Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHH
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSL  163 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  163 (329)
                      +.+..+|..+..++...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.|+++.+.... +..+|..+
T Consensus        98 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  175 (388)
T 1w3b_A           98 PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNL  175 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            2356689999999999999999999999998875 344566778889999999999999999999987533 67899999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCh
Q 020202          164 IETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQF  243 (329)
Q Consensus       164 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  243 (329)
                      ...+...|++++|...|+++.+.++ .+...+..+...+...|++++|...+++..+..+. +..++..+...+...|++
T Consensus       176 ~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~  253 (388)
T 1w3b_A          176 GCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLI  253 (388)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCH
Confidence            9999999999999999999998764 45778899999999999999999999998876432 578899999999999999


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHH
Q 020202          244 DDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       244 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  323 (329)
                      ++|...|+++.+.+ +.+..++..+..++.+.|++++|...++++.+.. +.+..++..+...+.+.|++++|.+.++.+
T Consensus       254 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  331 (388)
T 1w3b_A          254 DLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKA  331 (388)
T ss_dssp             HHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999999863 3367789999999999999999999999999764 557889999999999999999999999988


Q ss_pred             hhhc
Q 020202          324 VSLR  327 (329)
Q Consensus       324 ~~~~  327 (329)
                      .++.
T Consensus       332 l~~~  335 (388)
T 1w3b_A          332 LEVF  335 (388)
T ss_dssp             TTSC
T ss_pred             HhcC
Confidence            7654

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.96  E-value=4.4e-26  Score=192.75  Aligned_cols=306  Identities=12%  Similarity=0.083  Sum_probs=263.2

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      |.++..+..+...+.+.|++++|..+|+.+.+.. |.+..+|..+..++...|++++|...|+++.+.+. .+..++..+
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l  100 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQR  100 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHH
Confidence            4567889999999999999999999999999876 77899999999999999999999999999998753 367889999


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCc---ccHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCccCHH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPV---RGRDLL------------VQGLLNAGYLESAKQMVNKMIKQGFVLDLE  158 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  158 (329)
                      ..++...|++++|...|+++.+.. +.+.   ..+..+            ...+...|++++|...++++.+.... +..
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~  178 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVW-DAE  178 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChH
Confidence            999999999999999999998865 2333   555555            44488999999999999999987533 788


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH-----
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPI-----  233 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-----  233 (329)
                      ++..+..+|...|++++|.+.|+++.+..+ .+..++..+..+|...|++++|...|+++.+.... +...+..+     
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~  256 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKK  256 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHH
Confidence            899999999999999999999999987643 56789999999999999999999999999875432 34444444     


Q ss_pred             -------HHHHHccCChhHHHHHHHHHHHcCCCCC-----hhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHH
Q 020202          234 -------IKGMFRRGQFDDAFCFFSEMKIKGHPPN-----RPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFD  301 (329)
Q Consensus       234 -------~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  301 (329)
                             ...+...|++++|...|+++...  .|+     ...+..+..++.+.|++++|...++++.+.. +.+...|.
T Consensus       257 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~  333 (450)
T 2y4t_A          257 LNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALK  333 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHH
Confidence                   78899999999999999999885  344     3478888999999999999999999998754 34688999


Q ss_pred             HHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          302 LVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       302 ~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      .+..+|...|++++|.+.++...++.+
T Consensus       334 ~l~~~~~~~~~~~~A~~~~~~al~~~p  360 (450)
T 2y4t_A          334 DRAEAYLIEEMYDEAIQDYETAQEHNE  360 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTSS
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCc
Confidence            999999999999999999999887653

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

Probab=99.95  E-value=3.6e-23  Score=169.43  Aligned_cols=305  Identities=11%  Similarity=0.065  Sum_probs=257.6

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ++..+..+...+...|++++|...|+.+.+.. |.+..++..+..++...|++++|...++++.+... .+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKM-DFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CcchHHHHHHH
Confidence            56778889999999999999999999999876 77889999999999999999999999999998743 36688999999


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCC---CCcccHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCccCHHhH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFN---PPVRGRDLL------------VQGLLNAGYLESAKQMVNKMIKQGFVLDLETF  160 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  160 (329)
                      ++...|++++|...++...+.. +   .+...+..+            ...+...|++++|.+.++++.+.... +...+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  157 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DAELR  157 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-chHHH
Confidence            9999999999999999998864 2   244445444            57889999999999999999987543 77889


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHH---------
Q 020202          161 NSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYA---------  231 (329)
Q Consensus       161 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---------  231 (329)
                      ..+..++...|++++|...+++..+..+ .+..++..+...+...|++++|...+++..+.... +...+.         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~  235 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHH
Confidence            9999999999999999999999988754 56788999999999999999999999999876432 333332         


Q ss_pred             ---HHHHHHHccCChhHHHHHHHHHHHcCCCCCh----hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHH
Q 020202          232 ---PIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR----PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVT  304 (329)
Q Consensus       232 ---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  304 (329)
                         .+...+...|++++|...++++...... +.    ..+..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~  313 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRA  313 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence               2366789999999999999999886322 33    234557788999999999999999998764 34688999999


Q ss_pred             HHHHhCCchhHHHHHHHHHhhhcc
Q 020202          305 DGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       305 ~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      .++.+.|++++|.+.++...++.+
T Consensus       314 ~~~~~~g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC
Confidence            999999999999999999887754

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.94  E-value=1.6e-23  Score=176.99  Aligned_cols=293  Identities=12%  Similarity=0.021  Sum_probs=244.5

Q ss_pred             hHHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202            2 WKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus         2 ~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      .++|+.+.+.. +.++..+..+..++...|++++|...|+.+.+.+ |.+..++..+..++.+.|++++|.+.|+++.+.
T Consensus        46 ~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  123 (450)
T 2y4t_A           46 LSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKS  123 (450)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34556665543 5678999999999999999999999999999887 778999999999999999999999999999876


Q ss_pred             CCccCh---HHHHHH------------HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHH
Q 020202           82 GFVPDK---RTYAIL------------VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVN  146 (329)
Q Consensus        82 ~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  146 (329)
                      ... +.   ..+..+            ...+...|++++|...++.+.+.. +.+...+..+..+|.+.|++++|.+.++
T Consensus       124 ~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  201 (450)
T 2y4t_A          124 NPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLK  201 (450)
T ss_dssp             CCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHH
T ss_pred             CCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            422 33   455555            445889999999999999998865 5677889999999999999999999999


Q ss_pred             HHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHH------------HHHHHhcCCHHHHHHH
Q 020202          147 KMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKIL------------IPAVSKAGMIDEAFRL  214 (329)
Q Consensus       147 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~  214 (329)
                      ++.+... .+..++..+..++...|++++|...|+++....+ .+...+..+            ...+.+.|++++|...
T Consensus       202 ~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  279 (450)
T 2y4t_A          202 AASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSK  279 (450)
T ss_dssp             HHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9988743 3788999999999999999999999999987643 334444444            7889999999999999


Q ss_pred             HHHHHhCCCCCC----hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          215 LHNLVEDGHKPF----PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       215 ~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      |+++.+.... +    ...+..+...+.+.|++++|...++++.... +.+...|..+..+|...|++++|...++++.+
T Consensus       280 ~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          280 YESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            9999875322 2    3478889999999999999999999998763 44788999999999999999999999999987


Q ss_pred             CCCCCC-hhhHHHHH
Q 020202          291 MGLTPI-SRCFDLVT  304 (329)
Q Consensus       291 ~~~~p~-~~~~~~l~  304 (329)
                      ..  |+ ...+..+.
T Consensus       358 ~~--p~~~~~~~~l~  370 (450)
T 2y4t_A          358 HN--ENDQQIREGLE  370 (450)
T ss_dssp             TS--SSCHHHHHHHH
T ss_pred             hC--cchHHHHHHHH
Confidence            53  44 55666665

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

Probab=99.93  E-value=3.4e-23  Score=177.87  Aligned_cols=316  Identities=11%  Similarity=-0.017  Sum_probs=174.4

Q ss_pred             HHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202            3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      +.++.+.+.+  |++..+..+..++.+.|++++|...++.+.+.+ |.+..++..+..++...|++++|...|+++...+
T Consensus        27 ~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  103 (514)
T 2gw1_A           27 KYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNG  103 (514)
T ss_dssp             HHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            4555565554  688888888888888899999999998888876 6777888888888888888888888888776554


Q ss_pred             Ccc-----------------------------------------------------------------------------
Q 020202           83 FVP-----------------------------------------------------------------------------   85 (329)
Q Consensus        83 ~~~-----------------------------------------------------------------------------   85 (329)
                      ...                                                                             
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (514)
T 2gw1_A          104 DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDES  183 (514)
T ss_dssp             SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSS
T ss_pred             CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCC
Confidence            210                                                                             


Q ss_pred             -ChHHHHHHHHHHHh---cCchhHHHHHHHHHHh-----CCC--------CCCcccHHHHHHHHHhcCChHHHHHHHHHH
Q 020202           86 -DKRTYAILVNAWCS---SGKMREAQEFLQEMSD-----KGF--------NPPVRGRDLLVQGLLNAGYLESAKQMVNKM  148 (329)
Q Consensus        86 -~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  148 (329)
                       +...+......+..   .|++++|...++++.+     ..-        +.+..++..+...+...|++++|...++++
T Consensus       184 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  263 (514)
T 2gw1_A          184 NEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKA  263 (514)
T ss_dssp             CHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             01112222222222   5666666666666655     210        112344555556666666666666666665


Q ss_pred             HHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHH--------------------------
Q 020202          149 IKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAV--------------------------  202 (329)
Q Consensus       149 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--------------------------  202 (329)
                      .+....  ...+..+..++...|++++|...++++....+ .+...+..+...+                          
T Consensus       264 l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  340 (514)
T 2gw1_A          264 IELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFP  340 (514)
T ss_dssp             HHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHH
T ss_pred             HhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHH
Confidence            554322  44445555555555555555555555444322 2333444444444                          


Q ss_pred             --------HhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC-CC----hhhHHHHH
Q 020202          203 --------SKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHP-PN----RPVYTMLI  269 (329)
Q Consensus       203 --------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~  269 (329)
                              ...|++++|...++++.+... .+...+..+...+...|++++|...++++...... ++    ...+..+.
T Consensus       341 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  419 (514)
T 2gw1_A          341 YIQLACLAYRENKFDDCETLFSEAKRKFP-EAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKA  419 (514)
T ss_dssp             HHHHHHHTTTTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHcc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHH
Confidence                    444555555555544443321 13344444555555555555555555554432110 01    11455555


Q ss_pred             HHHhc---cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          270 TMCGR---GGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       270 ~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      .++..   .|++++|...++.+.+.. +.+...+..+..++.+.|++++|.+.++...++
T Consensus       420 ~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          420 TLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            55555   555555555555555432 223445555555555555555555555554443

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

Probab=99.93  E-value=1.1e-22  Score=164.75  Aligned_cols=296  Identities=8%  Similarity=0.009  Sum_probs=251.4

Q ss_pred             CCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHH
Q 020202           12 NLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYA   91 (329)
Q Consensus        12 g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (329)
                      +.+.++..+..+...+...|++++|.++|+.+.+.+ |.+...+..++.++...|++++|...++++.+... .+...+.
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~   94 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWF   94 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHH
Confidence            345677888899999999999999999999999876 77778888889999999999999999999998753 3677899


Q ss_pred             HHHHHHHhcC-chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc
Q 020202           92 ILVNAWCSSG-KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS  170 (329)
Q Consensus        92 ~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (329)
                      .+...+...| ++++|...+++..+.. +.+...+..+...+...|++++|...++++.+.... +...+..+...+...
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHH
Confidence            9999999999 9999999999998875 456788999999999999999999999999987543 567778899999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------CCCChhhHHHHHHHHHccCC
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG--------HKPFPSLYAPIIKGMFRRGQ  242 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~  242 (329)
                      |++++|...+++..+..+ .+...+..+...+...|++++|...++++.+..        ...+..++..+...+...|+
T Consensus       173 ~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          173 NNSKLAERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             TCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            999999999999988754 567889999999999999999999999987641        13345688999999999999


Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHH-HhCCchh
Q 020202          243 FDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGL-KNCGKHD  314 (329)
Q Consensus       243 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~~~  314 (329)
                      +++|...+++..+.. +.+...+..+..++...|++++|.+.+++..+.. +.+...+..+..++ ...|+.+
T Consensus       252 ~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          252 YAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            999999999998873 3467889999999999999999999999988654 33577888888888 4556544

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

Probab=99.92  E-value=5.7e-22  Score=170.25  Aligned_cols=302  Identities=14%  Similarity=0.040  Sum_probs=254.6

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      ...+......+.+.|++++|+..|+++.+.+  |+..+|..+..++.+.|++++|...++++.+.++ .+..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHH
Confidence            4567788899999999999999999999876  6899999999999999999999999999998753 367889999999


Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCc------------------------------------------------------
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPV------------------------------------------------------  122 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~------------------------------------------------------  122 (329)
                      +...|++++|...|+.+...+ +++.                                                      
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSV  161 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCH
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchh
Confidence            999999999999999997765 2221                                                      


Q ss_pred             -------------------------ccHHHHHHHHHh---cCChHHHHHHHHHHHH-----cCC--------ccCHHhHH
Q 020202          123 -------------------------RGRDLLVQGLLN---AGYLESAKQMVNKMIK-----QGF--------VLDLETFN  161 (329)
Q Consensus       123 -------------------------~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~  161 (329)
                                               ..+......+..   .|++++|...++++.+     ...        +.+..++.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          162 TSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                                     122222233333   7999999999999987     311        22356788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC
Q 020202          162 SLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRG  241 (329)
Q Consensus       162 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  241 (329)
                      .+...+...|++++|...++++.+..+.  ...+..+..++...|++++|...++++.+... .+...+..+...+...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhC
Confidence            8889999999999999999999887654  88899999999999999999999999988643 36778899999999999


Q ss_pred             ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHH
Q 020202          242 QFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEL  321 (329)
Q Consensus       242 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  321 (329)
                      ++++|...++++.... +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|++++|.+.++
T Consensus       319 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~  396 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYD  396 (514)
T ss_dssp             CTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998863 3367788999999999999999999999998754 3357789999999999999999999998


Q ss_pred             HHhhhc
Q 020202          322 LEVSLR  327 (329)
Q Consensus       322 ~~~~~~  327 (329)
                      ......
T Consensus       397 ~a~~~~  402 (514)
T 2gw1_A          397 LAIELE  402 (514)
T ss_dssp             HHHHHH
T ss_pred             HHHHhh
Confidence            876643

>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=99.92  E-value=2.3e-21  Score=167.52  Aligned_cols=318  Identities=14%  Similarity=0.019  Sum_probs=230.4

Q ss_pred             hHHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202            2 WKTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus         2 ~~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      .+.++.+.+.. |.++..+..+..++.+.|++++|.+.|+++.+.+ |.+..++..+..++...|++++|...|+.+...
T Consensus        45 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  122 (537)
T 3fp2_A           45 IKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVLSLN  122 (537)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC--
T ss_pred             HHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcC
Confidence            34555555544 5578888899999999999999999999988876 677888888888888888888888776422100


Q ss_pred             --------------------------------------------------------------------------------
Q 020202           82 --------------------------------------------------------------------------------   81 (329)
Q Consensus        82 --------------------------------------------------------------------------------   81 (329)
                                                                                                      
T Consensus       123 ~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  202 (537)
T 3fp2_A          123 GDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQR  202 (537)
T ss_dssp             ---------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHH
Confidence                                                                                            


Q ss_pred             ---------------------------CCccC--------hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHH
Q 020202           82 ---------------------------GFVPD--------KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRD  126 (329)
Q Consensus        82 ---------------------------~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  126 (329)
                                                 ...|+        ..++..+...+...|++++|...++...+..  |+...+.
T Consensus       203 ~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~  280 (537)
T 3fp2_A          203 LYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYI  280 (537)
T ss_dssp             HHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHH
T ss_pred             HHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHH
Confidence                                       01111        1134445556667777788888888777654  4566777


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAG  206 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  206 (329)
                      .+...+...|++++|...++++.+.... +..++..+...+...|++++|...+++..+..+ .+...+..+..++...|
T Consensus       281 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g  358 (537)
T 3fp2_A          281 FLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQG  358 (537)
T ss_dssp             HHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcC
Confidence            7777788888888888888887776433 567778888888888888888888888877653 34567777888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-----CCChhhHHHHHHHHhcc------
Q 020202          207 MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-----PPNRPVYTMLITMCGRG------  275 (329)
Q Consensus       207 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~------  275 (329)
                      ++++|...++++.+... .+...+..+...+...|++++|...++++.+...     ......+.....++...      
T Consensus       359 ~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  437 (537)
T 3fp2_A          359 KFTESEAFFNETKLKFP-TLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPT  437 (537)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC---
T ss_pred             CHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccch
Confidence            88888888888776643 2556777788888888888888888888765421     11112233444566666      


Q ss_pred             ----CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          276 ----GRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       276 ----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                          |++++|...+++..+.. +.+...+..+..++.+.|++++|.+.++...++.
T Consensus       438 ~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          438 QLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence                88888888888887654 3457788889999999999999999988877764

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

Probab=99.92  E-value=1.1e-21  Score=158.91  Aligned_cols=274  Identities=13%  Similarity=0.039  Sum_probs=236.4

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      +.+...+..+...+...|++++|.++|+++.+... .+...+..++.++...|++++|..+++++.+.. +.+...+..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            56677888899999999999999999999998753 355677778889999999999999999998865 5567889999


Q ss_pred             HHHHHhcC-ChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 020202          129 VQGLLNAG-YLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM  207 (329)
Q Consensus       129 ~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  207 (329)
                      ...+...| ++++|.+.+++..+.... +...+..+...+...|++++|...+++..+..+ .+...+..+...+...|+
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhh
Confidence            99999999 999999999999987533 677899999999999999999999999988754 346677779999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC--------CCCChhhHHHHHHHHhccCCHH
Q 020202          208 IDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG--------HPPNRPVYTMLITMCGRGGRFV  279 (329)
Q Consensus       208 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~  279 (329)
                      +++|...++++.+... .+...+..+...+...|++++|...++++....        .+.+..++..+..++...|+++
T Consensus       175 ~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          175 SKLAERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            9999999999988753 367889999999999999999999999988652        1344678999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          280 EAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       280 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      +|...+++..+.. +.+...+..+..++.+.|++++|.+.++...++.+
T Consensus       254 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  301 (330)
T 3hym_B          254 EALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRR  301 (330)
T ss_dssp             HHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCS
T ss_pred             HHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCC
Confidence            9999999998764 34678899999999999999999999998877653

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

Probab=99.91  E-value=8.6e-21  Score=155.24  Aligned_cols=299  Identities=11%  Similarity=0.015  Sum_probs=243.3

Q ss_pred             HHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202            3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      +.++...+.. |.++..+..+...+...|++++|...|+.+.+.. |.+...+..+...+...|++++|...|++..+..
T Consensus        24 ~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  101 (359)
T 3ieg_A           24 SQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN  101 (359)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            4455555543 4578899999999999999999999999999876 6688999999999999999999999999998764


Q ss_pred             Cc--cChHHHHHH------------HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHH
Q 020202           83 FV--PDKRTYAIL------------VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKM  148 (329)
Q Consensus        83 ~~--~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  148 (329)
                      ..  .+...+..+            ...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++
T Consensus       102 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  180 (359)
T 3ieg_A          102 PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAA  180 (359)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            30  244445444            578899999999999999998875 567788999999999999999999999999


Q ss_pred             HHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHH------------HHHHHHHhcCCHHHHHHHHH
Q 020202          149 IKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYK------------ILIPAVSKAGMIDEAFRLLH  216 (329)
Q Consensus       149 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~  216 (329)
                      .+... .+..++..+...+...|++++|...+++..+..+ .+...+.            .+...+.+.|++++|...++
T Consensus       181 ~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~  258 (359)
T 3ieg_A          181 SKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYE  258 (359)
T ss_dssp             HTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            98753 3788999999999999999999999999987654 2333332            23667889999999999999


Q ss_pred             HHHhCCCCCCh----hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          217 NLVEDGHKPFP----SLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       217 ~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      ++.+.... +.    ..+..+...+...|++++|...+++..+. .+.+..++..+..++...|++++|...+++..+..
T Consensus       259 ~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          259 SVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            99876433 22    23556778999999999999999999886 34478899999999999999999999999999764


Q ss_pred             CCCChhhHHHHHHHHHh
Q 020202          293 LTPISRCFDLVTDGLKN  309 (329)
Q Consensus       293 ~~p~~~~~~~l~~~~~~  309 (329)
                       +-+...+..+..+...
T Consensus       337 -p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          337 -ENDQQIREGLEKAQRL  352 (359)
T ss_dssp             -TTCHHHHHHHHHHHHH
T ss_pred             -CCChHHHHHHHHHHHH
Confidence             2235566666555443

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

Probab=99.91  E-value=7.7e-22  Score=162.28  Aligned_cols=292  Identities=11%  Similarity=0.014  Sum_probs=231.2

Q ss_pred             HHccCchhHHHH-HHHHhhhcCC---CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc
Q 020202           27 FGKHGLVDNAVE-VFNKCTAFNC---QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK  102 (329)
Q Consensus        27 ~~~~~~~~~a~~-~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (329)
                      +.-.|++++|.+ .|++......   ..+...+..+...+...|++++|...|+++.+.. +.+..++..+..++...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            334578888888 8887664431   1135668889999999999999999999999875 3477889999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHH---------------HHHHH
Q 020202          103 MREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNS---------------LIETI  167 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~  167 (329)
                      +++|...++++.+.. +.+..++..+..++...|++++|...++++.+.... +...+..               .+..+
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSL  191 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHH
Confidence            999999999998875 557888999999999999999999999999987533 2222221               23334


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHH
Q 020202          168 CKSGEVEFCVEMYYSVCKLGLCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDA  246 (329)
Q Consensus       168 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  246 (329)
                      ...|++++|...++++.+..+.. +..++..+...+...|++++|...++++.+... .+..++..+...+...|++++|
T Consensus       192 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHcCCHHHH
Confidence            48899999999999998865432 578899999999999999999999999987643 3578899999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC----------ChhhHHHHHHHHHhCCchhHH
Q 020202          247 FCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTP----------ISRCFDLVTDGLKNCGKHDLA  316 (329)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p----------~~~~~~~l~~~~~~~g~~~~a  316 (329)
                      ...++++.... +.+...+..+..++.+.|++++|...++++.+.....          ...+|..+..++.+.|++++|
T Consensus       271 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  349 (368)
T 1fch_A          271 VAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  349 (368)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhH
Confidence            99999998863 4467889999999999999999999999988532111          267899999999999999999


Q ss_pred             HHHHHHH
Q 020202          317 EKIELLE  323 (329)
Q Consensus       317 ~~~~~~~  323 (329)
                      ..+++..
T Consensus       350 ~~~~~~~  356 (368)
T 1fch_A          350 GAADARD  356 (368)
T ss_dssp             HHHHTTC
T ss_pred             HHhHHHH
Confidence            9987643

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

Probab=99.90  E-value=2.6e-21  Score=159.06  Aligned_cols=268  Identities=12%  Similarity=-0.010  Sum_probs=177.8

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      +...+..+...+.+.|++++|...|+++.+... .+..++..+..++...|++++|...|+++.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            345566677777777777777777777776542 356667777777777777777777777776654 344666777777


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCcc---------CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-chhhHHHHHH
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVL---------DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCA-DVSTYKILIP  200 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~  200 (329)
                      +|...|++++|...++++.+.....         ....+..+...+...|++++|...++++.+..+.. +..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            7777777777777777776653110         11222334667777788888888888777664321 5667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHH
Q 020202          201 AVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVE  280 (329)
Q Consensus       201 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  280 (329)
                      .+...|++++|...++++.+... .+..++..+..+|...|++++|...|+++.+.. +.+..++..+..+|...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVRP-EDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            78888888888888887776543 256677778888888888888888888777652 3356777777788888888888


Q ss_pred             HHHHHHHHHhCCCC-----------CChhhHHHHHHHHHhCCchhHHHHHHHH
Q 020202          281 AANYLVEMTEMGLT-----------PISRCFDLVTDGLKNCGKHDLAEKIELL  322 (329)
Q Consensus       281 a~~~~~~~~~~~~~-----------p~~~~~~~l~~~~~~~g~~~~a~~~~~~  322 (329)
                      |...++++.+....           .+...|..+..++...|+.+.+.++.+.
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            88888777642211           1356778888888888888887776554

>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=99.90  E-value=1.3e-20  Score=162.70  Aligned_cols=304  Identities=14%  Similarity=0.104  Sum_probs=244.7

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ....+..+...+.+.|++++|+..|+++.+.+ |.+..+|..+..++.+.|++++|.+.|+++.+.+. .+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHH
Confidence            35678888999999999999999999999887 78899999999999999999999999999998753 37788999999


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCC------------------------------------CCcc----------------
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFN------------------------------------PPVR----------------  123 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~------------------------------------~~~~----------------  123 (329)
                      ++...|++++|...|+.+....-.                                    |+..                
T Consensus       102 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence            999999999999999644211100                                    0000                


Q ss_pred             --------------cHHHHHHHHH--------hcCChHHHHHHHHHHHHcCCccCH-------HhHHHHHHHHHccCCHH
Q 020202          124 --------------GRDLLVQGLL--------NAGYLESAKQMVNKMIKQGFVLDL-------ETFNSLIETICKSGEVE  174 (329)
Q Consensus       124 --------------~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~  174 (329)
                                    ....+...+.        ..|++++|..+++++.+.... +.       .++..+...+...|+++
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHH
Confidence                          1111111111        124788999999998876432 22       34667778888999999


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       175 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      +|...+++..+..  |+...+..+...+...|++++|...++++.+.... +..++..+...+...|++++|...++++.
T Consensus       261 ~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  337 (537)
T 3fp2_A          261 DAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQ  337 (537)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999998865  45788889999999999999999999999876533 67889999999999999999999999998


Q ss_pred             HcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          255 IKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ... +.+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++...++.
T Consensus       338 ~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          338 SLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            873 3356789999999999999999999999998764 3457789999999999999999999998876653

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

Probab=99.90  E-value=8.5e-22  Score=161.94  Aligned_cols=265  Identities=11%  Similarity=0.010  Sum_probs=219.8

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      +...+..+...+.+.|++++|...|+.+.+.. |.+..+|..+...+...|++++|...|+++.+... .+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            44568889999999999999999999999877 77899999999999999999999999999998753 36789999999


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHH----------HHHHHHhcCChHHHHHHHHHHHHcCCc-cCHHhHHHHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDL----------LVQGLLNAGYLESAKQMVNKMIKQGFV-LDLETFNSLI  164 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~  164 (329)
                      ++...|++++|...++++.+.. +.+...+..          +...+...|++++|...++++.+.... ++..++..+.
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            9999999999999999998764 223334433          377889999999999999999987433 1678999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChh
Q 020202          165 ETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFD  244 (329)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  244 (329)
                      ..+...|++++|.+.+++..+..+ .+..++..+..+|...|++++|...|+++.+.... +..++..+..+|...|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRP-EDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCHH
Confidence            999999999999999999988754 56789999999999999999999999999886432 5788999999999999999


Q ss_pred             HHHHHHHHHHHcCCC-----------CChhhHHHHHHHHhccCCHHHHHHHH
Q 020202          245 DAFCFFSEMKIKGHP-----------PNRPVYTMLITMCGRGGRFVEAANYL  285 (329)
Q Consensus       245 ~a~~~~~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~  285 (329)
                      +|...|+++.+....           .+...|..+..++...|+.+.+.++.
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  350 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAAN  350 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            999999999875211           13577888999999999988777653

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

Probab=99.90  E-value=1.1e-20  Score=155.45  Aligned_cols=267  Identities=13%  Similarity=0.038  Sum_probs=226.5

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      +...+..+...+.+.|++++|...|+.+.+.. |.+..++..+..++...|++++|...|+++.+... .+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            35668889999999999999999999999886 77899999999999999999999999999998753 37889999999


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHH---------------HHHHHHhcCChHHHHHHHHHHHHcCCcc-CHHh
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDL---------------LVQGLLNAGYLESAKQMVNKMIKQGFVL-DLET  159 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~  159 (329)
                      ++...|++++|...++++.... +.+...+..               .+..+...|++++|...++++.+..... +..+
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~  219 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDV  219 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHH
Confidence            9999999999999999998865 233333321               2334448999999999999998874332 5788


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc
Q 020202          160 FNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR  239 (329)
Q Consensus       160 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  239 (329)
                      +..+...+...|++++|...+++.....+ .+..++..+...+...|++++|...++++.+... .+...+..+...+..
T Consensus       220 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~  297 (368)
T 1fch_A          220 QCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNLGISCIN  297 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHH
Confidence            99999999999999999999999988654 4578899999999999999999999999987643 367889999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCC----------CChhhHHHHHHHHhccCCHHHHHHHHHH
Q 020202          240 RGQFDDAFCFFSEMKIKGHP----------PNRPVYTMLITMCGRGGRFVEAANYLVE  287 (329)
Q Consensus       240 ~~~~~~a~~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~  287 (329)
                      .|++++|...++++......          ....+|..+..++...|++++|..++++
T Consensus       298 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          298 LGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            99999999999998865211          1267899999999999999999998764

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

Probab=99.89  E-value=1.6e-20  Score=151.72  Aligned_cols=265  Identities=10%  Similarity=-0.049  Sum_probs=157.0

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      +...+..+...+...|++++|..+|+.+.+.. |.+..++..+..++...|++++|.+.++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            34556777888888899999999998888766 6678888888888888899999999988888764 336677888888


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH--------------HH-HHHhcCChHHHHHHHHHHHHcCCccCHHhH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL--------------VQ-GLLNAGYLESAKQMVNKMIKQGFVLDLETF  160 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  160 (329)
                      .+...|++++|.+.++++.+.. +.+...+..+              .. .+...|++++|.+.++++.+.... +...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHH
Confidence            8888888888888888887764 2233333333              11 244455555555555555554322 44455


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 020202          161 NSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR  240 (329)
Q Consensus       161 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  240 (329)
                      ..+...+...|++++|...++++.+..+ .+..++..+...+...|++++|...++++.+... .+...+..+...+...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDINP-GYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHh
Confidence            5555555555555555555555554432 2344455555555555555555555555444321 1344444455555555


Q ss_pred             CChhHHHHHHHHHHHcCCCC-----------ChhhHHHHHHHHhccCCHHHHHHHHH
Q 020202          241 GQFDDAFCFFSEMKIKGHPP-----------NRPVYTMLITMCGRGGRFVEAANYLV  286 (329)
Q Consensus       241 ~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~  286 (329)
                      |++++|...++++.......           +...+..+..++...|++++|..+++
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  310 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYA  310 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            55555555555544331110           23344444445555555555544443

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

Probab=99.89  E-value=1.6e-20  Score=151.77  Aligned_cols=268  Identities=12%  Similarity=-0.025  Sum_probs=224.1

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      +...+..+...+...|++++|..+|+++.+... .+...+..+..++...|++++|...++++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            455677888899999999999999999998753 377888999999999999999999999998875 556788999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHH--------------HH-HHHccCCHHHHHHHHHHHHHcCCCCchhhH
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSL--------------IE-TICKSGEVEFCVEMYYSVCKLGLCADVSTY  195 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  195 (329)
                      .+...|++++|.+.++++.+.... +...+..+              .. .+...|++++|...++++.+..+ .+...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHH
Confidence            999999999999999999987433 33333333              22 37788999999999999988754 467889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc
Q 020202          196 KILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRG  275 (329)
Q Consensus       196 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (329)
                      ..+...+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+.. +.+...+..+..++...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999987643 367889999999999999999999999998763 44678899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCC-----------ChhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          276 GRFVEAANYLVEMTEMGLTP-----------ISRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       276 ~~~~~a~~~~~~~~~~~~~p-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      |++++|.+.++++.+.....           +...+..+..++.+.|++++|.++++...
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            99999999999988654221           47789999999999999999998876443

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

Probab=99.86  E-value=4.9e-19  Score=140.28  Aligned_cols=276  Identities=9%  Similarity=0.068  Sum_probs=214.2

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      ++.....|+++.|+..++........+.......+.++|...|+++.|+..++.    .-+|+..++..+...+...++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcH
Confidence            455667899999999998876654112234667788999999999999987754    2356778888999999999999


Q ss_pred             hHHHHHHHHHHhCCCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          104 REAQEFLQEMSDKGFNP-PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      ++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++|.+.+++
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999998776434 556677778999999999999999987      35778899999999999999999999999


Q ss_pred             HHHcCCCCchhhH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC
Q 020202          183 VCKLGLCADVSTY---KILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHP  259 (329)
Q Consensus       183 ~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  259 (329)
                      +.+..  |+....   ...+..+...|++++|..+|+++.+.. +.+...++.+..++...|++++|...++++.... +
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            98865  443211   223344445689999999999998874 4578889999999999999999999999998873 4


Q ss_pred             CChhhHHHHHHHHhccCCHHH-HHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHH
Q 020202          260 PNRPVYTMLITMCGRGGRFVE-AANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEK  318 (329)
Q Consensus       260 ~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  318 (329)
                      .+..++..++..+...|+.++ +.++++++.+..  |+...   +.+...+.+.++++..
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~--P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH--RSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--TTCHH---HHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC--CCChH---HHHHHHHHHHHHHHHH
Confidence            477889999999999999876 578988888654  44322   2334555566666543

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

Probab=99.85  E-value=6.4e-19  Score=139.62  Aligned_cols=256  Identities=10%  Similarity=0.060  Sum_probs=206.3

Q ss_pred             HHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 020202           59 LFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL  138 (329)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  138 (329)
                      ++.....|+++.|+..++........+.......+.++|...|+++.|+..++.   . -+|+..++..+...+...|+.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcH
Confidence            455667899999999988765433222234556778999999999999986644   2 356777888899999999999


Q ss_pred             HHHHHHHHHHHHcCCcc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          139 ESAKQMVNKMIKQGFVL-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       139 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      ++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++|.+.+++
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999998876544 566677778999999999999999987      36778899999999999999999999999


Q ss_pred             HHhCCCCCChhhH---HHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC
Q 020202          218 LVEDGHKPFPSLY---APIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLT  294 (329)
Q Consensus       218 ~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  294 (329)
                      +.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...+++..+.. +
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            98864  443211   12334445568999999999999987 56688899999999999999999999999998765 3


Q ss_pred             CChhhHHHHHHHHHhCCchhH-HHHHHHHHhhhcc
Q 020202          295 PISRCFDLVTDGLKNCGKHDL-AEKIELLEVSLRS  328 (329)
Q Consensus       295 p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~  328 (329)
                      -+..++..++..+...|+.++ +.++++...++.+
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            468889999999999999976 5688887776653

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

Probab=99.84  E-value=1.2e-20  Score=165.45  Aligned_cols=150  Identities=12%  Similarity=0.117  Sum_probs=99.3

Q ss_pred             HHhHHHHHHHHHccCCHHHHHHHHHHHH---HcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHH
Q 020202          157 LETFNSLIETICKSGEVEFCVEMYYSVC---KLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPI  233 (329)
Q Consensus       157 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  233 (329)
                      ..+|+++|.+|++.|++++|.++|.+|.   ..|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4567777777777777777777776654   3466777777777777777777777777777777777777777777777


Q ss_pred             HHHHHccCCh-hHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC------hhhHHHHHHH
Q 020202          234 IKGMFRRGQF-DDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI------SRCFDLVTDG  306 (329)
Q Consensus       234 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~------~~~~~~l~~~  306 (329)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+.    .+++.++++ ..++.|+      ..+...|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHHH
Confidence            7777777764 56777777777777777777777776554432    333333333 2233333      4444555555


Q ss_pred             HHhCC
Q 020202          307 LKNCG  311 (329)
Q Consensus       307 ~~~~g  311 (329)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            55544

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

Probab=99.83  E-value=6.8e-20  Score=148.89  Aligned_cols=267  Identities=14%  Similarity=0.122  Sum_probs=135.2

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      +++.+|..++.++.+.|++++|++.|.+      .+|...|..++..+...|++++|...++...+.  .+++.+.+.++
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li  101 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELI  101 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHH
Confidence            4567999999999999999999999965      357779999999999999999999977766653  44677889999


Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHH
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVE  174 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  174 (329)
                      .+|.+.|+++++.++++       .|+..+|..+...|...|++++|...|..+         ..|..++.++.+.|+++
T Consensus       102 ~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq  165 (449)
T 1b89_A          102 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQ  165 (449)
T ss_dssp             -------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHH
T ss_pred             HHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHH
Confidence            99999999999888874       367789999999999999999999999976         47899999999999999


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       175 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      +|.+.+.++      .++.+|..++.+|...|+++.|......     +...+.....++..|.+.|.+++|..+++...
T Consensus       166 ~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          166 AAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999999987      3688999999999999999999555443     22344556678899999999999999999988


Q ss_pred             HcCCCCChhhHHHHHHHHhcc--CCHHHHHHHHHHHHhCCCCC------ChhhHHHHHHHHHhCCchhHHHHH
Q 020202          255 IKGHPPNRPVYTMLITMCGRG--GRFVEAANYLVEMTEMGLTP------ISRCFDLVTDGLKNCGKHDLAEKI  319 (329)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~a~~~  319 (329)
                      ... +-....|+-+..+|++-  ++..+.++.|..  ..+++|      +...|..+...|...++++.|...
T Consensus       235 ~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          235 GLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             TST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Confidence            764 45677788887777653  344444444432  234444      467899999999999999988764

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

Probab=99.83  E-value=1.2e-20  Score=165.33  Aligned_cols=129  Identities=15%  Similarity=0.149  Sum_probs=116.3

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHh---CCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHH
Q 020202          190 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVE---DGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYT  266 (329)
Q Consensus       190 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  266 (329)
                      .-..||+++|.+|++.|++++|..+|++|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            3457999999999999999999999988764   4899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCC-HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHH
Q 020202          267 MLITMCGRGGR-FVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEK  318 (329)
Q Consensus       267 ~l~~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  318 (329)
                      ++|.++++.|+ .++|.++|++|.+.|+.||..+|+.++.+..+.+-++...+
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrk  257 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHK  257 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGG
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHH
Confidence            99999999998 47899999999999999999999988877666554444433

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

Probab=99.82  E-value=2.1e-17  Score=128.75  Aligned_cols=223  Identities=14%  Similarity=0.095  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--cC----hHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV--PD----KRTYA   91 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~   91 (329)
                      ..+..+...+...|++++|...|+.+.+..  .+..++..+..++...|++++|.+.+++..+....  ++    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            445555556666666666666666665554  45555666666666666666666666555543211  01    34455


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccC
Q 020202           92 ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSG  171 (329)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  171 (329)
                      .+..++...|++++|...+++..+..  |+       ...+.+.|++++|...++++...                    
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~--~~-------~~~~~~~~~~~~a~~~~~~~~~~--------------------  134 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEH--RT-------ADILTKLRNAEKELKKAEAEAYV--------------------  134 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CC-------HHHHHHHHHHHHHHHHHHHHHHC--------------------
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--ch-------hHHHHHHhHHHHHHHHHHHHHHc--------------------
Confidence            55555555555555555555555432  22       12333444445555555544443                    


Q ss_pred             CHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHH
Q 020202          172 EVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFS  251 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  251 (329)
                                     .+ .+...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|...++
T Consensus       135 ---------------~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  197 (258)
T 3uq3_A          135 ---------------NP-EKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCN  197 (258)
T ss_dssp             ---------------CH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ---------------Cc-chHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence                           21 22334444444444555555555555544443221 34444445555555555555555555


Q ss_pred             HHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          252 EMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       252 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                      ++.+.. +.+...+..+..++...|++++|...+++..
T Consensus       198 ~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  234 (258)
T 3uq3_A          198 KAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAAR  234 (258)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            554432 2234445555555555555555555555544

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

Probab=99.82  E-value=6.6e-18  Score=128.10  Aligned_cols=198  Identities=15%  Similarity=0.051  Sum_probs=111.6

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      |+++..+..+...+.+.|++++|...|+...+.+ |.+...+..+..++.+.|++++|...|++..+..+. +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            5667777777777788888888888888877766 667777777777888888888888888777766422 55666677


Q ss_pred             HHHHHhc-----------CchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHH
Q 020202           94 VNAWCSS-----------GKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNS  162 (329)
Q Consensus        94 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  162 (329)
                      ..++...           |++++|...+++..+.. |.+...+..+..++...|++++|+..|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7777666           55555555555555443 2234444555555555555555555555555544  34445555


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          163 LIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       163 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      +..++...|++++|...|++..+..+ .+...+..+..++...|++++|...+++
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAP-KDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTC-------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            55555555555555555555544332 2334444444455555555555554444

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.81  E-value=2.4e-15  Score=128.38  Aligned_cols=287  Identities=14%  Similarity=0.023  Sum_probs=155.4

Q ss_pred             CHHHHHHHHHHHHc----cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHHHHcCCccCh
Q 020202           16 SPQTLSLIIEEFGK----HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE----VKLFHGAYALIRRMIRKGFVPDK   87 (329)
Q Consensus        16 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~   87 (329)
                      ++..+..|...|..    .+++++|.+.|++..+.+   +...+..|...|..    .+++++|...|++..+.|   +.
T Consensus        74 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  147 (490)
T 2xm6_A           74 YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RD  147 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            34455555555555    555555555555555433   33444444445544    445555555555554443   23


Q ss_pred             HHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh-----------------------------
Q 020202           88 RTYAILVNAWCS----SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN-----------------------------  134 (329)
Q Consensus        88 ~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----------------------------  134 (329)
                      ..+..+...|..    .+++++|.+.|++..+.+   +...+..+...|..                             
T Consensus       148 ~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~  224 (490)
T 2xm6_A          148 SGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLH  224 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHH
Confidence            334444444443    444555555555444432   23344444444444                             


Q ss_pred             -----------cCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhhHHHHH
Q 020202          135 -----------AGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGLCADVSTYKILI  199 (329)
Q Consensus       135 -----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  199 (329)
                                 .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+.
T Consensus       225 lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg  298 (490)
T 2xm6_A          225 LADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLA  298 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHH
Confidence                       444555555555444432   23334444444444    455555555555554432   233444555


Q ss_pred             HHHHhc-----CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC---ChhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 020202          200 PAVSKA-----GMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRG---QFDDAFCFFSEMKIKGHPPNRPVYTMLITM  271 (329)
Q Consensus       200 ~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  271 (329)
                      ..|...     +++++|...|++..+.+   +...+..+...|...|   ++++|..+|++..+.   .+...+..+...
T Consensus       299 ~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~---~~~~a~~~Lg~~  372 (490)
T 2xm6_A          299 HLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK---GEKAAQFNLGNA  372 (490)
T ss_dssp             HHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC---CCHHHHHHHHHH
Confidence            555554     56666666666665543   3344555555555544   566677777766665   245666666666


Q ss_pred             Hhc----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----CCchhHHHHHHHHHhhh
Q 020202          272 CGR----GGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIELLEVSL  326 (329)
Q Consensus       272 ~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~  326 (329)
                      |..    .+++++|..+|++..+.+   +...+..|...|.+    .+++++|.+.++...+.
T Consensus       373 y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  432 (490)
T 2xm6_A          373 LLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTN  432 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            666    677777777777777654   35566667777766    67777777777766654

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

Probab=99.81  E-value=2.5e-17  Score=128.29  Aligned_cols=226  Identities=13%  Similarity=0.060  Sum_probs=170.4

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc--cC----HHhHH
Q 020202           88 RTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV--LD----LETFN  161 (329)
Q Consensus        88 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  161 (329)
                      ..+..+...+...|++++|...+++..+..  .+...+..+..++...|++++|...+++..+....  ++    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            345555566666666666666666665554  45556666666666666666666666665554211  11    46677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC
Q 020202          162 SLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRG  241 (329)
Q Consensus       162 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  241 (329)
                      .+..++...|++++|...+++.....  |+.       ..+...|++++|...++.+..... .+...+..+...+...|
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVNP-EKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCCH-HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcCc-chHHHHHHHHHHHHHhc
Confidence            77777778888888888888777643  332       346677889999999999888643 25677888999999999


Q ss_pred             ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHH
Q 020202          242 QFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIEL  321 (329)
Q Consensus       242 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  321 (329)
                      ++++|...++++.... +.+..++..+..++...|++++|...+++..+.. +.+...+..+..++.+.|++++|.+.++
T Consensus       154 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999999998873 4478889999999999999999999999998765 3458889999999999999999999999


Q ss_pred             HHhhhc
Q 020202          322 LEVSLR  327 (329)
Q Consensus       322 ~~~~~~  327 (329)
                      ...++.
T Consensus       232 ~a~~~~  237 (258)
T 3uq3_A          232 AARTKD  237 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHhC
Confidence            887765

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=6.6e-15  Score=125.66  Aligned_cols=294  Identities=12%  Similarity=0.047  Sum_probs=210.8

Q ss_pred             HHhhhhhCCCCCCHHHHHHHHHHHHc----cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh----cchHHHHHHHH
Q 020202            4 TIELMKPYNLSVSPQTLSLIIEEFGK----HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE----VKLFHGAYALI   75 (329)
Q Consensus         4 ~~~~m~~~g~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~   75 (329)
                      .+....+.|   ++..+..+...|..    .+++++|...|++..+.|   +...+..|...|..    .+++++|.+.|
T Consensus        29 ~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~  102 (490)
T 2xm6_A           29 QLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWY  102 (490)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            344444444   78888889999988    899999999999998865   67788889999998    89999999999


Q ss_pred             HHHHHcCCccChHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHH
Q 020202           76 RRMIRKGFVPDKRTYAILVNAWCS----SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN----AGYLESAKQMVNK  147 (329)
Q Consensus        76 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~  147 (329)
                      ++..+.|   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|.+.|++
T Consensus       103 ~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  176 (490)
T 2xm6_A          103 KKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSK  176 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            9998875   56677788888888    789999999999998876   56778888888887    7899999999999


Q ss_pred             HHHcCCccCHHhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHH
Q 020202          148 MIKQGFVLDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK----AGMIDEAFRLLHNLV  219 (329)
Q Consensus       148 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  219 (329)
                      ..+.|   +...+..+...|..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|..+|++..
T Consensus       177 a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~  250 (490)
T 2xm6_A          177 AAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSA  250 (490)
T ss_dssp             HHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            98875   67778888888877    788999999998887754   34556666666665    667777777777766


Q ss_pred             hCCCCCChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc-----CCHHHHHHHHHHHHh
Q 020202          220 EDGHKPFPSLYAPIIKGMFR----RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRG-----GRFVEAANYLVEMTE  290 (329)
Q Consensus       220 ~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~  290 (329)
                      +.+   +...+..+...|..    .+++++|..+|++..+.|   +...+..+...|...     +++++|..++++..+
T Consensus       251 ~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~  324 (490)
T 2xm6_A          251 EQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE  324 (490)
T ss_dssp             TTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh
Confidence            653   34445555555555    566666666666665542   334445555555544     566666666665555


Q ss_pred             CCCCCChhhHHHHHHHHHhCC---chhHHHHHHHHHh
Q 020202          291 MGLTPISRCFDLVTDGLKNCG---KHDLAEKIELLEV  324 (329)
Q Consensus       291 ~~~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~  324 (329)
                      .+   +...+..+...|...|   ++++|.+.++...
T Consensus       325 ~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~  358 (490)
T 2xm6_A          325 QG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAA  358 (490)
T ss_dssp             TT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHH
T ss_pred             cC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHH
Confidence            43   2234444444444433   4455555544443

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

Probab=99.80  E-value=2.1e-17  Score=125.38  Aligned_cols=198  Identities=16%  Similarity=0.083  Sum_probs=94.2

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      |++...+..+...+.+.|++++|...|++..+..+ .+...+..+..++.+.|++++|...+++..+.. |.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            45556666666666666666666666666665432 245556666666666666666666666666553 3344555555


Q ss_pred             HHHHHhc-----------CChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHH
Q 020202          129 VQGLLNA-----------GYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKI  197 (329)
Q Consensus       129 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  197 (329)
                      ..++...           |++++|...+++..+..+. +...+..+..++...|++++|...|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            5555555           4555555555444444222 33444444444444444444444444444433  33444444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHH
Q 020202          198 LIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSE  252 (329)
Q Consensus       198 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  252 (329)
                      +..++...|++++|...|++..+..+. +...+..+...+...|++++|...+++
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC-------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            444444444444444444444433211 333344444444444444444444443

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

Probab=99.80  E-value=3.2e-19  Score=144.95  Aligned_cols=240  Identities=15%  Similarity=0.117  Sum_probs=107.9

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHH
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      +.|++++|.+.++++.      ++.+|..++.++.+.|++++|++.|.+      .+|..+|..++.++...|++++|..
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            6688999999999982      235999999999999999999999965      2577799999999999999999999


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          109 FLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      +++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            88877764  3557889999999999999999998885       367789999999999999999999999976     


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 020202          189 CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTML  268 (329)
Q Consensus       189 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  268 (329)
                          ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+     ..++.-...+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHH
Confidence                47999999999999999999999988      27899999999999999999997655542     2344446678


Q ss_pred             HHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhC
Q 020202          269 ITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNC  310 (329)
Q Consensus       269 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  310 (329)
                      +..|.+.|++++|..+++...... +-....|..|.-+|++-
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky  254 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  254 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc
Confidence            899999999999999999987544 34567788877777764

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.79  E-value=1.2e-15  Score=129.66  Aligned_cols=309  Identities=11%  Similarity=0.015  Sum_probs=224.2

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhc--------CCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC---
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAF--------NCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG---   82 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---   82 (329)
                      +.....|+.+...+...|++++|++.|++..+.        .-+....+|+.+..+|...|++++|...+++..+..   
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            344678999999999999999999999987542        123456789999999999999999999998876531   


Q ss_pred             ---Cc-cChHHHHHHHHHHHhc--CchhHHHHHHHHHHhCCCCCCcccHHHHHHH---HHhcCChHHHHHHHHHHHHcCC
Q 020202           83 ---FV-PDKRTYAILVNAWCSS--GKMREAQEFLQEMSDKGFNPPVRGRDLLVQG---LLNAGYLESAKQMVNKMIKQGF  153 (329)
Q Consensus        83 ---~~-~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~  153 (329)
                         .. ....++.....++...  +++++|...|++..+.. |.++..+..+..+   +...++.++|++.+++..+...
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p  206 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP  206 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC
Confidence               11 1345666665555544  57999999999998865 3345555555554   3456788899999999888753


Q ss_pred             ccCHHhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh
Q 020202          154 VLDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSL  229 (329)
Q Consensus       154 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  229 (329)
                      . +..++..+...+..    .+++++|.+.+++.....+ .+..++..+...|...|++++|...+++..+..+. +..+
T Consensus       207 ~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~  283 (472)
T 4g1t_A          207 D-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYL  283 (472)
T ss_dssp             S-CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHH
T ss_pred             c-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHH
Confidence            3 56666666555544    4678899999999887654 56778889999999999999999999999886433 5566


Q ss_pred             HHHHHHHHHcc-------------------CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          230 YAPIIKGMFRR-------------------GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       230 ~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      +..+...|...                   +.++.|...++...... +.+...+..+...+...|++++|...|++..+
T Consensus       284 ~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~  362 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFS  362 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHh
Confidence            66666555322                   23567778888877663 34667888999999999999999999999987


Q ss_pred             CCCCCChh--hHHHHHH-HHHhCCchhHHHHHHHHHhhhc
Q 020202          291 MGLTPISR--CFDLVTD-GLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       291 ~~~~p~~~--~~~~l~~-~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ....|...  .+..+.. .....|++++|.+.++...++.
T Consensus       363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~  402 (472)
T 4g1t_A          363 KELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN  402 (472)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC
T ss_pred             cCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            65443321  2333332 3457899999999988877654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.79  E-value=2e-17  Score=130.22  Aligned_cols=221  Identities=9%  Similarity=-0.082  Sum_probs=116.7

Q ss_pred             ccCchhHHHHHHHHhhhcCC---CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhH
Q 020202           29 KHGLVDNAVEVFNKCTAFNC---QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMRE  105 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  105 (329)
                      ..|++++|+..|+.+.+...   +.+..++..+...+...|++++|...|+++.+... .+..++..+..++...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHH
Confidence            34666777777777665421   22455666666677777777777777776666532 245566666666666666666


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 020202          106 AQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCK  185 (329)
Q Consensus       106 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  185 (329)
                      |...+++..+.. +.+...+..+..++...|++++|...++++.+..  |+.......+..+...|++++|...+.....
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            666666666543 3345556666666666666666666666666542  2222222333333444555555555555444


Q ss_pred             cCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---ChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          186 LGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP---FPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       186 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      ... ++...+ .++..+...++.++|...++...+.....   +...+..+...+...|++++|...|+++..
T Consensus       173 ~~~-~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          173 KSD-KEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HSC-CCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCC-cchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            322 222222 24444444455555555555443321100   023344444444444444444444444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.78  E-value=1.1e-16  Score=125.81  Aligned_cols=165  Identities=18%  Similarity=0.106  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC--hHHHHHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD--KRTYAILVN   95 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~   95 (329)
                      ..+......+...|++++|+..|+.+.+.. |.+...+..+..++...|++++|.+.+++..+.+..|+  ...|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            334444555555666666666666655544 34444555555555555555555555555554221111  122445555


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEF  175 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  175 (329)
                      .+...|++++|...+++..+.. +.+..++..+...+...|++++|...+++..+... .+...+..+...+...+++++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTT-TDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCC-CcHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555554432 22334445555555555555555555555444321 133334333312222234444


Q ss_pred             HHHHHHHHHH
Q 020202          176 CVEMYYSVCK  185 (329)
Q Consensus       176 a~~~~~~~~~  185 (329)
                      |.+.+++..+
T Consensus       161 A~~~~~~a~~  170 (272)
T 3u4t_A          161 ADSSFVKVLE  170 (272)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444444

>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=99.77  E-value=4.6e-15  Score=116.67  Aligned_cols=223  Identities=13%  Similarity=0.010  Sum_probs=134.2

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHHHHcCCccChHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE----VKLFHGAYALIRRMIRKGFVPDKRTYA   91 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (329)
                      ++.++..+...+...|++++|.+.|++..+.   .+...+..+...+..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4556666666666777777777777766663   244556666666666    667777777776666654   455566


Q ss_pred             HHHHHHHh----cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHHcCCccCHHhHHHH
Q 020202           92 ILVNAWCS----SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN----AGYLESAKQMVNKMIKQGFVLDLETFNSL  163 (329)
Q Consensus        92 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  163 (329)
                      .+...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            66666666    666666666666666553   45556666666666    666666666666666553   34455555


Q ss_pred             HHHHHc----cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHH
Q 020202          164 IETICK----SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK----AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIK  235 (329)
Q Consensus       164 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  235 (329)
                      ...+..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            555555    566666666666655542   23445555555555    566666666666655543   1344455555


Q ss_pred             HHHc----cCChhHHHHHHHHHHHc
Q 020202          236 GMFR----RGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       236 ~~~~----~~~~~~a~~~~~~~~~~  256 (329)
                      .|..    .+++++|...|++..+.
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHc
Confidence            5555    55666666666555554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=8.1e-15  Score=126.35  Aligned_cols=183  Identities=12%  Similarity=0.025  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc-hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 020202          140 SAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCAD-VSTYKILIPAVSKAGMIDEAFRLLHNL  218 (329)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  218 (329)
                      +|..++++..+.-.+.+...|..++..+.+.|++++|..+|+++.+..+ .+ ...|...+..+.+.|++++|..+|++.
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~A  382 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIED-IDPTLVYIQYMKFARRAEGIKSGRMIFKKA  382 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSS-SCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccc-cCchHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            5666666655421122455666666666666666666666666665322 11 235666666666666666666666666


Q ss_pred             HhCCCCCChhhHHHHHHH-HHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCC-CCC
Q 020202          219 VEDGHKPFPSLYAPIIKG-MFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGL-TPI  296 (329)
Q Consensus       219 ~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~  296 (329)
                      .+... .+...|...... +...|+.++|..+|+...+.. +.+...|..++..+.+.|+.++|..+|++....+. .|+
T Consensus       383 l~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~  460 (530)
T 2ooe_A          383 REDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  460 (530)
T ss_dssp             HTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGG
T ss_pred             HhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHH
Confidence            55421 122222221111 224666777777776666542 23456666666666667777777777777665432 222


Q ss_pred             --hhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          297 --SRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       297 --~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                        ...|...+......|+.+.+.++...+.+
T Consensus       461 ~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          461 KSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             GCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              33566666666666777777766665544

>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=99.77  E-value=4.6e-16  Score=127.36  Aligned_cols=230  Identities=11%  Similarity=0.091  Sum_probs=149.5

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcch-HHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKL-FHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ...|..+...+.+.|++++|+..|+++.+.+ |.+..+|+.+..++...|+ +++|+..|++....... +...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
Confidence            3556667777777777777777777777766 6667777777777777775 77777777777776433 5667777777


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc-cCCHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK-SGEVE  174 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  174 (329)
                      ++...|++++|+..|+++.+.. +-+...|..+..++.+.|++++|+..++++.+.... +...|+.+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcch
Confidence            7777777777777777777664 445667777777777777777777777777776543 56677777777766 44435


Q ss_pred             HH-----HHHHHHHHHcCCCCchhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC------
Q 020202          175 FC-----VEMYYSVCKLGLCADVSTYKILIPAVSKAG--MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRG------  241 (329)
Q Consensus       175 ~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~------  241 (329)
                      +|     +..+++.....+ -+...|..+...+...|  ++++|...+.++ +.. ..+...+..+...|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~P-~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccc
Confidence            55     355666555433 34455666666665555  456666666555 221 223445555555555542      


Q ss_pred             ---ChhHHHHHHHHH
Q 020202          242 ---QFDDAFCFFSEM  253 (329)
Q Consensus       242 ---~~~~a~~~~~~~  253 (329)
                         ..++|..+++++
T Consensus       330 ~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          330 KEDILNKALELCEIL  344 (382)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH
Confidence               135566666665

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.77  E-value=5.5e-16  Score=121.76  Aligned_cols=243  Identities=10%  Similarity=-0.014  Sum_probs=167.3

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCccc----HHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRG----RDL  127 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~  127 (329)
                      ...+......+...|++++|...|++..+.... +...+..+..++...|++++|...+++..+.+  ++...    |..
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~   79 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKV--NATKAKSADFEY   79 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS--CTTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc--CchhHHHHHHHH
Confidence            344556677778888888888888888776432 45567777778888888888888888887733  33333    677


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 020202          128 LVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM  207 (329)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  207 (329)
                      +...+...|++++|...+++..+.... +..++..+...+...|++++|...+++..+..+ .+...+..+...+...++
T Consensus        80 lg~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~  157 (272)
T 3u4t_A           80 YGKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTT-TDPKVFYELGQAYYYNKE  157 (272)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSC-CCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCC-CcHHHHHHHHHHHHHHHH
Confidence            788888888888888888888776433 566777888888888888888888887766532 345566666623344458


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCC---hhHHHHHHHHHHHcC-CCCC------hhhHHHHHHHHhccCC
Q 020202          208 IDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQ---FDDAFCFFSEMKIKG-HPPN------RPVYTMLITMCGRGGR  277 (329)
Q Consensus       208 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~~~  277 (329)
                      +++|...|+++.+.... +...+..+...+...|+   +++|...++++.+.. -.|+      ..+|..+...|...|+
T Consensus       158 ~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          158 YVKADSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            88888888887765422 45666667777777777   777888777776541 1123      1466667777777888


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHH
Q 020202          278 FVEAANYLVEMTEMGLTPISRCFDL  302 (329)
Q Consensus       278 ~~~a~~~~~~~~~~~~~p~~~~~~~  302 (329)
                      +++|.+.+++..+.  .|+......
T Consensus       237 ~~~A~~~~~~al~~--~p~~~~a~~  259 (272)
T 3u4t_A          237 KVKADAAWKNILAL--DPTNKKAID  259 (272)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHHHHHHHHHHHhc--CccHHHHHH
Confidence            88888888877754  366554433

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.77  E-value=3.2e-15  Score=127.01  Aligned_cols=309  Identities=11%  Similarity=-0.047  Sum_probs=212.5

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcC-------CCccHHHHHHHHHHHHh--cchHHHHHHHHHHHHHcCCcc
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFN-------CQQCVLLYNSLLFALCE--VKLFHGAYALIRRMIRKGFVP   85 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~   85 (329)
                      ....+|+.+..+|...|++++|...+++..+..       .+....+++.+..++..  .+++++|.+.|++..+..+. 
T Consensus        92 ~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-  170 (472)
T 4g1t_A           92 RSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-  170 (472)
T ss_dssp             TTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-
Confidence            345789999999999999999999998875421       12235667666655554  45799999999999886432 


Q ss_pred             ChHHHHHHHHH---HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHHcCCccCHH
Q 020202           86 DKRTYAILVNA---WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN----AGYLESAKQMVNKMIKQGFVLDLE  158 (329)
Q Consensus        86 ~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  158 (329)
                      +...+..+..+   +...++.++|++.+++..+.. +.+..++..+...+..    .|++++|.+.+++....... +..
T Consensus       171 ~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~  248 (472)
T 4g1t_A          171 NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTD  248 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHH
T ss_pred             CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHH
Confidence            45555555544   345677888999999888765 3455566666555544    46788999999998887543 678


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc-------------------CCHHHHHHHHHHHH
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA-------------------GMIDEAFRLLHNLV  219 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~  219 (329)
                      ++..+...|...|++++|...+++..+..+ .+..++..+..+|...                   +..+.|...++...
T Consensus       249 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  327 (472)
T 4g1t_A          249 VLRSAAKFYRRKDEPDKAIELLKKALEYIP-NNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKAD  327 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence            899999999999999999999999988654 3456666666555432                   33567788888877


Q ss_pred             hCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChh--hHHHHHH-HHhccCCHHHHHHHHHHHHhCCC---
Q 020202          220 EDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRP--VYTMLIT-MCGRGGRFVEAANYLVEMTEMGL---  293 (329)
Q Consensus       220 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~---  293 (329)
                      +... .+...+..+...+...|++++|...|++..+....|...  .+..+.. .....|++++|+..+++..+...   
T Consensus       328 ~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~  406 (472)
T 4g1t_A          328 EAND-NLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSR  406 (472)
T ss_dssp             HHCT-TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCH
T ss_pred             hcCC-chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccH
Confidence            6543 356778889999999999999999999998864333221  2233332 23467899999998888765321   


Q ss_pred             --------------------CCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          294 --------------------TPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       294 --------------------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                                          +.+..+|..+..+|...|++++|.+.++...++.+
T Consensus       407 ~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~  461 (472)
T 4g1t_A          407 EKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGS  461 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--------------
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence                                33567899999999999999999999998887653

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.77  E-value=1e-15  Score=118.79  Aligned_cols=201  Identities=12%  Similarity=-0.036  Sum_probs=136.2

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ...+..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            4566666677777777777777777766653 2255666667777777777777777777776653 3355666667777


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCcc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 020202          132 LLNAGYLESAKQMVNKMIKQGFVL-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDE  210 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  210 (329)
                      +...|++++|.+.++++.+.+..| +...+..+...+...|++++|...+++..+... .+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHH
Confidence            777777777777777776622233 345666677777777777777777777766543 345667777777777777777


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          211 AFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       211 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      |...++++.+... .+...+..+...+...|++++|...++++.+.
T Consensus       194 A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            7777777766532 35566667777777777777777777777765

>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=99.77  E-value=3.9e-16  Score=127.83  Aligned_cols=250  Identities=10%  Similarity=0.040  Sum_probs=207.5

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc-hhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK-MREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      +...|+.+...+...|++++|++.+++.+..... +...|+.+..++...|+ +++|+..+++..... +-+...|..+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            4677888999999999999999999999987533 67889999999999996 999999999999876 55788999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh-cCCH
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK-AGMI  208 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~  208 (329)
                      .++...|++++|+..|+++.+.... +...|..+..++...|++++|+..++++.+..+ .+...|+.+..++.. .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcc
Confidence            9999999999999999999998655 788999999999999999999999999998765 567889999999998 6665


Q ss_pred             HHH-----HHHHHHHHhCCCCCChhhHHHHHHHHHccC--ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccC-----
Q 020202          209 DEA-----FRLLHNLVEDGHKPFPSLYAPIIKGMFRRG--QFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGG-----  276 (329)
Q Consensus       209 ~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----  276 (329)
                      ++|     ...+++..+.... +...|..+...+...|  ++++|.+.+.++ +. .+.+...+..+..+|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccccc
Confidence            777     5888888876543 5678888888888888  689999999888 33 3456778888999988864     


Q ss_pred             ----CHHHHHHHHHHH-HhCCCCCChhhHHHHHHHHH
Q 020202          277 ----RFVEAANYLVEM-TEMGLTPISRCFDLVTDGLK  308 (329)
Q Consensus       277 ----~~~~a~~~~~~~-~~~~~~p~~~~~~~l~~~~~  308 (329)
                          ..++|.++++++ .+.. +.....|..+...+.
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKD-TIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhC-chhHHHHHHHHHHHH
Confidence                358999999998 6543 223556666666554

>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=99.76  E-value=7.8e-15  Score=115.34  Aligned_cols=226  Identities=15%  Similarity=0.036  Sum_probs=187.2

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCCccc
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS----SGKMREAQEFLQEMSDKGFNPPVRG  124 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  124 (329)
                      +.++.++..+...+...|++++|.+.|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...
T Consensus         3 ~~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a   76 (273)
T 1ouv_A            3 EQDPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNG   76 (273)
T ss_dssp             --CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHH
Confidence            3467788888889999999999999999988733   55678888888888    999999999999988875   6778


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCchhhHH
Q 020202          125 RDLLVQGLLN----AGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGLCADVSTYK  196 (329)
Q Consensus       125 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  196 (329)
                      +..+...|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+.
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~  150 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHH
Confidence            8888888988    999999999999988874   67788888888888    899999999999988865   456777


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCCCChhhHHHH
Q 020202          197 ILIPAVSK----AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR----RGQFDDAFCFFSEMKIKGHPPNRPVYTML  268 (329)
Q Consensus       197 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  268 (329)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  224 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  224 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHH
Confidence            78888887    889999999999888764   45677778888888    899999999999888763   36677778


Q ss_pred             HHHHhc----cCCHHHHHHHHHHHHhCC
Q 020202          269 ITMCGR----GGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       269 ~~~~~~----~~~~~~a~~~~~~~~~~~  292 (329)
                      ...|..    .+++++|.+.+++..+.+
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            888887    889999999999888766

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

Probab=99.76  E-value=1.6e-15  Score=115.48  Aligned_cols=201  Identities=9%  Similarity=-0.011  Sum_probs=105.4

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ++..+..+...+...|++++|.+.|+.+.+.. +.+...+..+...+...|++++|.+.++++.+... .+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHHH
Confidence            34555666666666666666666666665544 44555666666666666666666666666655432 24445555555


Q ss_pred             HHHhc-CchhHHHHHHHHHHhCCCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           96 AWCSS-GKMREAQEFLQEMSDKGFNP-PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        96 ~~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      .+... |++++|...++.+.+.+..| +...+..+..++...|++++|...++++.+.... +...+..+..++...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCH
Confidence            56666 66666666666555521111 1344445555555555555555555555544221 344445555555555555


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 020202          174 EFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLV  219 (329)
Q Consensus       174 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  219 (329)
                      ++|...+++..+..+..+...+..+...+...|+.+.+..+++.+.
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  209 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQ  209 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            5555555554443221233334444444445555555555555444

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

Probab=99.76  E-value=1.2e-16  Score=123.32  Aligned_cols=200  Identities=13%  Similarity=0.102  Sum_probs=89.3

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      .+..|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+... .+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHH
Confidence            33445555555566666666666666665544 44555555566666666666666666665555432 24445555555


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEF  175 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  175 (329)
                      .+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.... +...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHH
Confidence            5555555555555555555443 233444445555555555555555555555444221 33444444444444444444


Q ss_pred             HHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          176 CVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       176 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                      |...+++..+... .+..++..+..++...|++++|...++++.+
T Consensus       178 A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          178 ALSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            4444444443322 2233444444444444444444444444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.75  E-value=1.6e-16  Score=124.95  Aligned_cols=248  Identities=8%  Similarity=-0.109  Sum_probs=195.4

Q ss_pred             HhcchHHHHHHHHHHHHHcCC---ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 020202           63 CEVKLFHGAYALIRRMIRKGF---VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLE  139 (329)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  139 (329)
                      ...|++++|+..|+++.+...   +.+..++..+...+...|++++|...+++..+.. +.+..++..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            456899999999999997632   2246788899999999999999999999998875 456888999999999999999


Q ss_pred             HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 020202          140 SAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLV  219 (329)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  219 (329)
                      +|...++++.+.... +...+..+..++...|++++|...++++.+..  |+..........+...|++++|...++...
T Consensus        95 ~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999987533 67889999999999999999999999998864  444444455556677899999999998877


Q ss_pred             hCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC---CChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC
Q 020202          220 EDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHP---PNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI  296 (329)
Q Consensus       220 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  296 (329)
                      ... +++...+ .++..+...++.++|...+.........   .+...+..+..++...|++++|...+++..+..  |+
T Consensus       172 ~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~  247 (275)
T 1xnf_A          172 EKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VH  247 (275)
T ss_dssp             HHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CT
T ss_pred             hcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--ch
Confidence            653 2343444 4777788888999999999888754211   125778889999999999999999999998754  43


Q ss_pred             hhhHHHHHHHHHhCCchhHHHHHH
Q 020202          297 SRCFDLVTDGLKNCGKHDLAEKIE  320 (329)
Q Consensus       297 ~~~~~~l~~~~~~~g~~~~a~~~~  320 (329)
                      .  +.....++...|++++|.+.+
T Consensus       248 ~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 N--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             T--CHHHHHHHHHHHHHHHC----
T ss_pred             h--HHHHHHHHHHHHHHHhhHHHH
Confidence            2  333355677888899888765

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

Probab=99.75  E-value=2.8e-15  Score=114.07  Aligned_cols=204  Identities=10%  Similarity=-0.037  Sum_probs=111.9

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      +.+...+..+...+...|++++|.+.++++.+... .+...+..+...+...|++++|...+++..+.. +.+..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   82 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            34455666666666777777777777766665532 245566666666666666666666666665543 3344555556


Q ss_pred             HHHHHhc-CChHHHHHHHHHHHHcCCccC-HHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC
Q 020202          129 VQGLLNA-GYLESAKQMVNKMIKQGFVLD-LETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAG  206 (329)
Q Consensus       129 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  206 (329)
                      ...+... |++++|...++++.+.+..|+ ...+..+..++...|++++|...++++.+..+ .+...+..+...+...|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcC
Confidence            6666666 666666666666555211222 34455555555555666666665555554432 23444555555555555


Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          207 MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       207 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      ++++|...++++.+.....+...+..+...+...|+.+.+..+++.+..
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            5555555555554432212344444444445555555555555555443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.75  E-value=3e-15  Score=116.21  Aligned_cols=202  Identities=10%  Similarity=0.048  Sum_probs=143.3

Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.... +...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHH
Confidence            4556677777777788888888887776654 345667777777777888888888888777766432 56677777777


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhH
Q 020202          167 ICKSGEVEFCVEMYYSVCKLGLCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDD  245 (329)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  245 (329)
                      +...|++++|.+.++++...+..| +...+..+...+...|++++|...++++.+... .+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCHHH
Confidence            777888888888887776622223 455667777777778888888888877776542 246667777777778888888


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          246 AFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       246 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      |...++.+.+. .+.+...+..+...+...|++++|.++++++.+..
T Consensus       194 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          194 ARQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            88888777664 23456667777777777788888888887777643

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.74  E-value=1.8e-16  Score=131.77  Aligned_cols=300  Identities=15%  Similarity=0.015  Sum_probs=228.0

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc----HHHHHHHHHHHHhcchHHHHHHHHHHHHHc----CCcc
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC----VLLYNSLLFALCEVKLFHGAYALIRRMIRK----GFVP   85 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~   85 (329)
                      ......+......+...|++++|...|+.+.+.+ +.+    ..++..+...+...|++++|...+++....    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            4566677888899999999999999999998875 444    367888999999999999999999987643    2122


Q ss_pred             -ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCC----cccHHHHHHHHHhcCC--------------------hH
Q 020202           86 -DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF-NPP----VRGRDLLVQGLLNAGY--------------------LE  139 (329)
Q Consensus        86 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~  139 (329)
                       ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             245788888999999999999999998865420 011    3477888899999999                    99


Q ss_pred             HHHHHHHHHHHc----CCcc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-Cc----hhhHHHHHHHHHhcCCHH
Q 020202          140 SAKQMVNKMIKQ----GFVL-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC-AD----VSTYKILIPAVSKAGMID  209 (329)
Q Consensus       140 ~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~  209 (329)
                      +|...+++..+.    +..+ ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999999876543    1111 2356788889999999999999999988653211 11    347888899999999999


Q ss_pred             HHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHccCChhHHHHHHHHHHHcCC-CCC----hhhHHHHHHHHhccCCHH
Q 020202          210 EAFRLLHNLVEDGHK-PF----PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-PPN----RPVYTMLITMCGRGGRFV  279 (329)
Q Consensus       210 ~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~  279 (329)
                      +|...+++..+.... ++    ..++..+...+...|++++|...+++...... .++    ..++..+...|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            999999987643111 11    45778889999999999999999998875411 111    457788889999999999


Q ss_pred             HHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHhCCchh
Q 020202          280 EAANYLVEMTEM----GLTP-ISRCFDLVTDGLKNCGKHD  314 (329)
Q Consensus       280 ~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~  314 (329)
                      +|...+++..+.    +..+ ...++..+...+...|+..
T Consensus       325 ~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          325 QAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            999999987642    2222 2556777888888777663

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

Probab=99.74  E-value=5.1e-16  Score=119.79  Aligned_cols=196  Identities=12%  Similarity=0.052  Sum_probs=84.8

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK  169 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  169 (329)
                      |..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.... +...+..+...+..
T Consensus        26 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~  103 (243)
T 2q7f_A           26 GGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAGNVYVV  103 (243)
T ss_dssp             ----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHHHHHHH
Confidence            3333444444444444444444444332 223334444444444444444444444444443211 33444444444444


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHH
Q 020202          170 SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCF  249 (329)
Q Consensus       170 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  249 (329)
                      .|++++|.+.++++.+... .+...+..+...+...|++++|...++++.+... .+...+..+...+...|++++|...
T Consensus       104 ~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~  181 (243)
T 2q7f_A          104 KEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLDEALSQ  181 (243)
T ss_dssp             TTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            5555555555554444322 2334444445555555555555555555444321 1344445555555555555555555


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          250 FSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      ++++.... +.+..++..+..++...|++++|...++++.+
T Consensus       182 ~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          182 FAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            55554442 22344555555555555555555555555554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.72  E-value=5.2e-16  Score=129.42  Aligned_cols=271  Identities=13%  Similarity=0.027  Sum_probs=158.7

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccH----HHHHHHHHHHHhcchHHHHHHHHHHHHHc----C-CccChHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCV----LLYNSLLFALCEVKLFHGAYALIRRMIRK----G-FVPDKRT   89 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~   89 (329)
                      .+..+...+...|++++|...|+++.+.+ +.+.    .++..+...+...|++++|...+++..+.    + ......+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            34455666677777777777777777654 3333    46667777777777777777777766543    1 1223345


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCC-----CCCCcccHHHHHHHHHhcCC-----------------hHHHHHHHHH
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKG-----FNPPVRGRDLLVQGLLNAGY-----------------LESAKQMVNK  147 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~  147 (329)
                      +..+...+...|++++|...+++..+..     .+....++..+...|...|+                 +++|.+.+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            6667777777777777777777664431     11123356666677777777                 7777766666


Q ss_pred             HHHc----CCc-cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-Cc----hhhHHHHHHHHHhcCCHHHHHHHHHH
Q 020202          148 MIKQ----GFV-LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC-AD----VSTYKILIPAVSKAGMIDEAFRLLHN  217 (329)
Q Consensus       148 ~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~  217 (329)
                      ..+.    +.. ....++..+...+...|++++|...+++..+.... ++    ..++..+...|...|++++|...+++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKR  288 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            5432    111 12235566666677777777777777666542110 11    22556666666777777777777766


Q ss_pred             HHhCCCC-----CChhhHHHHHHHHHccCChhHHHHHHHHHHHcC----C-CCChhhHHHHHHHHhccCCHHHHHHHHHH
Q 020202          218 LVEDGHK-----PFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG----H-PPNRPVYTMLITMCGRGGRFVEAANYLVE  287 (329)
Q Consensus       218 ~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  287 (329)
                      ..+....     ....++..+...+...|++++|...+++.....    . .....++..+..+|...|++++|...+++
T Consensus       289 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  368 (411)
T 4a1s_A          289 TLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQ  368 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            5532110     013455566666666777777766666655431    0 01123555566666666666666666666


Q ss_pred             HHh
Q 020202          288 MTE  290 (329)
Q Consensus       288 ~~~  290 (329)
                      ..+
T Consensus       369 al~  371 (411)
T 4a1s_A          369 HLQ  371 (411)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            553

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.70  E-value=7.2e-16  Score=128.59  Aligned_cols=276  Identities=17%  Similarity=0.087  Sum_probs=212.8

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh----HHHHHHHHHHHhcCchhHHHHHHHHHHhC----C-CCCC
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK----RTYAILVNAWCSSGKMREAQEFLQEMSDK----G-FNPP  121 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~  121 (329)
                      ....+..+...+...|++++|...|++..+.+.. +.    ..+..+...+...|++++|...+++..+.    + .+..
T Consensus        47 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  125 (411)
T 4a1s_A           47 MCLELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGE  125 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHH
Confidence            3455666778889999999999999999987432 33    47888899999999999999999988653    1 1223


Q ss_pred             cccHHHHHHHHHhcCChHHHHHHHHHHHHc----C-CccCHHhHHHHHHHHHccCC-----------------HHHHHHH
Q 020202          122 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----G-FVLDLETFNSLIETICKSGE-----------------VEFCVEM  179 (329)
Q Consensus       122 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~  179 (329)
                      ..++..+...|...|++++|...+++..+.    + ......++..+...+...|+                 +++|.+.
T Consensus       126 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~  205 (411)
T 4a1s_A          126 AKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEF  205 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHH
Confidence            467788899999999999999999987654    1 11234578888899999999                 9999999


Q ss_pred             HHHHHHc----CC-CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----hhhHHHHHHHHHccCChhHHHHH
Q 020202          180 YYSVCKL----GL-CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHK-PF----PSLYAPIIKGMFRRGQFDDAFCF  249 (329)
Q Consensus       180 ~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~  249 (329)
                      +++..+.    +. .....++..+...+...|++++|...+++..+.... ++    ...+..+...+...|++++|...
T Consensus       206 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (411)
T 4a1s_A          206 YQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEH  285 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            8886542    11 122457888899999999999999999998754111 11    23678889999999999999999


Q ss_pred             HHHHHHcCC--C---CChhhHHHHHHHHhccCCHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHhCCchhHHHHH
Q 020202          250 FSEMKIKGH--P---PNRPVYTMLITMCGRGGRFVEAANYLVEMTEM----GLT-PISRCFDLVTDGLKNCGKHDLAEKI  319 (329)
Q Consensus       250 ~~~~~~~~~--~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~g~~~~a~~~  319 (329)
                      +++......  .   ....++..+...+...|++++|...+++..+.    +.. ....++..+..+|.+.|++++|.+.
T Consensus       286 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  365 (411)
T 4a1s_A          286 YKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKY  365 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            998876411  0   12467788889999999999999999988742    111 1245788899999999999999999


Q ss_pred             HHHHhhhc
Q 020202          320 ELLEVSLR  327 (329)
Q Consensus       320 ~~~~~~~~  327 (329)
                      ++...++.
T Consensus       366 ~~~al~~~  373 (411)
T 4a1s_A          366 AEQHLQLA  373 (411)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            98877653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.70  E-value=7.8e-15  Score=121.19  Aligned_cols=298  Identities=10%  Similarity=-0.014  Sum_probs=212.8

Q ss_pred             HHccCchhHHHHHHHHhhhc--CC--CccHHHHHHHHHHH--HhcchHHHHH-----------HHHHHHHHcCCccCh--
Q 020202           27 FGKHGLVDNAVEVFNKCTAF--NC--QQCVLLYNSLLFAL--CEVKLFHGAY-----------ALIRRMIRKGFVPDK--   87 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~--~~~~~~~~a~-----------~~~~~~~~~~~~~~~--   87 (329)
                      +.+.+++++|..+++++.+.  .+  .++...|..++..-  .-.+.++.+.           +.++.+.......+.  
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l  101 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLL  101 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHH
Confidence            45789999999999998643  12  23444445544332  2334555555           677766543211111  


Q ss_pred             --HHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CC----CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCC------c
Q 020202           88 --RTYAILVNAWCSSGKMREAQEFLQEMSDKGF-NP----PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGF------V  154 (329)
Q Consensus        88 --~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~  154 (329)
                        ..+......+...|++++|...+++..+.-. .+    ...++..+...|...|+++.|...+++..+...      .
T Consensus       102 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  181 (383)
T 3ulq_A          102 EYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNI  181 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHH
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchH
Confidence              1122355677889999999999999976410 12    245788899999999999999999998776411      1


Q ss_pred             cCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-C----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-C
Q 020202          155 LDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLC-A----DVSTYKILIPAVSKAGMIDEAFRLLHNLVED----GH-K  224 (329)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~  224 (329)
                      ....+++.+..+|...|++++|...+++..+.... +    ...++..+..+|...|++++|...+++..+.    +. +
T Consensus       182 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          182 RLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccch
Confidence            12357888889999999999999999988653211 1    1347888999999999999999999998762    22 3


Q ss_pred             CChhhHHHHHHHHHccCChhHHHHHHHHHHHc----CCCCChhhHHHHHHHHhccCC---HHHHHHHHHHHHhCCCCCC-
Q 020202          225 PFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK----GHPPNRPVYTMLITMCGRGGR---FVEAANYLVEMTEMGLTPI-  296 (329)
Q Consensus       225 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~p~-  296 (329)
                      ....++..+...+...|++++|...+++....    +-+.....+..+...+...|+   +++|..++++.   +..|+ 
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~  338 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADL  338 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHH
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHH
Confidence            34567888999999999999999999988754    112223345677788888998   67777777655   33333 


Q ss_pred             hhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          297 SRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       297 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ...+..+...|...|++++|.+.++...++.
T Consensus       339 ~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          339 EDFAIDVAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            5577889999999999999999998887654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.70  E-value=1.8e-15  Score=122.26  Aligned_cols=271  Identities=15%  Similarity=0.029  Sum_probs=152.1

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc----HHHHHHHHHHHHhcchHHHHHHHHHHHHHc----CCc-cChH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC----VLLYNSLLFALCEVKLFHGAYALIRRMIRK----GFV-PDKR   88 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~   88 (329)
                      ..+......+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|.+.+++....    +.. ....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            345556677788888888888888887764 333    356777888888888888888888776543    111 1245


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCC----cccHHHHHHHHHhcCC--------------------hHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGF-NPP----VRGRDLLVQGLLNAGY--------------------LESAKQ  143 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~  143 (329)
                      ++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|.+
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            667777778888888888888777654310 011    2256666677777777                    667766


Q ss_pred             HHHHHHHc----CCcc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-----CCchhhHHHHHHHHHhcCCHHHHHH
Q 020202          144 MVNKMIKQ----GFVL-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGL-----CADVSTYKILIPAVSKAGMIDEAFR  213 (329)
Q Consensus       144 ~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~  213 (329)
                      .+++..+.    +..+ ...++..+...+...|++++|...+++..+...     .....++..+...+...|++++|..
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            66654432    1111 123455555666666666666666665543210     0012245555555566666666666


Q ss_pred             HHHHHHhCCCC-CC----hhhHHHHHHHHHccCChhHHHHHHHHHHHcC----C-CCChhhHHHHHHHHhccCCHHHHHH
Q 020202          214 LLHNLVEDGHK-PF----PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG----H-PPNRPVYTMLITMCGRGGRFVEAAN  283 (329)
Q Consensus       214 ~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~~a~~  283 (329)
                      .+++..+.... ++    ..++..+...+...|++++|...+++.....    . .....++..+...+...|++++|..
T Consensus       245 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  324 (338)
T 3ro2_A          245 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMH  324 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            66554432000 01    2334445555555555555555555544320    0 0012234444445555555555555


Q ss_pred             HHHHHH
Q 020202          284 YLVEMT  289 (329)
Q Consensus       284 ~~~~~~  289 (329)
                      .+++..
T Consensus       325 ~~~~a~  330 (338)
T 3ro2_A          325 FAEKHL  330 (338)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.69  E-value=1.7e-15  Score=125.88  Aligned_cols=277  Identities=14%  Similarity=0.100  Sum_probs=212.7

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC----hHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCC-
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD----KRTYAILVNAWCSSGKMREAQEFLQEMSDK----GFN-  119 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-  119 (329)
                      ......+......+...|++++|...|++..+.+.. +    ...+..+...+...|++++|...+++....    +.. 
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            345667778888999999999999999999987432 3    357888899999999999999999987543    111 


Q ss_pred             CCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc-cC----HHhHHHHHHHHHccCC--------------------HH
Q 020202          120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV-LD----LETFNSLIETICKSGE--------------------VE  174 (329)
Q Consensus       120 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~  174 (329)
                      ....++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence            12456778889999999999999999987754111 12    4478888899999999                    99


Q ss_pred             HHHHHHHHHHHc----CC-CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----hhhHHHHHHHHHccCChh
Q 020202          175 FCVEMYYSVCKL----GL-CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH-KPF----PSLYAPIIKGMFRRGQFD  244 (329)
Q Consensus       175 ~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~  244 (329)
                      +|...+.+....    +. .....++..+...+...|++++|...+++..+... .++    ..++..+...+...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999999887542    11 11245788889999999999999999999775311 111    237888899999999999


Q ss_pred             HHHHHHHHHHHcCCC-CC----hhhHHHHHHHHhccCCHHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHhCCchh
Q 020202          245 DAFCFFSEMKIKGHP-PN----RPVYTMLITMCGRGGRFVEAANYLVEMTEM----GLTP-ISRCFDLVTDGLKNCGKHD  314 (329)
Q Consensus       245 ~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~  314 (329)
                      +|...+++....... ++    ..++..+...+...|++++|...+++..+.    +..+ ...++..+..+|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            999999988754110 11    457788889999999999999999988742    2111 1567888999999999999


Q ss_pred             HHHHHHHHHhhh
Q 020202          315 LAEKIELLEVSL  326 (329)
Q Consensus       315 ~a~~~~~~~~~~  326 (329)
                      +|.+.++...++
T Consensus       325 ~A~~~~~~al~~  336 (406)
T 3sf4_A          325 QAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998877654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.69  E-value=1.1e-15  Score=123.48  Aligned_cols=275  Identities=14%  Similarity=0.103  Sum_probs=209.1

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC----hHHHHHHHHHHHhcCchhHHHHHHHHHHhC----C-CCCCc
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD----KRTYAILVNAWCSSGKMREAQEFLQEMSDK----G-FNPPV  122 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~  122 (329)
                      ...+......+...|++++|...|+++.+.... +    ...+..+...+...|++++|...+++....    + .+...
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            445566678888999999999999999987432 3    367888899999999999999999887543    1 11224


Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc-cC----HHhHHHHHHHHHccCC--------------------HHHHH
Q 020202          123 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV-LD----LETFNSLIETICKSGE--------------------VEFCV  177 (329)
Q Consensus       123 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~a~  177 (329)
                      .++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            56788889999999999999999987654111 12    3477888889999999                    99999


Q ss_pred             HHHHHHHHc----CC-CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C----ChhhHHHHHHHHHccCChhHHH
Q 020202          178 EMYYSVCKL----GL-CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHK-P----FPSLYAPIIKGMFRRGQFDDAF  247 (329)
Q Consensus       178 ~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~  247 (329)
                      +.+++....    +. .....++..+...+...|++++|...+++..+.... +    ...++..+...+...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            998886542    11 122457888889999999999999999987653110 1    1236788889999999999999


Q ss_pred             HHHHHHHHcCCC-CC----hhhHHHHHHHHhccCCHHHHHHHHHHHHhC----CCC-CChhhHHHHHHHHHhCCchhHHH
Q 020202          248 CFFSEMKIKGHP-PN----RPVYTMLITMCGRGGRFVEAANYLVEMTEM----GLT-PISRCFDLVTDGLKNCGKHDLAE  317 (329)
Q Consensus       248 ~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-p~~~~~~~l~~~~~~~g~~~~a~  317 (329)
                      ..+++....... ++    ..++..+...+...|++++|...+++..+.    +.. ....++..+...+.+.|++++|.
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  323 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAM  323 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            999988754110 11    457788888999999999999999988742    111 12457888999999999999999


Q ss_pred             HHHHHHhhhc
Q 020202          318 KIELLEVSLR  327 (329)
Q Consensus       318 ~~~~~~~~~~  327 (329)
                      +.++...++.
T Consensus       324 ~~~~~a~~~~  333 (338)
T 3ro2_A          324 HFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHHH
Confidence            9999887654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.68  E-value=1.3e-13  Score=110.37  Aligned_cols=218  Identities=9%  Similarity=-0.024  Sum_probs=152.1

Q ss_pred             hHHHHHHHHhhhcCCCccHHHHHHHHHHHHh-------cchH-------HHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           34 DNAVEVFNKCTAFNCQQCVLLYNSLLFALCE-------VKLF-------HGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        34 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      ++|..+|+++.... |.++..|..++..+..       .|++       ++|..+|++..+.-.+-+...|..++..+..
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888888888765 7778888888877763       3654       7888888887763112245577788888888


Q ss_pred             cCchhHHHHHHHHHHhCCCCCC-cc-cHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH-ccCCHHHH
Q 020202          100 SGKMREAQEFLQEMSDKGFNPP-VR-GRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC-KSGEVEFC  176 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a  176 (329)
                      .|++++|..+|++..+..  |+ .. .|..++..+.+.|++++|..+|++..+.... +...|........ ..|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIE--DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSS--SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhcc--ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHcCCHHHH
Confidence            888888888888887743  43 33 6777788888888888888888888776432 3444443333322 25788888


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCC--ChhhHHHHHHHHHccCChhHHHHHHHHH
Q 020202          177 VEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG-HKP--FPSLYAPIIKGMFRRGQFDDAFCFFSEM  253 (329)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~  253 (329)
                      ..+|++..+..+ .+...|..++..+.+.|++++|..+|++..... ..|  ....|..++......|+.+.|..+++++
T Consensus       189 ~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            888887766533 356677777777777788888888888877752 233  3456777777777778888888887777


Q ss_pred             HHc
Q 020202          254 KIK  256 (329)
Q Consensus       254 ~~~  256 (329)
                      .+.
T Consensus       268 ~~~  270 (308)
T 2ond_A          268 FTA  270 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.67  E-value=3.2e-14  Score=104.85  Aligned_cols=166  Identities=14%  Similarity=0.048  Sum_probs=102.9

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ++.+|..+...+.+.|++++|++.|++..+.+ |.+..++..+..++.+.|++++|...+......... +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            45566666666666777777777777666655 556666666666666666666666666666655322 4455555566


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEF  175 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  175 (329)
                      .+...++++.+...+.+..... +.+...+..+..++.+.|++++|++.|++..+..+. +..++..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHH
Confidence            6666666666666666665543 334555566666666666666666666666655322 45556666666666666666


Q ss_pred             HHHHHHHHHH
Q 020202          176 CVEMYYSVCK  185 (329)
Q Consensus       176 a~~~~~~~~~  185 (329)
                      |.+.|++..+
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666666555

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=2.5e-13  Score=108.64  Aligned_cols=238  Identities=8%  Similarity=-0.005  Sum_probs=180.4

Q ss_pred             cHHHHHHHHHHHHhc----chH----HHHHHHHHHHHHcCCccChHHHHHHHHHHHh-------cCch-------hHHHH
Q 020202           51 CVLLYNSLLFALCEV----KLF----HGAYALIRRMIRKGFVPDKRTYAILVNAWCS-------SGKM-------REAQE  108 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~  108 (329)
                      +...|...+....+.    ++.    ++|...|++..... +-+...|..++..+..       .|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            456777777776554    233    68888999988763 3367788888877753       4775       88999


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHH-hHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 020202          109 FLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLE-TFNSLIETICKSGEVEFCVEMYYSVCKLG  187 (329)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  187 (329)
                      +|++..+.-.+.+...|..++..+.+.|++++|.++|+++.+.... +.. .|..+...+.+.|++++|..+|++..+..
T Consensus        86 ~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  164 (308)
T 2ond_A           86 IYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA  164 (308)
T ss_dssp             HHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            9999987311345568888999999999999999999999886322 343 78888888899999999999999988765


Q ss_pred             CCCchhhHHHHHHHHH-hcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC-CCC--Chh
Q 020202          188 LCADVSTYKILIPAVS-KAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG-HPP--NRP  263 (329)
Q Consensus       188 ~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~  263 (329)
                      + ++...|........ ..|++++|..+|++..+.... +...|..++..+.+.|++++|..+|++..... ++|  ...
T Consensus       165 p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~  242 (308)
T 2ond_A          165 R-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGE  242 (308)
T ss_dssp             T-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHH
T ss_pred             C-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHH
Confidence            4 34455544433322 369999999999998876432 67788888888999999999999999998863 354  356


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      .|..++....+.|+.+.|..+++++.+..
T Consensus       243 l~~~~~~~~~~~g~~~~a~~~~~~a~~~~  271 (308)
T 2ond_A          243 IWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            78888888888999999999999988654

>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=99.66  E-value=2.2e-13  Score=123.86  Aligned_cols=256  Identities=14%  Similarity=0.129  Sum_probs=163.7

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK  102 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  102 (329)
                      +...+...|.+++|..+|++...     .....+.++.   ..+++++|.++.++.      -+..+|..+..++...|+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCC
Confidence            45566677777777777777531     1222222222   556677777666643      145567777777777777


Q ss_pred             hhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          103 MREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                      +++|...|.+.      .+...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|++.+++++.....  
T Consensus      1121 ~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI-- 1190 (1630)
T 1xi4_A         1121 VKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI-- 1190 (1630)
T ss_pred             HHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH--
Confidence            77777777543      345667777777777777777777777766653  23333345777777777766433332  


Q ss_pred             HHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCCh
Q 020202          183 VCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNR  262 (329)
Q Consensus       183 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  262 (329)
                        +   .++...|..+...|...|++++|..+|..+         ..|..+..++.+.|++++|.+.+++..      +.
T Consensus      1191 --~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~------n~ 1250 (1630)
T 1xi4_A         1191 --N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN------ST 1250 (1630)
T ss_pred             --h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC------CH
Confidence              1   244555666777777777777777777763         367777777777777777777777652      45


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          263 PVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       263 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      .+|..+..+|...|++..|......     +..++..+..++..|.+.|.+++|.++++....++
T Consensus      1251 ~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le 1310 (1630)
T 1xi4_A         1251 RTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE 1310 (1630)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Confidence            6666666666666666666665432     23345566677777777777777777776665443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.64  E-value=1.5e-14  Score=122.61  Aligned_cols=216  Identities=12%  Similarity=0.029  Sum_probs=171.3

Q ss_pred             chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch-hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHH
Q 020202           66 KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM-REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQM  144 (329)
Q Consensus        66 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  144 (329)
                      +.+++++..+++..... +.+...+..+..++...|++ ++|++.|++..+.. +.+...|..+..+|...|++++|.+.
T Consensus        82 ~~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            44677777777765543 34677888888888889999 99999998888765 44577888888899999999999999


Q ss_pred             HHHHHHcCCccCHHhHHHHHHHHHcc---------CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc--------CC
Q 020202          145 VNKMIKQGFVLDLETFNSLIETICKS---------GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA--------GM  207 (329)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~  207 (329)
                      |++..+..  |+...+..+..++...         |++++|.+.+++..+..+ .+...|..+..+|...        |+
T Consensus       160 ~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          160 FSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccch
Confidence            99888774  5667888888888888         889999999998887654 4577888888888888        88


Q ss_pred             HHHHHHHHHHHHhCCCC--CChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHH
Q 020202          208 IDEAFRLLHNLVEDGHK--PFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYL  285 (329)
Q Consensus       208 ~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  285 (329)
                      +++|...|++..+....  -+...|..+..+|...|++++|...|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999988875321  367788888889999999999999999888763 335667888888888888888888755


Q ss_pred             HH
Q 020202          286 VE  287 (329)
Q Consensus       286 ~~  287 (329)
                      .+
T Consensus       316 ~~  317 (474)
T 4abn_A          316 GK  317 (474)
T ss_dssp             TT
T ss_pred             cc
Confidence            43

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.64  E-value=2.1e-13  Score=100.46  Aligned_cols=166  Identities=16%  Similarity=0.141  Sum_probs=92.9

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      ++.+|..+...+...|++++|++.|++..+..+. +..++..+..++...|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            4555666666666666666666666666655322 45555666666666666666666666655543 233444555555


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDE  210 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  210 (329)
                      .+...++++.|...+.+..+.... +...+..+..++.+.|++++|++.|++..+..+ .+..++..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKP-GFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcc-hhhhHHHHHHHHHHHCCCHHH
Confidence            555566666666666655554322 445555555555555566666555555555432 334455555555555555555


Q ss_pred             HHHHHHHHHh
Q 020202          211 AFRLLHNLVE  220 (329)
Q Consensus       211 a~~~~~~~~~  220 (329)
                      |...|++..+
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            5555555554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.64  E-value=2.5e-13  Score=111.95  Aligned_cols=311  Identities=9%  Similarity=-0.004  Sum_probs=216.9

Q ss_pred             CCCCHHHHHHHHHHH--HccCchhHHHHHHHHhhhc--CC--CccHHHHHHHHHHHH--hcchHHHHH---------HHH
Q 020202           13 LSVSPQTLSLIIEEF--GKHGLVDNAVEVFNKCTAF--NC--QQCVLLYNSLLFALC--EVKLFHGAY---------ALI   75 (329)
Q Consensus        13 ~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~--~~~~~~~a~---------~~~   75 (329)
                      +.|+..+-+.|-..|  ...+++++|.++++++.+.  .+  .++...|-.++..-.  -.+.+..+.         +.+
T Consensus         6 ~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l   85 (378)
T 3q15_A            6 AIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELL   85 (378)
T ss_dssp             CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHH
Confidence            456677777777777  7899999999999987542  11  233444455544311  112222223         566


Q ss_pred             HHHHHcCCccCh----HHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CC----CcccHHHHHHHHHhcCChHHHHHHHH
Q 020202           76 RRMIRKGFVPDK----RTYAILVNAWCSSGKMREAQEFLQEMSDKGF-NP----PVRGRDLLVQGLLNAGYLESAKQMVN  146 (329)
Q Consensus        76 ~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~  146 (329)
                      +.+.....+.+.    ..+......+...|++++|...+++..+... .+    ...++..+...|...|+++.|...++
T Consensus        86 ~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~  165 (378)
T 3q15_A           86 ETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHIL  165 (378)
T ss_dssp             HHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            655432211111    1233345567789999999999999876421 12    23567788999999999999999999


Q ss_pred             HHHHcCC-----cc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHc----CC-CCchhhHHHHHHHHHhcCCHHHHHHHH
Q 020202          147 KMIKQGF-----VL-DLETFNSLIETICKSGEVEFCVEMYYSVCKL----GL-CADVSTYKILIPAVSKAGMIDEAFRLL  215 (329)
Q Consensus       147 ~~~~~~~-----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~  215 (329)
                      +..+...     .+ ...+++.+..+|...|++++|.+.+++..+.    +. .....++..+..+|...|++++|...+
T Consensus       166 ~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~  245 (378)
T 3q15_A          166 QALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHF  245 (378)
T ss_dssp             HHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            8775311     11 2457788899999999999999999987653    11 112457888999999999999999999


Q ss_pred             HHHHh-----CCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCC----CCChhhHHHHHHHHhccCC---HHHHHH
Q 020202          216 HNLVE-----DGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH----PPNRPVYTMLITMCGRGGR---FVEAAN  283 (329)
Q Consensus       216 ~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~---~~~a~~  283 (329)
                      ++..+     .... ...++..+...+.+.|++++|...+++......    +.....+..+...+...++   +.+|..
T Consensus       246 ~~al~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~  324 (378)
T 3q15_A          246 QKAAKVSREKVPDL-LPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLS  324 (378)
T ss_dssp             HHHHHHHHHHCGGG-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHH
T ss_pred             HHHHHHHHhhCChh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            99876     4332 367788899999999999999999999887522    2223345666667777888   777777


Q ss_pred             HHHHHHhCCCCCC-hhhHHHHHHHHHhCCchhHHHHHHHHHhhhc
Q 020202          284 YLVEMTEMGLTPI-SRCFDLVTDGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       284 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      .+++   .+..|+ ...+..+...|...|++++|.+.++...+++
T Consensus       325 ~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          325 YFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            7765   233333 4567789999999999999999998877653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=5.5e-15  Score=118.28  Aligned_cols=97  Identities=14%  Similarity=0.050  Sum_probs=49.4

Q ss_pred             cHHHHHHHHHhcCChHHHHHHHHHHHHc------CC-ccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc------CCCC
Q 020202          124 GRDLLVQGLLNAGYLESAKQMVNKMIKQ------GF-VLDLETFNSLIETICKSGEVEFCVEMYYSVCKL------GLCA  190 (329)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~  190 (329)
                      ++..+...+...|++++|...+++..+.      +. ......+..+...+...|++++|.+.+++..+.      +..|
T Consensus       113 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  192 (311)
T 3nf1_A          113 TLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDP  192 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCH
Confidence            3444445555555555555555544432      11 112334555555566666666666666655442      1111


Q ss_pred             -chhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          191 -DVSTYKILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       191 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                       ...++..+..++...|++++|...++++.+
T Consensus       193 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          193 NVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             233455566666666666666666666553

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=3.5e-15  Score=119.39  Aligned_cols=173  Identities=14%  Similarity=0.124  Sum_probs=140.8

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhc-------CCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-----
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAF-------NCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK-----   81 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----   81 (329)
                      +.+..++..+...+...|++++|..+|+++.+.       ..+....++..+...+...|++++|...+++....     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            334677899999999999999999999998763       33556778999999999999999999999998764     


Q ss_pred             -C-CccChHHHHHHHHHHHhcCchhHHHHHHHHHHhC------CC-CCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc-
Q 020202           82 -G-FVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK------GF-NPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ-  151 (329)
Q Consensus        82 -~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  151 (329)
                       + .+....++..+...+...|++++|...+++..+.      +. +.....+..+...+...|++++|.+.++++.+. 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             2 2234567888999999999999999999988764      21 223456788899999999999999999988765 


Q ss_pred             -----CCcc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 020202          152 -----GFVL-DLETFNSLIETICKSGEVEFCVEMYYSVCKL  186 (329)
Q Consensus       152 -----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  186 (329)
                           +..| ...++..+..++...|++++|...+++..+.
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                 2122 3457888899999999999999999998763

>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=99.63  E-value=1.6e-12  Score=118.49  Aligned_cols=253  Identities=17%  Similarity=0.147  Sum_probs=136.3

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHH
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      ..+++++|.++.++.      .+..+|..+..++...|++++|.+.|.+.      -|...|..++.++.+.|++++|.+
T Consensus      1088 ~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIe 1155 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK 1155 (1630)
T ss_pred             HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHH
Confidence            444555555555433      12445555555555555555555555332      244445555555555555555555


Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHhcCCh----------------------------HHHHHHHHHHHHcCCccCHHhH
Q 020202          109 FLQEMSDKGFNPPVRGRDLLVQGLLNAGYL----------------------------ESAKQMVNKMIKQGFVLDLETF  160 (329)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------------------------~~a~~~~~~~~~~~~~~~~~~~  160 (329)
                      ++....+..  +++...+.++.+|++.+++                            ++|...|...         ..|
T Consensus      1156 yL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny 1224 (1630)
T 1xi4_A         1156 YLQMARKKA--RESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF 1224 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHhCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHH
Confidence            555444432  2222222345555555544                            4444444442         234


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc
Q 020202          161 NSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR  240 (329)
Q Consensus       161 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  240 (329)
                      ..+..++.+.|++++|.+.+++.      .+..+|..+..+|...|++..|......     +..++..+..++..|.+.
T Consensus      1225 ~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~ 1293 (1630)
T 1xi4_A         1225 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDR 1293 (1630)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHc
Confidence            44444444444444444444433      2234444444444444444444443322     223555667788888888


Q ss_pred             CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhc--cCCHHHHHHHHHHHHhCCCCC------ChhhHHHHHHHHHhCCc
Q 020202          241 GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGR--GGRFVEAANYLVEMTEMGLTP------ISRCFDLVTDGLKNCGK  312 (329)
Q Consensus       241 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~  312 (329)
                      |.+++|+.+++...... +-....|+-+...+.+  .++..++.+.|..-.  +++|      +...|..+...|.+.|+
T Consensus      1294 G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e 1370 (1630)
T 1xi4_A         1294 GYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEE 1370 (1630)
T ss_pred             CCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhccc
Confidence            99999998888777553 3345566666666654  344555555554322  2333      46678889999999999


Q ss_pred             hhHHHH
Q 020202          313 HDLAEK  318 (329)
Q Consensus       313 ~~~a~~  318 (329)
                      ++.|..
T Consensus      1371 ~dnA~~ 1376 (1630)
T 1xi4_A         1371 YDNAII 1376 (1630)
T ss_pred             HHHHHH
Confidence            998873

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.63  E-value=2.9e-14  Score=120.80  Aligned_cols=213  Identities=11%  Similarity=0.021  Sum_probs=168.9

Q ss_pred             chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHH
Q 020202          102 KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL-ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMY  180 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  180 (329)
                      .++++.+.++...... +.+...+..+...+...|++ ++|++.|++..+.... +...|..+..+|...|++++|.+.|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3566777777766543 44677788888888899999 9999999988887533 5778888889999999999999999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc--------CCh
Q 020202          181 YSVCKLGLCADVSTYKILIPAVSKA---------GMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR--------GQF  243 (329)
Q Consensus       181 ~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~  243 (329)
                      ++..+..  |+...+..+..++...         |++++|...+++..+.... +...|..+..+|...        |++
T Consensus       161 ~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchH
Confidence            9888764  5567888888888888         8899999999988876433 577888888888888        889


Q ss_pred             hHHHHHHHHHHHcCCC--CChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHH
Q 020202          244 DDAFCFFSEMKIKGHP--PNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIE  320 (329)
Q Consensus       244 ~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  320 (329)
                      ++|...|++..+....  .+...|..+..+|...|++++|...|++..+.. +-+...+..+..++...|++++|.+.+
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999988876210  377888888889999999999999998888754 234667888888888888888887643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.60  E-value=2.4e-12  Score=105.88  Aligned_cols=299  Identities=13%  Similarity=0.025  Sum_probs=208.5

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccH----HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc-cC----hHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCV----LLYNSLLFALCEVKLFHGAYALIRRMIRKGFV-PD----KRT   89 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~   89 (329)
                      ........+...|++++|...++.........+.    .+++.+...+...|++++|.+.+++....... ++    ..+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            3445556677899999999999998765422222    25677778888999999999999988753211 12    233


Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhC----CCC--C-CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCcc----CHH
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDK----GFN--P-PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVL----DLE  158 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~  158 (329)
                      +..+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++..+.....    ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            567788899999999999999988653    211  2 23455667888999999999999999887653221    234


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCch-hhHH-----HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---hhh
Q 020202          159 TFNSLIETICKSGEVEFCVEMYYSVCKLGLCADV-STYK-----ILIPAVSKAGMIDEAFRLLHNLVEDGHKPF---PSL  229 (329)
Q Consensus       159 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~  229 (329)
                      ++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......+.   ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            6777888899999999999999998754222211 1121     233457789999999999998775432211   224


Q ss_pred             HHHHHHHHHccCChhHHHHHHHHHHHc----CCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHHHhC----CCC----CC
Q 020202          230 YAPIIKGMFRRGQFDDAFCFFSEMKIK----GHPPNR-PVYTMLITMCGRGGRFVEAANYLVEMTEM----GLT----PI  296 (329)
Q Consensus       230 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~----p~  296 (329)
                      +..+...+...|++++|...++.....    |.+++. ..+..+..++...|+.++|...+++....    |..    ..
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~~~~  335 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIE  335 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccccHHHHHHHc
Confidence            567788899999999999999887643    222222 35666778888999999999999887642    221    11


Q ss_pred             hhhHHHHHHHHHhCCchhHHH
Q 020202          297 SRCFDLVTDGLKNCGKHDLAE  317 (329)
Q Consensus       297 ~~~~~~l~~~~~~~g~~~~a~  317 (329)
                      ......++..+...+..+++.
T Consensus       336 g~~~~~ll~~~~~~~~~~~~~  356 (373)
T 1hz4_A          336 GEAMAQQLRQLIQLNTLPELE  356 (373)
T ss_dssp             HHHHHHHHHHHHHTTCSCHHH
T ss_pred             cHHHHHHHHHHHhCCCCchHH
Confidence            223455667777777764443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.59  E-value=4.9e-13  Score=110.39  Aligned_cols=231  Identities=10%  Similarity=0.043  Sum_probs=176.2

Q ss_pred             HHHHHHhcchHHHHHHHHHHHHHc----CCcc-ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC-C-----CcccHH
Q 020202           58 LLFALCEVKLFHGAYALIRRMIRK----GFVP-DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN-P-----PVRGRD  126 (329)
Q Consensus        58 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~~~~~  126 (329)
                      ....+...|++++|...|++..+.    +-.+ ...++..+...+...|+++.|...+++..+.... +     ...+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            566778899999999999998864    1111 3467888999999999999999999988654211 1     134678


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCc-c----CHHhHHHHHHHHHccCCHHHHHHHHHHHHH-----cCCCCchhhHH
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFV-L----DLETFNSLIETICKSGEVEFCVEMYYSVCK-----LGLCADVSTYK  196 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  196 (329)
                      .+...|...|++++|...+++..+.... +    ...++..+..+|...|++++|...+++..+     ...+....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8889999999999999999987754111 1    124788899999999999999999999876     22234467889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCCChhhHHHHHHHHHccCC---hhHHHHHHHHHHHcCCCCChhhHHHHH
Q 020202          197 ILIPAVSKAGMIDEAFRLLHNLVED----GHKPFPSLYAPIIKGMFRRGQ---FDDAFCFFSEMKIKGHPPNRPVYTMLI  269 (329)
Q Consensus       197 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~  269 (329)
                      .+...+.+.|++++|...+++..+.    +.+.....+..+...+...|+   +++|..++++...  .+.....+..+.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~--~~~~~~~~~~la  346 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML--YADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC--HHHHHHHHHHHH
Confidence            9999999999999999999987653    111122335678888889998   6777777766521  122345677888


Q ss_pred             HHHhccCCHHHHHHHHHHHHh
Q 020202          270 TMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       270 ~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      ..|...|++++|...+++..+
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998874

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.59  E-value=3.1e-12  Score=107.79  Aligned_cols=189  Identities=11%  Similarity=0.008  Sum_probs=121.6

Q ss_pred             CcccHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc----CCHHHHHHHHHHHHHcCCCCchh
Q 020202          121 PVRGRDLLVQGLLNAG---YLESAKQMVNKMIKQGFVLDLETFNSLIETICKS----GEVEFCVEMYYSVCKLGLCADVS  193 (329)
Q Consensus       121 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~  193 (329)
                      ++..+..+...|...|   +.++|++.|++..+.|.. +...+..+...|...    +++++|...|++.. .   -+..
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~  249 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPA  249 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTH
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHH
Confidence            3346777777777777   777888888877777643 555445566666544    67788888887766 2   3444


Q ss_pred             hHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC-----ChhHHHHHHHHHHHcCCCCChhhH
Q 020202          194 TYKILIPA-V--SKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRG-----QFDDAFCFFSEMKIKGHPPNRPVY  265 (329)
Q Consensus       194 ~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~  265 (329)
                      .+..+... +  ...+++++|..+|++..+.|   +...+..+...|. .|     ++++|..+|++.. .   -+...+
T Consensus       250 a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~  321 (452)
T 3e4b_A          250 SWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAAD  321 (452)
T ss_dssp             HHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHH
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHH
Confidence            55555555 3  45677888888888877765   4556666666665 44     7778888877766 3   355666


Q ss_pred             HHHHHHHhc----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHh----CCchhHHHHHHHHHhh
Q 020202          266 TMLITMCGR----GGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIELLEVS  325 (329)
Q Consensus       266 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~  325 (329)
                      ..|...|..    ..++++|..+|++..+.|.   ......|...|..    ..+.++|...+++..+
T Consensus       322 ~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          322 YYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             HHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            666666654    3477888888877776653   2344445555543    3466677776666543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.59  E-value=3.2e-12  Score=105.07  Aligned_cols=273  Identities=13%  Similarity=0.005  Sum_probs=195.1

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChH----HHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCC----ccc
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKR----TYAILVNAWCSSGKMREAQEFLQEMSDKGF-NPP----VRG  124 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~  124 (329)
                      ........+...|++++|...+++........+..    ++..+...+...|++++|...+++.....- ..+    ..+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            34445566778999999999999988764322222    456677788899999999999998865321 111    123


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc----CCc--c-CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC----chh
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQ----GFV--L-DLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCA----DVS  193 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~  193 (329)
                      +..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++........    ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            566778899999999999999987653    211  2 23456678888999999999999999987643221    235


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh-hhHH-----HHHHHHHccCChhHHHHHHHHHHHcCCCCC---hhh
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFP-SLYA-----PIIKGMFRRGQFDDAFCFFSEMKIKGHPPN---RPV  264 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~  264 (329)
                      ++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......++   ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            6778888999999999999999998754211111 1121     233447799999999999998876432211   224


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHh----CCCCCCh-hhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          265 YTMLITMCGRGGRFVEAANYLVEMTE----MGLTPIS-RCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       265 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      +..+...+...|++++|...+++...    .+..++. ..+..+..++...|+.++|.+.++....+
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            56778889999999999999988764    2322222 36777788899999999999988776543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.58  E-value=2.9e-13  Score=114.01  Aligned_cols=284  Identities=12%  Similarity=0.017  Sum_probs=158.5

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchH---HHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLF---HGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      +...+.+.|++++|.++|+...+.|   +...+..|...|...|+.   ++|..+|++..+.    +...+..+...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            3444555566666666666655443   222333344444444444   5555555555432    22233334332333


Q ss_pred             cC-----chhHHHHHHHHHHhCCCC--------------------------------CCcccHHHHHHHHHhcCChHHHH
Q 020202          100 SG-----KMREAQEFLQEMSDKGFN--------------------------------PPVRGRDLLVQGLLNAGYLESAK  142 (329)
Q Consensus       100 ~~-----~~~~a~~~~~~~~~~~~~--------------------------------~~~~~~~~l~~~~~~~~~~~~a~  142 (329)
                      .+     ++++|...|++..+.|.+                                .++.....+...|...+.++++.
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~  161 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHL  161 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGH
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCH
Confidence            22     445555555555544311                                11233334444444444333333


Q ss_pred             HHHHHHHHcCCccCHHhHHHHHHHHHccC---CHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc----CCHHHHHHHH
Q 020202          143 QMVNKMIKQGFVLDLETFNSLIETICKSG---EVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA----GMIDEAFRLL  215 (329)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~  215 (329)
                      .....+.+.-...++..+..+...|...|   +.++|++.|++..+.|. ++...+..+...|...    +++++|..+|
T Consensus       162 ~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~  240 (452)
T 3e4b_A          162 DDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTAQALL  240 (452)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHHHHHH
Confidence            33222222211224447777888888888   88899999988888775 5555556666676554    6889999999


Q ss_pred             HHHHhCCCCCChhhHHHHHHH-H--HccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccC-----CHHHHHHHHHH
Q 020202          216 HNLVEDGHKPFPSLYAPIIKG-M--FRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGG-----RFVEAANYLVE  287 (329)
Q Consensus       216 ~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~  287 (329)
                      ++.. .|   +...+..+... +  ...+++++|..+|++..+.|   +...+..+...|. .|     ++++|.++|++
T Consensus       241 ~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~  312 (452)
T 3e4b_A          241 EKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEK  312 (452)
T ss_dssp             HHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHT
T ss_pred             HHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHH
Confidence            8877 33   45566666665 4  56788999999999988775   5667777777776 44     88999999888


Q ss_pred             HHhCCCCCChhhHHHHHHHHHh----CCchhHHHHHHHHHhhh
Q 020202          288 MTEMGLTPISRCFDLVTDGLKN----CGKHDLAEKIELLEVSL  326 (329)
Q Consensus       288 ~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~  326 (329)
                      ..    +-+......|...|..    ..++++|.+.++...+.
T Consensus       313 Aa----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  351 (452)
T 3e4b_A          313 AV----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN  351 (452)
T ss_dssp             TT----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT
T ss_pred             Hh----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh
Confidence            76    3356677777777766    34888898888876653

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.58  E-value=1.2e-11  Score=106.58  Aligned_cols=259  Identities=8%  Similarity=0.001  Sum_probs=192.1

Q ss_pred             ccCchhHHHHHHHHh------hhcC---CCcc--------HHHHHHHHHHHHhc----ch----HHHHHHHHHHHHHcCC
Q 020202           29 KHGLVDNAVEVFNKC------TAFN---CQQC--------VLLYNSLLFALCEV----KL----FHGAYALIRRMIRKGF   83 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~------~~~~---~~~~--------~~~~~~l~~~~~~~----~~----~~~a~~~~~~~~~~~~   83 (329)
                      +.+++..|..++...      .+..   ++|+        ...|...+......    ++    .+++..+|++..... 
T Consensus       190 ~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-  268 (530)
T 2ooe_A          190 RSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-  268 (530)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-
Confidence            345677787777663      2221   2443        35666655443322    12    247788899888763 


Q ss_pred             ccChHHHHHHHHHHHh-------cCchh-------HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           84 VPDKRTYAILVNAWCS-------SGKMR-------EAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                      +-+...|..++..+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+.|++++|..+|+++.
T Consensus       269 p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al  348 (530)
T 2ooe_A          269 GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLL  348 (530)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Confidence            3367788888888775       78887       899999999863234567889999999999999999999999999


Q ss_pred             HcCCccCH-HhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCh
Q 020202          150 KQGFVLDL-ETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA-VSKAGMIDEAFRLLHNLVEDGHKPFP  227 (329)
Q Consensus       150 ~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~  227 (329)
                      +.... +. ..|..++..+.+.|++++|.++|++..+... .+...|...... +...|+.++|..+|+...+... -+.
T Consensus       349 ~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p-~~~  425 (530)
T 2ooe_A          349 AIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIP  425 (530)
T ss_dssp             HSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHT-TCH
T ss_pred             Ccccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCC-CCH
Confidence            86322 33 5888999999999999999999999987633 233333332222 3468999999999999887642 367


Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHcCC-CCC--hhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 020202          228 SLYAPIIKGMFRRGQFDDAFCFFSEMKIKGH-PPN--RPVYTMLITMCGRGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       228 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  291 (329)
                      ..|..++..+.+.|+.++|..+|++....+. .|+  ...|...+......|+.+.+.++.+++.+.
T Consensus       426 ~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          426 EYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8899999999999999999999999998632 232  347777788888899999999999998764

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.57  E-value=6.6e-13  Score=97.57  Aligned_cols=164  Identities=13%  Similarity=0.031  Sum_probs=106.4

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAW   97 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (329)
                      ..+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            455666677777777777777777776654 5566677777777777777777777777776653 22455666666667


Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCV  177 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  177 (329)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHHH
Confidence            77777777777777666553 344555666666666666666666666666655322 4555666666666666666666


Q ss_pred             HHHHHHHH
Q 020202          178 EMYYSVCK  185 (329)
Q Consensus       178 ~~~~~~~~  185 (329)
                      ..++...+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666554

>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=99.55  E-value=4e-13  Score=118.52  Aligned_cols=168  Identities=11%  Similarity=0.040  Sum_probs=147.5

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      |-++.+|+.|...+.+.|++++|++.|++..+.. |.+..+|+.+..+|.+.|++++|++.|++..+.... +...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            3457889999999999999999999999999887 777899999999999999999999999999887533 67789999


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      ..++...|++++|++.|++..+.. +-+...++.+..+|...|++++|++.|++..+.... +...+..+..++...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccH
Confidence            999999999999999999998875 456788999999999999999999999999987544 678899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 020202          174 EFCVEMYYSVCK  185 (329)
Q Consensus       174 ~~a~~~~~~~~~  185 (329)
                      ++|.+.+++..+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888887654

>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=99.52  E-value=1.4e-12  Score=115.08  Aligned_cols=168  Identities=15%  Similarity=0.033  Sum_probs=148.7

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      |.+..+|+.|...+.+.|++++|++.|++..+.... +..++..+..++.+.|++++|+..|++..+.. +-+...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            556889999999999999999999999999987533 67889999999999999999999999998875 4567889999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  208 (329)
                      ..++...|++++|++.|++..+.... +...|..+..++...|++++|++.|++..+..+ -+...+..+..++...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhcccH
Confidence            99999999999999999999987544 678999999999999999999999999988654 4577899999999999999


Q ss_pred             HHHHHHHHHHHh
Q 020202          209 DEAFRLLHNLVE  220 (329)
Q Consensus       209 ~~a~~~~~~~~~  220 (329)
                      ++|.+.++++.+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999988887654

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.52  E-value=3.5e-12  Score=93.67  Aligned_cols=163  Identities=12%  Similarity=0.111  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 020202           53 LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGL  132 (329)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (329)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            445555566666666666666666555432 2244555556666666666666666666655543 33444555555555


Q ss_pred             HhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHH
Q 020202          133 LNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAF  212 (329)
Q Consensus       133 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  212 (329)
                      ...|++++|.+.++++.+... .+...+..+...+...|++++|...+++..+..+ .+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHH
Confidence            556666666666655555432 2444555555555555555555555555544432 23444455555555555555555


Q ss_pred             HHHHHHH
Q 020202          213 RLLHNLV  219 (329)
Q Consensus       213 ~~~~~~~  219 (329)
                      ..++++.
T Consensus       165 ~~~~~~~  171 (186)
T 3as5_A          165 PHFKKAN  171 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555544

>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=99.51  E-value=7.5e-12  Score=95.42  Aligned_cols=135  Identities=14%  Similarity=-0.001  Sum_probs=79.6

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      .|+..+......+...|++++|...|+...+...+++...+..+..++...|++++|++.|++..+.... +...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3556666666666667777777777776666552255555555666666666666666666666654322 445566666


Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCCc-------ccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPPV-------RGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .++...|++++|...+++..+.. +.+.       ..|..+...+...|++++|.+.+++..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~  146 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV  146 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc
Confidence            66666666666666666665543 2223       23444445555555555555555555544

>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=99.49  E-value=9.8e-12  Score=94.78  Aligned_cols=181  Identities=10%  Similarity=-0.071  Sum_probs=150.8

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      +.|+..+......+...|++++|...|++..+...+++...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            346788889999999999999999999999988654688888889999999999999999999999875 4467788999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCH-------HhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--chhhHHHHH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDL-------ETFNSLIETICKSGEVEFCVEMYYSVCKLGLCA--DVSTYKILI  199 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~  199 (329)
                      ..++...|++++|...+++..+.... +.       ..|..+...+...|++++|.+.|++..+..+ .  +...+..+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~l~  160 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTS-KKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSC-HHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCC-CcccHHHHHHHH
Confidence            99999999999999999999987433 44       5688899999999999999999999988643 2  356788888


Q ss_pred             HHHHhcCCH---------------------------HHHHHHHHHHHhCCCCCChhhHHHH
Q 020202          200 PAVSKAGMI---------------------------DEAFRLLHNLVEDGHKPFPSLYAPI  233 (329)
Q Consensus       200 ~~~~~~~~~---------------------------~~a~~~~~~~~~~~~~~~~~~~~~l  233 (329)
                      .+|...|+.                           ++|...+++..+..+. +..+...+
T Consensus       161 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQ  220 (228)
T ss_dssp             HHHHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHH
Confidence            888888877                           9999999999886432 34443333

>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=99.48  E-value=1.5e-12  Score=102.42  Aligned_cols=228  Identities=12%  Similarity=0.040  Sum_probs=158.9

Q ss_pred             HccCchhHHHHHHHHhhh-------cCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc------C-CccChHHHHHH
Q 020202           28 GKHGLVDNAVEVFNKCTA-------FNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK------G-FVPDKRTYAIL   93 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l   93 (329)
                      ...|++++|...|++..+       .+.+....++..+...+...|++++|...+++..+.      + .+....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            356777777777776654       233456778999999999999999999999998864      2 12345678889


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCC-------CCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc------CCcc-CHHh
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKG-------FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ------GFVL-DLET  159 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  159 (329)
                      ...+...|++++|...+++..+..       .+....++..+...+...|++++|...+++..+.      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            999999999999999999886541       1233567888899999999999999999988765      1122 3567


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHc-------CCCCc-hhhHHHHHHHHHhcCCH------HHHHHHHHHHHhCCCCC
Q 020202          160 FNSLIETICKSGEVEFCVEMYYSVCKL-------GLCAD-VSTYKILIPAVSKAGMI------DEAFRLLHNLVEDGHKP  225 (329)
Q Consensus       160 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~  225 (329)
                      +..+..++...|++++|...+++..+.       ...+. ...+..+...+...+..      ..+...++.... ....
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888999999999999999999988753       11222 23333333333333322      222222222111 1122


Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          226 FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       226 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      ...++..+...|...|++++|..++++..+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457888999999999999999999988753

>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=99.48  E-value=1.7e-12  Score=102.10  Aligned_cols=157  Identities=14%  Similarity=0.081  Sum_probs=104.5

Q ss_pred             hcchHHHHHHHHHHHHH-------cCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhC------C-CCCCcccHHHHH
Q 020202           64 EVKLFHGAYALIRRMIR-------KGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK------G-FNPPVRGRDLLV  129 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~  129 (329)
                      ..|++++|...+++..+       ...+....++..+...+...|++++|...+++..+.      + .+....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            44555666666555543       222334567888888888999999999988887654      1 122345677788


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc------C-CccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc------CCCC-chhhH
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQ------G-FVLDLETFNSLIETICKSGEVEFCVEMYYSVCKL------GLCA-DVSTY  195 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~  195 (329)
                      ..+...|++++|...+++..+.      . .+....++..+...+...|++++|...+++..+.      +..| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            8888888888888888877654      1 1223456677777777888888888887777654      1112 24566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          196 KILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       196 ~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                      ..+..++...|++++|..+++++.+
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6677777777777777777776654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.48  E-value=1.1e-11  Score=102.12  Aligned_cols=231  Identities=11%  Similarity=0.041  Sum_probs=173.5

Q ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHcCC-cc----ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC--CC----CCccc
Q 020202           56 NSLLFALCEVKLFHGAYALIRRMIRKGF-VP----DKRTYAILVNAWCSSGKMREAQEFLQEMSDKG--FN----PPVRG  124 (329)
Q Consensus        56 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~----~~~~~  124 (329)
                      ......+...|++++|...|++..+... .+    ...++..+...+...|+++.|...+++..+..  ..    ....+
T Consensus       105 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          105 FFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            3445567789999999999999886421 12    24578888999999999999999999886531  11    12446


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHc----CCcc-CHHhHHHHHHHHHccCCHHHHHHHHHHHHH-----cCCCCchhh
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQ----GFVL-DLETFNSLIETICKSGEVEFCVEMYYSVCK-----LGLCADVST  194 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  194 (329)
                      ++.+..+|...|++++|.+.+++..+.    +..+ ...++..+..+|...|++++|.+.+++...     ..+ ....+
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~-~~~~~  263 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPD-LLPKV  263 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGG-GHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCCh-hHHHH
Confidence            778899999999999999999987763    1111 235678889999999999999999999876     333 33778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCC----CCChhhHHHHHHHHHccCC---hhHHHHHHHHHHHcCCCC-ChhhHH
Q 020202          195 YKILIPAVSKAGMIDEAFRLLHNLVEDGH----KPFPSLYAPIIKGMFRRGQ---FDDAFCFFSEMKIKGHPP-NRPVYT  266 (329)
Q Consensus       195 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~-~~~~~~  266 (329)
                      +..+...+.+.|++++|...+++..+...    +.....+..+...+...++   +.+|...++..   +..| ....+.
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~  340 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACAR  340 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHH
Confidence            88999999999999999999999876421    1123345666667777888   67777777652   2222 334667


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHh
Q 020202          267 MLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       267 ~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      .+...|...|++++|...+++..+
T Consensus       341 ~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          341 SAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            788899999999999999998764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.42  E-value=4.8e-11  Score=94.55  Aligned_cols=234  Identities=12%  Similarity=0.013  Sum_probs=159.4

Q ss_pred             hHHHHHHHHhhhcCCCccHHHHHHHHHHHHh--cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHH
Q 020202           34 DNAVEVFNKCTAFNCQQCVLLYNSLLFALCE--VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQ  111 (329)
Q Consensus        34 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  111 (329)
                      .+|.+++.+..+.- +++...| .+.   ..  .+++++|...|++.               ...+...|++++|...|+
T Consensus         2 ~~a~~~~~~a~k~~-~~~~~~~-~~~---~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~   61 (292)
T 1qqe_A            2 SDPVELLKRAEKKG-VPSSGFM-KLF---SGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFL   61 (292)
T ss_dssp             CCHHHHHHHHHHHS-SCCCTHH-HHH---SCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHH
T ss_pred             CcHHHHHHHHHHHh-CcCCCcc-hhc---CCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHH
Confidence            35777777777653 3333334 322   22  22588888888776               345778899999999998


Q ss_pred             HHHhC----CCCC-CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCcc-C----HHhHHHHHHHHHcc-CCHHHHHHHH
Q 020202          112 EMSDK----GFNP-PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVL-D----LETFNSLIETICKS-GEVEFCVEMY  180 (329)
Q Consensus       112 ~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~-~~~~~a~~~~  180 (329)
                      +....    +-++ ...+|+.+..+|.+.|++++|+..+++..+..... +    ..+++.+...|... |++++|+..|
T Consensus        62 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~  141 (292)
T 1qqe_A           62 KAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCY  141 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHH
Confidence            87553    2111 14578888999999999999999999877642110 1    34778888888886 9999999999


Q ss_pred             HHHHHcCCCC-c----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChh------hHHHHHHHHHccCChhHHHHH
Q 020202          181 YSVCKLGLCA-D----VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPS------LYAPIIKGMFRRGQFDDAFCF  249 (329)
Q Consensus       181 ~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~  249 (329)
                      ++..+..... +    ..++..+...+.+.|++++|...|++..+........      .+..+..++...|++++|...
T Consensus       142 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  221 (292)
T 1qqe_A          142 ELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAART  221 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9887642211 1    3467888888999999999999999988764332221      466777888889999999999


Q ss_pred             HHHHHHcCCCCCh------hhHHHHHHHHh--ccCCHHHHHHHHHHHH
Q 020202          250 FSEMKIKGHPPNR------PVYTMLITMCG--RGGRFVEAANYLVEMT  289 (329)
Q Consensus       250 ~~~~~~~~~~~~~------~~~~~l~~~~~--~~~~~~~a~~~~~~~~  289 (329)
                      +++....  .|+.      ..+..++.++.  ..+++++|...|+.+.
T Consensus       222 ~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          222 LQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            9888764  2321      12344555554  4566777777776553

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.41  E-value=4.5e-11  Score=94.74  Aligned_cols=208  Identities=13%  Similarity=-0.020  Sum_probs=125.6

Q ss_pred             chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc----CCccC-hHHHHHHHHHHHhcCchhHH
Q 020202           32 LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK----GFVPD-KRTYAILVNAWCSSGKMREA  106 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a  106 (329)
                      ++++|...|+..               ...|...|++++|.+.|++....    |.+++ ..+|+.+..+|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            366666666554               34566677778887777766543    21111 45677777778888888888


Q ss_pred             HHHHHHHHhCCCC-CC----cccHHHHHHHHHhc-CChHHHHHHHHHHHHcCCcc-C----HHhHHHHHHHHHccCCHHH
Q 020202          107 QEFLQEMSDKGFN-PP----VRGRDLLVQGLLNA-GYLESAKQMVNKMIKQGFVL-D----LETFNSLIETICKSGEVEF  175 (329)
Q Consensus       107 ~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~  175 (329)
                      +..+++..+.... .+    ..+++.+...|... |++++|+..+++..+..... +    ..++..+...+...|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            8877777543210 01    23566777777775 88888888887776542110 1    2456677777788888888


Q ss_pred             HHHHHHHHHHcCCCCchh------hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CChh---hHHHHHHHHH--ccCCh
Q 020202          176 CVEMYYSVCKLGLCADVS------TYKILIPAVSKAGMIDEAFRLLHNLVEDGHK-PFPS---LYAPIIKGMF--RRGQF  243 (329)
Q Consensus       176 a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~---~~~~l~~~~~--~~~~~  243 (329)
                      |...|++..+..+.....      .+..+..++...|++++|...|++..+.... ++..   .+..++.++.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            888888777654332221      4566667777778888888888776654221 1111   2333444443  34556


Q ss_pred             hHHHHHHHHHH
Q 020202          244 DDAFCFFSEMK  254 (329)
Q Consensus       244 ~~a~~~~~~~~  254 (329)
                      ++|...|+.+.
T Consensus       257 ~~A~~~~~~~~  267 (292)
T 1qqe_A          257 SEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHTTSS
T ss_pred             HHHHHHhccCC
Confidence            66666665544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.41  E-value=6.1e-11  Score=92.38  Aligned_cols=103  Identities=21%  Similarity=0.128  Sum_probs=82.7

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc---HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc-c-ChH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC---VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV-P-DKR   88 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~   88 (329)
                      +.++..+..+...+.+.|++++|+..|+.+.+.. |.+   ...+..+..++.+.|++++|...|++..+..+. | ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            4467778888888899999999999999998865 444   678888899999999999999999999876321 1 244


Q ss_pred             HHHHHHHHHHh--------cCchhHHHHHHHHHHhCC
Q 020202           89 TYAILVNAWCS--------SGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        89 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~  117 (329)
                      .+..+..++..        .|++++|...|+++.+..
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC
Confidence            66777778888        899999999999988764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.37  E-value=8e-11  Score=81.36  Aligned_cols=130  Identities=16%  Similarity=0.179  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      .+..+...+...|++++|..+++.+.+.+ +.+...+..+...+...|++++|...++++...+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34555566666666666666666665544 4455556666666666666666666666665543 223445555555556


Q ss_pred             hcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           99 SSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ..|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            6666666666665555443 233444555555555555555555555555443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.35  E-value=1e-10  Score=87.78  Aligned_cols=188  Identities=14%  Similarity=0.020  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      +..+-.....+...|++++|+..|+...+.+ |.+...|...     ...              ............+..+
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~-----~~~--------------~~~~~~~~~~~~lg~~   63 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWT-----NVD--------------KNSEISSKLATELALA   63 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHH-----HSC--------------TTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHh-----hhc--------------chhhhhHHHHHHHHHH
Confidence            3444455566677888888888888887765 4344444440     000              0000011122335555


Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC--HH
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE--VE  174 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~  174 (329)
                      +.+.|++++|...+++..+.. |.+...+..+..++...|++++|...|++..+..+. +..++..+..+|...|+  .+
T Consensus        64 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~  141 (208)
T 3urz_A           64 YKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKK  141 (208)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHH
Confidence            666666666666666665543 334555666666666666666666666666655332 45555555555544332  23


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhH
Q 020202          175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLY  230 (329)
Q Consensus       175 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  230 (329)
                      .+...+.....  +.|....+.....++...|++++|...|++..+.  .|+....
T Consensus       142 ~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~  193 (208)
T 3urz_A          142 KLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQ  193 (208)
T ss_dssp             HHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHH
T ss_pred             HHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHH
Confidence            33444443322  1122222333344445556666666666666553  3444433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.35  E-value=3.1e-09  Score=83.78  Aligned_cols=221  Identities=6%  Similarity=-0.047  Sum_probs=134.5

Q ss_pred             ccCc-hhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc--hHHHHHHHHHHHHHcCCccChHHHHHHHHHH----Hhc-
Q 020202           29 KHGL-VDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK--LFHGAYALIRRMIRKGFVPDKRTYAILVNAW----CSS-  100 (329)
Q Consensus        29 ~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~-  100 (329)
                      +.|. .++|+..++.+...+ |-+..+|+.--..+...+  +++++++.++.+....++ +..+|+.--..+    ... 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcc
Confidence            4444 468999999988887 777888888888887777  888888888888876544 555665544444    444 


Q ss_pred             --CchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH--HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC----
Q 020202          101 --GKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLE--SAKQMVNKMIKQGFVLDLETFNSLIETICKSGE----  172 (329)
Q Consensus       101 --~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  172 (329)
                        +++++++.+++.+.+.. +-+..+|+....++.+.|.++  ++++.++++.+..+. |...|+.....+...+.    
T Consensus       122 ~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCH
T ss_pred             ccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchh
Confidence              67788888888887765 556777777777777777777  788888888777554 66666665555555554    


Q ss_pred             --HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHH-HHHHHHHHHhCC--CCCChhhHHHHHHHHHccCChhHHH
Q 020202          173 --VEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDE-AFRLLHNLVEDG--HKPFPSLYAPIIKGMFRRGQFDDAF  247 (329)
Q Consensus       173 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  247 (329)
                        ++++++.++.+....+ -|...|+.+-..+.+.|+... +..+..++.+.+  -..++..+..+...+.+.|+.++|.
T Consensus       200 ~~~~eEl~~~~~aI~~~p-~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          200 NTIDEELNYVKDKIVKCP-QNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCC-CCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence              5555555555555443 444555555555544444222 223333332211  0113334444444444444444444


Q ss_pred             HHHHHHH
Q 020202          248 CFFSEMK  254 (329)
Q Consensus       248 ~~~~~~~  254 (329)
                      ++++.+.
T Consensus       279 ~~~~~l~  285 (306)
T 3dra_A          279 TVYDLLK  285 (306)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.34  E-value=3.2e-10  Score=88.60  Aligned_cols=245  Identities=11%  Similarity=0.011  Sum_probs=163.8

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      ++-..-.|++..++.-...+..   ......-.-+.++++..|+++..         ....|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc--
Confidence            3445567888888873333222   11223333456778877776642         12334443444444433 322  


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCC-ccCHHhHHHHHHHHHccCCHHHHHHHHHH
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGF-VLDLETFNSLIETICKSGEVEFCVEMYYS  182 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  182 (329)
                        +...+++....+ +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.
T Consensus        85 --a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 --NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             --CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              677788777655 45566667888889999999999999998877654 12566778888999999999999999999


Q ss_pred             HHHcCCCC-----chhhHHHHHHHH--HhcC--CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHH
Q 020202          183 VCKLGLCA-----DVSTYKILIPAV--SKAG--MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEM  253 (329)
Q Consensus       183 ~~~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  253 (329)
                      |.+.  .|     +..+...+..++  ...|  ++++|..+|+++.+.  .|+..+-..++.++.+.|++++|...++.+
T Consensus       162 ~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          162 YTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9775  34     356666666663  3334  899999999998765  244333344445888999999999999876


Q ss_pred             HHcC---------CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          254 KIKG---------HPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       254 ~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      .+..         -+.|..++..++......|+  +|.++++++.+..
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            6430         13466777566666666776  7889999988754

>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=99.34  E-value=3.5e-11  Score=106.50  Aligned_cols=174  Identities=10%  Similarity=-0.083  Sum_probs=116.9

Q ss_pred             HccCchhHHHHHHHHhh--------hcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           28 GKHGLVDNAVEVFNKCT--------AFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|.+.|++..+... -+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHH
Confidence            56777777777777776        433 55667777777777777777777777777776532 255677777777777


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHH
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM  179 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  179 (329)
                      .|++++|...|++..+.. +.+...+..+..++.+.|++++ .+.|++..+.+.. +...+..+..++.+.|++++|.+.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            777777777777777654 3456667777777777777777 7777777766433 566777777777777777777777


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 020202          180 YYSVCKLGLCADVSTYKILIPAVSKAGM  207 (329)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~  207 (329)
                      |++..+.++ .+...+..+..++...++
T Consensus       557 ~~~al~l~P-~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSR-HFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTST-THHHHHHHHHHHTC----
T ss_pred             HHhhcccCc-ccHHHHHHHHHHHHccCC
Confidence            777665432 234455555555544443

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.33  E-value=2.4e-10  Score=78.88  Aligned_cols=129  Identities=16%  Similarity=0.170  Sum_probs=73.9

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLL  133 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (329)
                      .|..+...+...|++++|..+++++.+.+. .+...+..+...+...|++++|...++++...+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            455566666666666666666666665432 244555556666666666666666666665543 333445555556666


Q ss_pred             hcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 020202          134 NAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCK  185 (329)
Q Consensus       134 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  185 (329)
                      ..|++++|.+.++++.+.... +...+..+...+...|++++|...++++..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            666666666666665554322 344555555555555666666555555544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.32  E-value=2.4e-10  Score=88.97  Aligned_cols=188  Identities=5%  Similarity=-0.075  Sum_probs=114.5

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC---hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCCcc
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD---KRTYAILVNAWCSSGKMREAQEFLQEMSDKGF--NPPVR  123 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~  123 (329)
                      +.+...+..+...+.+.|++++|...|+++.+.... +   ...+..+..++...|++++|...|+...+...  +....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            345667777778888888888888888888776322 2   56677788888888888888888888877531  11134


Q ss_pred             cHHHHHHHHHh--------cCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhH
Q 020202          124 GRDLLVQGLLN--------AGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTY  195 (329)
Q Consensus       124 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  195 (329)
                      .+..+..++..        .|++++|...|+++.+..+. +......+..              +..+..    .....+
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~--------------~~~~~~----~~~~~~  151 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQK--------------IRELRA----KLARKQ  151 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHH--------------HHHHHH----HHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHH--------------HHHHHH----HHHHHH
Confidence            55666777777        78888888888888776322 2222211100              000000    001113


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHcc----------CChhHHHHHHHHHHHc
Q 020202          196 KILIPAVSKAGMIDEAFRLLHNLVEDGHKP--FPSLYAPIIKGMFRR----------GQFDDAFCFFSEMKIK  256 (329)
Q Consensus       196 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~  256 (329)
                      ..+...|.+.|++++|...|+.+.+..+..  ....+..+..+|...          |++++|...|+++.+.
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            445566666777777777777766543211  233455556666544          6667777777776654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.32  E-value=4.7e-10  Score=87.63  Aligned_cols=179  Identities=15%  Similarity=0.057  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           71 AYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF-NPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        71 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                      |...|+++...+ .++..++..+..++...|++++|++++.+.+..+- .-+...+...+..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            444454444333 23333444555555555555555555555544331 1233444455555555555555555555555


Q ss_pred             HcCCcc-----CHHhHHHHHHHHH--c--cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          150 KQGFVL-----DLETFNSLIETIC--K--SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       150 ~~~~~~-----~~~~~~~l~~~~~--~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                      +.  .|     +..+...+..++.  .  .+++.+|..+|+++.+..  |+..+...++.++.+.|++++|...++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44  22     1333333333311  1  225555555555554321  2222222223355555555555555554433


Q ss_pred             CC---------CCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          221 DG---------HKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       221 ~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      ..         -+-++.+...+|......|+  +|.+++.++.+.
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            20         01133444334433444444  555555555543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.32  E-value=2.3e-08  Score=87.62  Aligned_cols=321  Identities=6%  Similarity=-0.097  Sum_probs=215.2

Q ss_pred             HHhhhh-hCCC-CC-CHHHHHHHHHHHHc---------cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHH--------
Q 020202            4 TIELMK-PYNL-SV-SPQTLSLIIEEFGK---------HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALC--------   63 (329)
Q Consensus         4 ~~~~m~-~~g~-~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--------   63 (329)
                      +|+... ..|. .+ +...|...+.....         .++++.+..+|+.+.......-..+|......-.        
T Consensus       169 ~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~  248 (679)
T 4e6h_A          169 AFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTAR  248 (679)
T ss_dssp             HHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHH
T ss_pred             HHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHH
Confidence            444432 3465 44 45678887776543         3457788999999885321112334432222111        


Q ss_pred             -----hcchHHHHHHHHHHHHHc--CC----c-----------c--C------hHHHHHHHHHHHhcC-------chhHH
Q 020202           64 -----EVKLFHGAYALIRRMIRK--GF----V-----------P--D------KRTYAILVNAWCSSG-------KMREA  106 (329)
Q Consensus        64 -----~~~~~~~a~~~~~~~~~~--~~----~-----------~--~------~~~~~~l~~~~~~~~-------~~~~a  106 (329)
                           ...+++.|...+.++...  ++    +           |  +      ...|...+..-...+       ..+.+
T Consensus       249 ~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv  328 (679)
T 4e6h_A          249 RHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARM  328 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHH
Confidence                 112344555555554321  11    1           1  0      134555554333322       12345


Q ss_pred             HHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH-HHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHH
Q 020202          107 QEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAK-QMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCK  185 (329)
Q Consensus       107 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  185 (329)
                      ..+|++.... ++-....|...+..+...|+.++|. +++++..... +.+...|...+...-+.|+++.|.++|+.+..
T Consensus       329 ~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~  406 (679)
T 4e6h_A          329 TYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCID  406 (679)
T ss_dssp             HHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6778888766 3567788888888888999999997 9999998753 34666777888888899999999999999876


Q ss_pred             cCC---------CC------------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-CCh
Q 020202          186 LGL---------CA------------DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR-GQF  243 (329)
Q Consensus       186 ~~~---------~~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~  243 (329)
                      ...         .|            ...+|...+....+.|..+.|..+|.++.+....+....|...+..-.+. ++.
T Consensus       407 ~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~  486 (679)
T 4e6h_A          407 RIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDT  486 (679)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCH
Confidence            410         13            23468888888888999999999999998761112334444333333344 458


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHhCCchhHHHHHHH
Q 020202          244 DDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTP--ISRCFDLVTDGLKNCGKHDLAEKIEL  321 (329)
Q Consensus       244 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~  321 (329)
                      +.|..+|+...+. .+.+...+...+......|+.+.|..+|++.......+  ....|...++.-.+.|+.+.+.++.+
T Consensus       487 e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~  565 (679)
T 4e6h_A          487 KTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEK  565 (679)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999887 44466667788888888999999999999998765322  35688888888889999999999999


Q ss_pred             HHhhhc
Q 020202          322 LEVSLR  327 (329)
Q Consensus       322 ~~~~~~  327 (329)
                      .+.+..
T Consensus       566 R~~~~~  571 (679)
T 4e6h_A          566 RFFEKF  571 (679)
T ss_dssp             HHHHHS
T ss_pred             HHHHhC
Confidence            887654

>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=99.31  E-value=3.7e-11  Score=85.07  Aligned_cols=144  Identities=11%  Similarity=-0.061  Sum_probs=96.7

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM  103 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  103 (329)
                      ...+...|++++|+..++...... |.+...+..+...|.+.|++++|.+.|++..+.... +..+|..+..++...|++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCch
Confidence            344556677788888777776654 444556667777788888888888888887776433 667777777888888888


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHH-HHHHHHcCCccCHHhHHHHHHHHHccC
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQM-VNKMIKQGFVLDLETFNSLIETICKSG  171 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  171 (329)
                      ++|...|++..+.. +-+...+..+...|.+.|++++|.+. +++..+..+. ++.+|......+...|
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            88888888777754 34566777777777777777665544 4666665432 5556666555555554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.29  E-value=4.5e-10  Score=84.20  Aligned_cols=190  Identities=11%  Similarity=0.018  Sum_probs=128.6

Q ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC-hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 020202           54 LYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD-KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGL  132 (329)
Q Consensus        54 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (329)
                      .+......+...|++++|...|++..+..  |+ ...|...     ......              .........+..++
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~-----~~~~~~--------------~~~~~~~~~lg~~~   64 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWT-----NVDKNS--------------EISSKLATELALAY   64 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHH-----HSCTTS--------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHh-----hhcchh--------------hhhHHHHHHHHHHH
Confidence            33444556667788888888887777653  22 1111110     000000              01122234588899


Q ss_pred             HhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC--HHH
Q 020202          133 LNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM--IDE  210 (329)
Q Consensus       133 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~  210 (329)
                      .+.|++++|...+++..+..+. +...+..+..++...|++++|...|++..+..+ .+..++..+..+|...|+  ...
T Consensus        65 ~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~~~  142 (208)
T 3urz_A           65 KKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLEA-DNLAANIFLGNYYYLTAEQEKKK  142 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHhHHHHHH
Confidence            9999999999999999988644 788999999999999999999999999998764 567788888888766554  445


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 020202          211 AFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLIT  270 (329)
Q Consensus       211 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  270 (329)
                      +...++....  ..|....+.....++...|++++|...|++..+.  .|+......+.+
T Consensus       143 ~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l~~  198 (208)
T 3urz_A          143 LETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHHHH
T ss_pred             HHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            5566655432  2233334444566777889999999999999875  677666555544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.29  E-value=1e-08  Score=80.79  Aligned_cols=234  Identities=8%  Similarity=-0.053  Sum_probs=172.4

Q ss_pred             chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC--chhHHHHHHHHHHhCCCCCCcccHHHHHHHH----Hhc---C
Q 020202           66 KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG--KMREAQEFLQEMSDKGFNPPVRGRDLLVQGL----LNA---G  136 (329)
Q Consensus        66 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~  136 (329)
                      ...++|+++++.++..++. +...|+.--.++...+  ++++++++++.+.... +-+..+|+.....+    ...   +
T Consensus        47 e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           47 EYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccC
Confidence            3346899999998887533 5567787777787888  8999999999998875 45566777665555    555   7


Q ss_pred             ChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHH--HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC------H
Q 020202          137 YLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVE--FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM------I  208 (329)
Q Consensus       137 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~  208 (329)
                      ++++++++++++.+.... +..+|+.-.-++.+.|.++  ++++.++++.+..+ .|...|+.-.....+.+.      +
T Consensus       125 ~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          125 DPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhH
Confidence            889999999999988655 7788887777777888877  89999999988765 667777776666666665      7


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhH-HHHHHHHHHHcC--CCCChhhHHHHHHHHhccCCHHHHHHHH
Q 020202          209 DEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDD-AFCFFSEMKIKG--HPPNRPVYTMLITMCGRGGRFVEAANYL  285 (329)
Q Consensus       209 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~  285 (329)
                      +++++.++.+....+. |...|+.+-..+.+.|+... +..+..++...+  -+.++..+..+..++.+.|+.++|.+++
T Consensus       203 ~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          203 DEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            8888888888877544 77778877777777777444 555666665432  1346677888888888889999999999


Q ss_pred             HHHHhCCCCCChhhHHHHH
Q 020202          286 VEMTEMGLTPISRCFDLVT  304 (329)
Q Consensus       286 ~~~~~~~~~p~~~~~~~l~  304 (329)
                      +.+.+.--+.....|+...
T Consensus       282 ~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          282 DLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHhccChHHHHHHHHHH
Confidence            8887632233444555443

>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=99.27  E-value=7.3e-11  Score=86.04  Aligned_cols=161  Identities=14%  Similarity=0.053  Sum_probs=93.8

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH-H
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA-W   97 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~   97 (329)
                      .+..+...+.+.|++++|...|+...+.. |.+...+..+...+...|++++|...+++.....  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            34556667777788888888888777665 5667777778888888888888888877765542  233322222111 1


Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCcc-CHHhHHHHHHHHHccCCHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVL-DLETFNSLIETICKSGEVEFC  176 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a  176 (329)
                      ...+....+...+++..+.. +.+...+..+..++...|++++|...|+++.+....+ +...+..+..++...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            11122233455555555543 2345555566666666666666666666665553322 234555555666666666666


Q ss_pred             HHHHHHH
Q 020202          177 VEMYYSV  183 (329)
Q Consensus       177 ~~~~~~~  183 (329)
                      ...|++.
T Consensus       164 ~~~y~~a  170 (176)
T 2r5s_A          164 ASKYRRQ  170 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6655544

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.26  E-value=1.5e-10  Score=91.43  Aligned_cols=168  Identities=13%  Similarity=0.096  Sum_probs=131.5

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHH-H
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRD-L  127 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~  127 (329)
                      |.+...+..+...+...|++++|...|++....... +...+..+..++...|++++|...++.+....  |+..... .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            566777888888888999999999999998877533 66788888899999999999999998887653  4433322 2


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-chhhHHHHHHHHHhcC
Q 020202          128 LVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCA-DVSTYKILIPAVSKAG  206 (329)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  206 (329)
                      ....+...++.+.|...+++..+.... +...+..+...+...|++++|...|.++.+..+.. +...+..+...+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            233466778888888889888887543 67888889999999999999999999988865432 2667888999999999


Q ss_pred             CHHHHHHHHHHHHh
Q 020202          207 MIDEAFRLLHNLVE  220 (329)
Q Consensus       207 ~~~~a~~~~~~~~~  220 (329)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99988888877543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.25  E-value=2.3e-09  Score=81.42  Aligned_cols=188  Identities=11%  Similarity=-0.001  Sum_probs=124.9

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc---HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh--HHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC---VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK--RTY   90 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~   90 (329)
                      ++..+..+...+.+.|++++|+..|+.+.+.. |.+   ...+..+..++.+.|++++|+..|+++.+..+....  ..+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHH
Confidence            45667777888899999999999999998754 222   467888899999999999999999999876432111  234


Q ss_pred             HHHHHHHHh------------------cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 020202           91 AILVNAWCS------------------SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus        91 ~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      ..+..++..                  .|++++|...|+++.+.. |-+...+.......          .+...+    
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~----------~~~~~~----  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLV----------FLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHH----------HHHHHH----
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHH----------HHHHHH----
Confidence            444444443                  456777777777776653 22222222111100          000000    


Q ss_pred             CccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 020202          153 FVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH  223 (329)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  223 (329)
                          ......+...+.+.|++++|...|+++.+..+...  ...+..+..++.+.|++++|.+.++.+...++
T Consensus       147 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          147 ----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             ----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence                01123456778889999999999999887643221  25677888899999999999999998887643

>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=99.25  E-value=3.7e-10  Score=98.15  Aligned_cols=155  Identities=13%  Similarity=-0.022  Sum_probs=115.6

Q ss_pred             cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHH
Q 020202           30 HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEF  109 (329)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  109 (329)
                      .|++++|.+.|++..+.. +.+...+..+...+...|++++|.+.|++..+... .+...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478889999999888776 66788899999999999999999999999887643 3677888899999999999999999


Q ss_pred             HHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc---CCHHHHHHHHHHHHHc
Q 020202          110 LQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS---GEVEFCVEMYYSVCKL  186 (329)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  186 (329)
                      +++..+.. +.+...+..+..++.+.|++++|.+.+++..+.... +...+..+..++...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99988765 456778888999999999999999999998887543 677888888888888   9999999999998876


Q ss_pred             CC
Q 020202          187 GL  188 (329)
Q Consensus       187 ~~  188 (329)
                      +.
T Consensus       158 ~p  159 (568)
T 2vsy_A          158 GV  159 (568)
T ss_dssp             TC
T ss_pred             CC
Confidence            54

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.25  E-value=4.4e-08  Score=85.82  Aligned_cols=143  Identities=8%  Similarity=0.003  Sum_probs=94.1

Q ss_pred             HhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcch---HHHHHHHHHHHHHc
Q 020202            5 IELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKL---FHGAYALIRRMIRK   81 (329)
Q Consensus         5 ~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~   81 (329)
                      ++.-...+ |-|...|..++..+.+.+.++.+..+|+.+...- |.+...|...+..-.+.++   ++.+..+|++....
T Consensus        55 lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f-P~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~  132 (679)
T 4e6h_A           55 LNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF-PLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSK  132 (679)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCS
T ss_pred             HHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHh
Confidence            34444444 5688889999999888889999999999988774 7788888888888888888   88999999888865


Q ss_pred             C-CccChHHHHHHHHHHHhcCch--------hHHHHHHHHHHh-CCC-CC-CcccHHHHHHHHHh---------cCChHH
Q 020202           82 G-FVPDKRTYAILVNAWCSSGKM--------REAQEFLQEMSD-KGF-NP-PVRGRDLLVQGLLN---------AGYLES  140 (329)
Q Consensus        82 ~-~~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~~---------~~~~~~  140 (329)
                      . ..|+...|...+....+.++.        +.+.++|+.... .|. .+ +...|...+.....         .++.+.
T Consensus       133 ~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~  212 (679)
T 4e6h_A          133 ELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQY  212 (679)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHH
Confidence            3 136777787777665554443        334466666543 243 33 23456655554332         223455


Q ss_pred             HHHHHHHHH
Q 020202          141 AKQMVNKMI  149 (329)
Q Consensus       141 a~~~~~~~~  149 (329)
                      +..+|++..
T Consensus       213 ~R~iy~raL  221 (679)
T 4e6h_A          213 IRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            555665555

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.25  E-value=4.2e-09  Score=79.14  Aligned_cols=176  Identities=11%  Similarity=0.045  Sum_probs=96.0

Q ss_pred             HHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC----chhHHHHHH
Q 020202           35 NAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG----KMREAQEFL  110 (329)
Q Consensus        35 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  110 (329)
                      +|.+.|++..+.|   ++..+..+...|...+++++|.++|++..+.|   +...+..+...|.. +    ++++|..+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3445555555443   45555555566666666666666666655543   34445555555555 4    566666666


Q ss_pred             HHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHHcCCc-cCHHhHHHHHHHHHc----cCCHHHHHHHHH
Q 020202          111 QEMSDKGFNPPVRGRDLLVQGLLN----AGYLESAKQMVNKMIKQGFV-LDLETFNSLIETICK----SGEVEFCVEMYY  181 (329)
Q Consensus       111 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  181 (329)
                      ++..+.|   ++..+..+...|..    .+++++|...|++..+.|.. .++..+..|...|..    .+++++|...|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            6665543   34455555555554    55666666666666655421 014455555555555    556666666666


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHhc-C-----CHHHHHHHHHHHHhCC
Q 020202          182 SVCKLGLCADVSTYKILIPAVSKA-G-----MIDEAFRLLHNLVEDG  222 (329)
Q Consensus       182 ~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~  222 (329)
                      +..+.+  .+...+..+...|... |     ++++|..+|+...+.|
T Consensus       154 ~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            665541  2333445555555432 2     5666666666666554

>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=99.25  E-value=3e-10  Score=100.59  Aligned_cols=173  Identities=10%  Similarity=-0.098  Sum_probs=131.4

Q ss_pred             HhcCChHHHHHHHHHHH--------HcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 020202          133 LNAGYLESAKQMVNKMI--------KQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK  204 (329)
Q Consensus       133 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  204 (329)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|.+.|++..+..+ .+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHH
Confidence            67888899998888887        432 22566788888888888999999999988887643 456788888888888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHH
Q 020202          205 AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANY  284 (329)
Q Consensus       205 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  284 (329)
                      .|++++|...|++..+.... +...+..+..++...|++++ ...|+++.+.+ +.+...|..+..++.+.|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            89999999999888876433 56777888888888999988 88888888763 33667788888888889999999998


Q ss_pred             HHHHHhCCCCCC-hhhHHHHHHHHHhCCc
Q 020202          285 LVEMTEMGLTPI-SRCFDLVTDGLKNCGK  312 (329)
Q Consensus       285 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  312 (329)
                      |++..+..  |+ ...+..+..++...|.
T Consensus       557 ~~~al~l~--P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTS--RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTS--TTHHHHHHHHHHHTC----
T ss_pred             HHhhcccC--cccHHHHHHHHHHHHccCC
Confidence            88877543  44 5566667777666454

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.24  E-value=3.7e-09  Score=80.22  Aligned_cols=186  Identities=7%  Similarity=-0.090  Sum_probs=123.8

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc--ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc----c
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP--DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR----G  124 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~  124 (329)
                      +...+..+...+.+.|++++|...|+++.+..+..  ....+..+..++.+.|++++|+..|+++.+..  |+..    .
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            34556667788889999999999999998764321  13567788889999999999999999998764  3322    3


Q ss_pred             HHHHHHHHHh------------------cCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 020202          125 RDLLVQGLLN------------------AGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKL  186 (329)
Q Consensus       125 ~~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  186 (329)
                      +..+..++..                  .|++++|...|+++.+..+. +...+......          ..+...+   
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l----------~~~~~~~---  146 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRL----------VFLKDRL---  146 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHH----------HHHHHHH---
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHH----------HHHHHHH---
Confidence            4444444443                  34566666666666654211 11121111100          0000000   


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC
Q 020202          187 GLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP--FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG  257 (329)
Q Consensus       187 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  257 (329)
                           ......+...|.+.|++++|...|+++.+..+..  ....+..+..++.+.|++++|.+.++.+...+
T Consensus       147 -----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 -----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             -----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             -----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                 0112345678899999999999999998764321  12568889999999999999999999988763

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.23  E-value=1.9e-09  Score=81.04  Aligned_cols=176  Identities=15%  Similarity=0.122  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC----ChHHHHHHH
Q 020202           70 GAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG----YLESAKQMV  145 (329)
Q Consensus        70 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~  145 (329)
                      +|++.|++..+.|   +...+..+...+...+++++|..+|++..+.|   ++..+..+...|.. +    ++++|.+.|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3445555555543   44555555566666666666666666665543   34455555555555 4    566666666


Q ss_pred             HHHHHcCCccCHHhHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCC-CchhhHHHHHHHHHh----cCCHHHHHHHHH
Q 020202          146 NKMIKQGFVLDLETFNSLIETICK----SGEVEFCVEMYYSVCKLGLC-ADVSTYKILIPAVSK----AGMIDEAFRLLH  216 (329)
Q Consensus       146 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~  216 (329)
                      ++..+.|   +...+..+...|..    .+++++|...|++..+.+.. .+...+..|...|..    .+++++|..+|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            6665543   44455555555554    55666666666666554321 014455555555555    556666666666


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHcc-C-----ChhHHHHHHHHHHHcC
Q 020202          217 NLVEDGHKPFPSLYAPIIKGMFRR-G-----QFDDAFCFFSEMKIKG  257 (329)
Q Consensus       217 ~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~  257 (329)
                      +..+.+  .+...+..|...|... |     ++++|..+|+...+.|
T Consensus       154 ~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            665541  1233444455555432 2     5666666666666554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.23  E-value=8.6e-10  Score=87.06  Aligned_cols=168  Identities=12%  Similarity=0.018  Sum_probs=137.2

Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHH-H
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFN-S  162 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~  162 (329)
                      +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++....  |+..... .
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHH
Confidence            3455677788889999999999999999998875 5567888999999999999999999999987763  4443332 2


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-ChhhHHHHHHHHHccC
Q 020202          163 LIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP-FPSLYAPIIKGMFRRG  241 (329)
Q Consensus       163 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  241 (329)
                      ....+...++.+.|...+++.....+ .+...+..+...+...|++++|...|.++.+..... +...+..++..+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P-~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENP-EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            33346677888889999999888764 567889999999999999999999999999865432 2667899999999999


Q ss_pred             ChhHHHHHHHHHHH
Q 020202          242 QFDDAFCFFSEMKI  255 (329)
Q Consensus       242 ~~~~a~~~~~~~~~  255 (329)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999999887654

>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=99.22  E-value=8.8e-10  Score=87.94  Aligned_cols=198  Identities=11%  Similarity=0.023  Sum_probs=124.0

Q ss_pred             cCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh-cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHH
Q 020202           30 HGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE-VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQE  108 (329)
Q Consensus        30 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  108 (329)
                      .|++++|.+++++..+.. +.          .+.. .++++.|...|.+.               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~----------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KT----------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CC----------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-cc----------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            456667777777665532 11          0222 45666666666543               456677888888888


Q ss_pred             HHHHHHhCCC---CC--CcccHHHHHHHHHhcCChHHHHHHHHHHHHc----CCcc-CHHhHHHHHHHHHccCCHHHHHH
Q 020202          109 FLQEMSDKGF---NP--PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GFVL-DLETFNSLIETICKSGEVEFCVE  178 (329)
Q Consensus       109 ~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~  178 (329)
                      .+.+......   .+  -..+|+.+..+|...|++++|...+++..+.    |-.. ...++..+..+|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            8877654320   00  1346677778888888888888888876543    1111 13456677777777 88888888


Q ss_pred             HHHHHHHcCCCC-----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-hhhHHHHHHHHHccCChhHHHH
Q 020202          179 MYYSVCKLGLCA-----DVSTYKILIPAVSKAGMIDEAFRLLHNLVED----GHKPF-PSLYAPIIKGMFRRGQFDDAFC  248 (329)
Q Consensus       179 ~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~  248 (329)
                      .|++........     ...++..+...|.+.|++++|...|++..+.    +..+. ...+..+..++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            888776532111     1356677777788888888888888776653    11111 1245555666667788888888


Q ss_pred             HHHHHH
Q 020202          249 FFSEMK  254 (329)
Q Consensus       249 ~~~~~~  254 (329)
                      .|++..
T Consensus       217 ~~~~al  222 (307)
T 2ifu_A          217 CVRESY  222 (307)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            887776

>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=99.20  E-value=8.3e-10  Score=88.09  Aligned_cols=160  Identities=8%  Similarity=-0.065  Sum_probs=81.6

Q ss_pred             HHHHHhcchHHHHHHHHHHHHHcCC----c-cChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC---CC--CcccHHHH
Q 020202           59 LFALCEVKLFHGAYALIRRMIRKGF----V-PDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF---NP--PVRGRDLL  128 (329)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l  128 (329)
                      ...|...|++++|...|.+......    . .-..+|+.+..+|...|++++|...+++..+...   .+  ...++..+
T Consensus        43 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  122 (307)
T 2ifu_A           43 AVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRA  122 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3445556666666666655543210    0 0123555566666666666666666665543210   01  12344555


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCcc-----CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC----CCCc-hhhHHHH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVL-----DLETFNSLIETICKSGEVEFCVEMYYSVCKLG----LCAD-VSTYKIL  198 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~-~~~~~~l  198 (329)
                      ...|.. |++++|+..+++..+.....     ...++..+...+...|++++|+..|++.....    ..+. ...+..+
T Consensus       123 g~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  201 (307)
T 2ifu_A          123 GKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQ  201 (307)
T ss_dssp             HHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Confidence            555555 66666666666555431110     12345555666666666666666666655421    1111 1244444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHH
Q 020202          199 IPAVSKAGMIDEAFRLLHNLV  219 (329)
Q Consensus       199 ~~~~~~~~~~~~a~~~~~~~~  219 (329)
                      ..++...|++++|...|++..
T Consensus       202 g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          202 VLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHh
Confidence            555555566666666666655

>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=99.19  E-value=1.9e-10  Score=81.37  Aligned_cols=142  Identities=8%  Similarity=0.010  Sum_probs=70.5

Q ss_pred             HHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH
Q 020202           61 ALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLES  140 (329)
Q Consensus        61 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  140 (329)
                      .+...|++++|+..++...... +-+...+..+...|.+.|++++|.+.|++..+.. +-+..+|..+..+|.+.|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHH
Confidence            3444555666666555544321 1122334445555666666666666666655543 3345555555566666666666


Q ss_pred             HHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHH-HHHHHHcCCCCchhhHHHHHHHHHhcC
Q 020202          141 AKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEM-YYSVCKLGLCADVSTYKILIPAVSKAG  206 (329)
Q Consensus       141 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  206 (329)
                      |...|++..+..+. +...+..+...+.+.|+++++.+. +++..+..+ -+..+|......+...|
T Consensus        84 A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P-~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP-GSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST-TCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhC
Confidence            66666655555322 445555555555555555443333 344444322 23344444444443333

>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=99.19  E-value=4.7e-10  Score=81.73  Aligned_cols=54  Identities=13%  Similarity=0.159  Sum_probs=21.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSV  183 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  183 (329)
                      ...+...|++++|...+++..+.... +...+..+..++...|++++|...+++.
T Consensus        13 a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a   66 (176)
T 2r5s_A           13 VSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATI   66 (176)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            33344444444444444443332111 2333444444444444444444444443

>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=99.17  E-value=1.7e-09  Score=94.04  Aligned_cols=155  Identities=12%  Similarity=-0.017  Sum_probs=120.2

Q ss_pred             cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHH
Q 020202           65 VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQM  144 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  144 (329)
                      .|++++|.+.|++..+... .+...+..+...+...|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRP-QDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4788999999999887642 367889999999999999999999999998875 45678889999999999999999999


Q ss_pred             HHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc---CCHHHHHHHHHHHHhC
Q 020202          145 VNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA---GMIDEAFRLLHNLVED  221 (329)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  221 (329)
                      +++..+.... +...+..+..++...|++++|.+.+++..+... .+...+..+..++...   |+.++|...+++..+.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9999987543 678899999999999999999999999988754 4577888999999999   9999999999999876


Q ss_pred             CC
Q 020202          222 GH  223 (329)
Q Consensus       222 ~~  223 (329)
                      +.
T Consensus       158 ~p  159 (568)
T 2vsy_A          158 GV  159 (568)
T ss_dssp             TC
T ss_pred             CC
Confidence            54

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.15  E-value=9.1e-08  Score=76.33  Aligned_cols=176  Identities=9%  Similarity=-0.011  Sum_probs=129.0

Q ss_pred             HHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc-hHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhc-C-ch
Q 020202           27 FGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK-LFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSS-G-KM  103 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~  103 (329)
                      ..+.+..++|+++++.+...+ |-+..+|+.--..+...+ .+++++++++.+.....+ +..+|+.-..++... + ++
T Consensus        64 ~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCC
T ss_pred             HHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCCh
Confidence            344455678999999999887 778888888877777777 599999999999887654 677777766666665 6 78


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC---
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLE--------SAKQMVNKMIKQGFVLDLETFNSLIETICKSGE---  172 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  172 (329)
                      ++++++++.+.+.. +.|..+|+....++.+.|.++        ++++.++++.+..+. |...|+.....+.+.+.   
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccccc
Confidence            88999999988765 556777777666666666666        888888888887655 77778777777777665   


Q ss_pred             ----HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 020202          173 ----VEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM  207 (329)
Q Consensus       173 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  207 (329)
                          ++++++.+++.....+ -|...|+.+-..+.+.|.
T Consensus       220 ~~~~~~eELe~~~~aI~~~P-~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHLIP-HNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCC
Confidence                5677777777766544 456666665555555444

>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=99.10  E-value=3.1e-08  Score=78.38  Aligned_cols=127  Identities=13%  Similarity=0.092  Sum_probs=57.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCc-cC----HHhHHHHHHHHHccCCHHHHHHHHHHHHHc-----CCCC-chhhHH
Q 020202          128 LVQGLLNAGYLESAKQMVNKMIKQGFV-LD----LETFNSLIETICKSGEVEFCVEMYYSVCKL-----GLCA-DVSTYK  196 (329)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~  196 (329)
                      +...+...|++++|...+++..+.... ++    ..+++.+..+|...|++++|...|++..+.     +..+ ...++.
T Consensus       121 l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  200 (293)
T 3u3w_A          121 VAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRY  200 (293)
T ss_dssp             HHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHH
T ss_pred             HHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHH
Confidence            333444444455555555444442111 11    113444555555555555555555544420     1111 122455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-hhhHHHHHHHHHccCC-hhHHHHHHHHHH
Q 020202          197 ILIPAVSKAGMIDEAFRLLHNLVED----GHKPF-PSLYAPIIKGMFRRGQ-FDDAFCFFSEMK  254 (329)
Q Consensus       197 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~-~~~a~~~~~~~~  254 (329)
                      .+...|.+.|++++|...+++..+.    +..+. ..+|..+..++...|+ +++|...+++..
T Consensus       201 nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          201 NHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            5555555555555555555554421    11111 3445555555666663 356655555544

>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=99.08  E-value=2.1e-08  Score=75.19  Aligned_cols=128  Identities=10%  Similarity=-0.095  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      .+..+...+...|++++|...|++..    +|+..++..+...+...|++++|.+.|++..+.. +.+...+..+..++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            45566777888899999999988774    4578888889999999999999999998888764 336678888888899


Q ss_pred             hcCchhHHHHHHHHHHhCCCCCCc----------------ccHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 020202           99 SSGKMREAQEFLQEMSDKGFNPPV----------------RGRDLLVQGLLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      ..|++++|...++...+.. +.+.                ..+..+..++.+.|++++|...+++..+..
T Consensus        83 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            9999999999998887753 2222                566777788888888888888888887764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.07  E-value=9.9e-07  Score=74.87  Aligned_cols=123  Identities=15%  Similarity=0.079  Sum_probs=77.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc-cCChhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR-RGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMC  272 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (329)
                      .|...+....+.+..+.|..+|++. .. ...+...|...+..-.. .++.+.|..+|+...+.. +-++..+...++..
T Consensus       288 lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e  364 (493)
T 2uy1_A          288 LRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            3445555555667788888888887 32 12233344322222222 236888888888887752 22344555666666


Q ss_pred             hccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          273 GRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       273 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      .+.|+.+.|..+|+++.     .....|...++.-...|+.+.+.++++...
T Consensus       365 ~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          365 LRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            67788888888888762     246677777776677788888888666554

>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=99.07  E-value=9.8e-08  Score=75.51  Aligned_cols=162  Identities=9%  Similarity=0.065  Sum_probs=112.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC-ccCH----HhHHHHHHHHHccCCHHHHHHHHHHHHHcCCC-Cc----hhhHHH
Q 020202          128 LVQGLLNAGYLESAKQMVNKMIKQGF-VLDL----ETFNSLIETICKSGEVEFCVEMYYSVCKLGLC-AD----VSTYKI  197 (329)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~  197 (329)
                      .+..+...|++++|...+++..+... .|+.    ..+..+...+...+++++|...+++....... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            36677888889999988888876422 1221    12334666677778899999999888774322 22    236888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC-----CCCC-ChhhHHHHHHHHHccCChhHHHHHHHHHHHc----CCCCC-hhhHH
Q 020202          198 LIPAVSKAGMIDEAFRLLHNLVED-----GHKP-FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK----GHPPN-RPVYT  266 (329)
Q Consensus       198 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~  266 (329)
                      +..+|...|++++|...++++.+.     +..+ ...++..+...|...|++++|...+++..+.    +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888899999999988887731     1111 1236777888888888888888888877643    11222 46777


Q ss_pred             HHHHHHhccC-CHHHHHHHHHHHH
Q 020202          267 MLITMCGRGG-RFVEAANYLVEMT  289 (329)
Q Consensus       267 ~l~~~~~~~~-~~~~a~~~~~~~~  289 (329)
                      .+..++.+.| ++++|.+.+++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHH
Confidence            7888888888 4688888887765

>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=99.07  E-value=1.7e-09  Score=85.09  Aligned_cols=196  Identities=14%  Similarity=-0.002  Sum_probs=121.5

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      .+...+..+...+.+.|++++|...|+...+.. |.+...|..+..++.+.|++++|...+++..+... .+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHH
Confidence            356777888888888889999998888888776 66788888888888888888888888888876542 3567788888


Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHH
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVE  174 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  174 (329)
                      .++...|++++|...+++..+.. +.+...+...+....+.   ..+. .+..........+......+.. + ..|+++
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~  152 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRI---AKKK-RWNSIEERRIHQESELHSYLTR-L-IAAERE  152 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHH---HHHH-HHHHHHHTCCCCCCHHHHHHHH-H-HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHH---HHHH-HHHHHHHHHHhhhHHHHHHHHH-H-HHHHHH
Confidence            88888888888888888876543 11111222222222211   1111 1222222333334444333322 2 257777


Q ss_pred             HHHHHHHHHHHcCCCCchhhHHHHHHHHHhc-CCHHHHHHHHHHHHh
Q 020202          175 FCVEMYYSVCKLGLCADVSTYKILIPAVSKA-GMIDEAFRLLHNLVE  220 (329)
Q Consensus       175 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~  220 (329)
                      +|.+.++...+..+ .+......+...+.+. +.++++..+|..+.+
T Consensus       153 ~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          153 RELEECQRNHEGHE-DDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHTTTSGGGTTTS-CHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhhhcccc-chhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            78777776665432 2233333333334443 557778888877654

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.07  E-value=2.1e-07  Score=74.24  Aligned_cols=225  Identities=8%  Similarity=-0.050  Sum_probs=155.4

Q ss_pred             HHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC-chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc-C-Ch
Q 020202           62 LCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG-KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNA-G-YL  138 (329)
Q Consensus        62 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~  138 (329)
                      ..+.+..++|+++++.++..+.. +..+|+.--.++...| .+++++.+++.+.... +-+..+|+....++.+. + ++
T Consensus        64 ~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            33445557899999999987543 5667777777777778 5999999999998876 56677888887777776 7 88


Q ss_pred             HHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHH--------HHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC---
Q 020202          139 ESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVE--------FCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM---  207 (329)
Q Consensus       139 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  207 (329)
                      ++++++++++.+.... +..+|+.-.-++.+.|.++        ++++.++++.+..+ -|...|+.....+.+.+.   
T Consensus       142 ~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcccccc
Confidence            9999999999987644 7777776555555555555        88888888888765 677778877777777665   


Q ss_pred             ----HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCh--------------------hHHHHHHHHHHHcC-----C
Q 020202          208 ----IDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQF--------------------DDAFCFFSEMKIKG-----H  258 (329)
Q Consensus       208 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~  258 (329)
                          ++++++.+++.....+. |...|+.+-..+.+.|+.                    .....+...+...+     -
T Consensus       220 ~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             chHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence                67888888887776543 666776665556555543                    22222222222211     1


Q ss_pred             CCChhhHHHHHHHHhccCCHHHHHHHHHHHHhC
Q 020202          259 PPNRPVYTMLITMCGRGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       259 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  291 (329)
                      .+++..+..++..|...|+.++|.++++.+.+.
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            346666777777777778888888888777643

>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=99.06  E-value=2.6e-08  Score=74.73  Aligned_cols=131  Identities=11%  Similarity=-0.046  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 020202           53 LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGL  132 (329)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (329)
                      ..+..+...+...|++++|...|++.    +.|+...+..+..++...|++++|...+++..+.. +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            34556677777888888888888766    35577788888888888888888888888887764 45567788888888


Q ss_pred             HhcCChHHHHHHHHHHHHcCCcc---------------CHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC
Q 020202          133 LNAGYLESAKQMVNKMIKQGFVL---------------DLETFNSLIETICKSGEVEFCVEMYYSVCKLGL  188 (329)
Q Consensus       133 ~~~~~~~~a~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  188 (329)
                      ...|++++|...+++..+.....               ....+..+..++...|++++|...|+...+..+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            88888888888888887753221               125667777777888888888888887776543

>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=99.04  E-value=1.7e-08  Score=72.38  Aligned_cols=94  Identities=16%  Similarity=0.163  Sum_probs=45.5

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      +..+...+...|++++|...|+...+.. +.+..++..+..++...|++++|...+++..+.. +.+...+..+..++..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            4444444555555555555555554443 3344455555555555555555555555544432 1133444444444445


Q ss_pred             cCchhHHHHHHHHHHh
Q 020202          100 SGKMREAQEFLQEMSD  115 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~  115 (329)
                      .|++++|...+++..+
T Consensus        94 ~~~~~~A~~~~~~a~~  109 (166)
T 1a17_A           94 LGKFRAALRDYETVVK  109 (166)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHH
Confidence            5555555555544444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.04  E-value=1.2e-08  Score=69.66  Aligned_cols=96  Identities=16%  Similarity=0.099  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      .+......+.+.|++++|++.|++..+.+ |.+..+|..+..++.+.|++++|+..|++..+.+.. +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHHH
Confidence            34444555555555555555555555444 444555555555555555555555555555544321 3444555555555


Q ss_pred             hcCchhHHHHHHHHHHhC
Q 020202           99 SSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~  116 (329)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            555555555555555443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.01  E-value=9.1e-08  Score=75.69  Aligned_cols=164  Identities=12%  Similarity=0.057  Sum_probs=80.8

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-----cccHHHHHHHHHhcCChHHHHHHHHHHHHcCC---ccC--HHhH
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPP-----VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGF---VLD--LETF  160 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~  160 (329)
                      ...+..+...|++++|.+.++...+.....+     ...+..+...+...|++++|...+++..+...   .+.  ..++
T Consensus        79 ~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 2qfc_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHH
Confidence            3344445555555555555555444321100     01122344445555566666666555543211   111  2355


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHH---cCC-CC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-Chhh
Q 020202          161 NSLIETICKSGEVEFCVEMYYSVCK---LGL-CA--DVSTYKILIPAVSKAGMIDEAFRLLHNLVED----GHKP-FPSL  229 (329)
Q Consensus       161 ~~l~~~~~~~~~~~~a~~~~~~~~~---~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  229 (329)
                      +.+...|...|++++|...+++..+   ... .+  ...++..+..+|...|++++|...+++..+.    +... -..+
T Consensus       159 ~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~  238 (293)
T 2qfc_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            5566666666666666666665542   111 01  1135566666666666666666666665432    1111 1345


Q ss_pred             HHHHHHHHHccCChhHH-HHHHHHHH
Q 020202          230 YAPIIKGMFRRGQFDDA-FCFFSEMK  254 (329)
Q Consensus       230 ~~~l~~~~~~~~~~~~a-~~~~~~~~  254 (329)
                      |..+...|...|++++| ...+++..
T Consensus       239 ~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          239 YYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            56666666666666666 55555544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=1.8e-07  Score=73.96  Aligned_cols=161  Identities=11%  Similarity=0.030  Sum_probs=73.0

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCc-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCC--hhhHHH
Q 020202          163 LIETICKSGEVEFCVEMYYSVCKLGLCAD-----VSTYKILIPAVSKAGMIDEAFRLLHNLVEDGH---KPF--PSLYAP  232 (329)
Q Consensus       163 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~  232 (329)
                      .+..+...|++++|.+.+.+..+.....+     ...+..+...+...|++++|...+++..+...   .+.  ..+++.
T Consensus        81 ~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 2qfc_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            34444455555555555544443321110     01122233344455555555555555543211   111  224555


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHc-CCCCC-----hhhHHHHHHHHhccCCHHHHHHHHHHHHhC----CCCC-ChhhHH
Q 020202          233 IIKGMFRRGQFDDAFCFFSEMKIK-GHPPN-----RPVYTMLITMCGRGGRFVEAANYLVEMTEM----GLTP-ISRCFD  301 (329)
Q Consensus       233 l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~  301 (329)
                      +...|...|++++|...++++.+. ...|+     ..++..+..+|...|++++|...+++..+.    +... -..+|.
T Consensus       161 lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~~  240 (293)
T 2qfc_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            555555556666665555555421 00111     134555555555666666666655554421    1111 134555


Q ss_pred             HHHHHHHhCCchhHH-HHHHHHH
Q 020202          302 LVTDGLKNCGKHDLA-EKIELLE  323 (329)
Q Consensus       302 ~l~~~~~~~g~~~~a-~~~~~~~  323 (329)
                      .+..+|.+.|++++| ...++..
T Consensus       241 ~lg~~y~~~g~~~~Ai~~~~~~A  263 (293)
T 2qfc_A          241 QRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCcHHHHHHHHHHH
Confidence            555566666666666 4444433

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.00  E-value=1.6e-08  Score=68.94  Aligned_cols=99  Identities=6%  Similarity=-0.053  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ...+......+.+.|++++|++.|++..+... .+...|..+..++...|++++|+..+++..+.+ +.+...|..+..+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDP-ENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHH
Confidence            45566666677777777777777777666542 255666666777777777777777777766654 3445566666666


Q ss_pred             HHhcCChHHHHHHHHHHHHcC
Q 020202          132 LLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      +...|++++|.+.|++..+..
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHCCCHHHHHHHHHHHHHHC
Confidence            777777777777777666653

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

Probab=99.00  E-value=2.4e-08  Score=67.66  Aligned_cols=98  Identities=17%  Similarity=0.213  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      ...+..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            3455555556666666666666666655543 4445555555556666666666666665555442 2244455555555


Q ss_pred             HHhcCchhHHHHHHHHHHhC
Q 020202           97 WCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~  116 (329)
                      +...|++++|...++++.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            55555555555555555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.00  E-value=1.9e-08  Score=69.04  Aligned_cols=119  Identities=13%  Similarity=0.017  Sum_probs=76.5

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      +.++..+..+...+...|++++|...|+...+.. +.+...+..+..++...|++++|.+.+++..+... .+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHH
Confidence            4455667777777777777777777777776654 55666777777777777777777777777766532 245566666


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhc
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNA  135 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  135 (329)
                      ..++...|++++|.+.+++..+.. +.+...+..+..++.+.
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHh
Confidence            667777777777777777666543 22334444444444443

>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=99.00  E-value=1.9e-09  Score=87.09  Aligned_cols=143  Identities=8%  Similarity=-0.071  Sum_probs=84.6

Q ss_pred             CchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC--------------hHHHHHHHHH
Q 020202           31 GLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD--------------KRTYAILVNA   96 (329)
Q Consensus        31 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~   96 (329)
                      +++++|...|+...... +.+...+..+...+.+.|++++|...|++..+......              ...|..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555444332 33566777777788888888888888887776532211              3555666666


Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHH
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFC  176 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  176 (329)
                      +.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..+.... +...+..+..++...|+.+++
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666666665543 334555556666666666666666666666555322 445555555555555555555

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.99  E-value=2.6e-09  Score=75.29  Aligned_cols=102  Identities=12%  Similarity=0.000  Sum_probs=76.3

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      |.+...+..+...+.+.|++++|...|++.....+ .+...|..+..++...|++++|+..|++..+.. |.++..|..+
T Consensus        33 p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~l  110 (151)
T 3gyz_A           33 DDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHT  110 (151)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHH
Confidence            44566777777778888888888888888777643 266777777788888888888888888877764 4456777777


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcC
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      ..+|.+.|++++|...|++..+..
T Consensus       111 g~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          111 GQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC
Confidence            788888888888888888777763

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.98  E-value=1.5e-08  Score=69.29  Aligned_cols=117  Identities=17%  Similarity=0.091  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      ...+..+...+...|++++|...|+...... +.+...+..+...+...|++++|.+.+++...... .+...+..+..+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDP-AYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCc-cCHHHHHHHHHH
Confidence            3444555555555555555555555555443 33445555555555555555555555555554321 134444445555


Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG  136 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (329)
                      +...|++++|...+++..+.. +.+...+..+..++.+.|
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHh
Confidence            555555555555555554432 223334444444444433

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.98  E-value=7e-09  Score=75.45  Aligned_cols=122  Identities=9%  Similarity=0.071  Sum_probs=90.8

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH-HHhcCch--h
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA-WCSSGKM--R  104 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  104 (329)
                      ...|++++|...++...+.. |.+...|..+...+...|++++|...|++..+... .+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcchH
Confidence            45678888888888887766 66778888888888888888888888888877642 256667777777 6678887  8


Q ss_pred             HHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 020202          105 EAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus       105 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      +|...++...+.. +.+...+..+...+...|++++|...++++.+..
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            8888888887764 3456677778888888888888888888887764

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.97  E-value=5.6e-08  Score=69.60  Aligned_cols=129  Identities=11%  Similarity=-0.024  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ...+..+...+...|++++|...|++..+... .+..++..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            34455666666667777777777766665432 245566666666666666666666666665543 3345555666666


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCccCHHhHH--HHHHHHHccCCHHHHHHHHHHH
Q 020202          132 LLNAGYLESAKQMVNKMIKQGFVLDLETFN--SLIETICKSGEVEFCVEMYYSV  183 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~  183 (329)
                      +...|++++|...+++..+.... +...+.  .....+...|++++|.+.+...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            66666666666666666554322 333332  2222244455555555555543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.96  E-value=2.7e-06  Score=72.26  Aligned_cols=293  Identities=8%  Similarity=-0.047  Sum_probs=154.9

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcch-HHHHHHHHHHHHHc-CC-ccChHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKL-FHGAYALIRRMIRK-GF-VPDKRTYA   91 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~-~~-~~~~~~~~   91 (329)
                      --..+|...+..+-. |+++.+..+|++....  .|+...|...+....+.+. .+....+|+..... |. ..+...|.
T Consensus        13 ~aR~vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~   89 (493)
T 2uy1_A           13 SPSAIMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYK   89 (493)
T ss_dssp             CHHHHHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHH
T ss_pred             HHHHHHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHH
Confidence            334555555555544 6677777777776663  3566666666666655542 34455556555543 32 22445555


Q ss_pred             HHHHHHH----hcCchhHHHHHHHHHHhCCCCC-----------------------------------------------
Q 020202           92 ILVNAWC----SSGKMREAQEFLQEMSDKGFNP-----------------------------------------------  120 (329)
Q Consensus        92 ~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~-----------------------------------------------  120 (329)
                      ..+..+.    ..++.+.+.++|+.........                                               
T Consensus        90 ~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~  169 (493)
T 2uy1_A           90 EYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRG  169 (493)
T ss_dssp             HHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhh
Confidence            5555433    2345566666666665521100                                               


Q ss_pred             -CcccHHHHHHHHHhc--CC-----hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCch
Q 020202          121 -PVRGRDLLVQGLLNA--GY-----LESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADV  192 (329)
Q Consensus       121 -~~~~~~~l~~~~~~~--~~-----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  192 (329)
                       +...|...+..-...  |-     .+.+..+|+++.... +.+...|...+..+.+.|+.+.|..++++.... + .+.
T Consensus       170 ~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P-~~~  246 (493)
T 2uy1_A          170 WSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM-S-DGM  246 (493)
T ss_dssp             CSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C-CSS
T ss_pred             ccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-C-CcH
Confidence             111222222211111  00     223455666666543 224566666677777777788888888777766 2 232


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------CCC---ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 020202          193 STYKILIPAVSKAGMIDEAFRLLHNLVEDG---------HKP---FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPP  260 (329)
Q Consensus       193 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  260 (329)
                      ..+.    .|....+.++.   ++.+.+.-         ..+   ....|...+....+.++.+.|..+|+++ .. .+.
T Consensus       247 ~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~  317 (493)
T 2uy1_A          247 FLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGV  317 (493)
T ss_dssp             HHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCC
T ss_pred             HHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCC
Confidence            2222    12221111111   22222110         000   1234555666666678899999999998 32 122


Q ss_pred             ChhhHHHHHHHHhc-cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHH
Q 020202          261 NRPVYTMLITMCGR-GGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLE  323 (329)
Q Consensus       261 ~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  323 (329)
                      +...|......-.. .++.+.|..+|+...+.- +-+...+...++...+.|+.+.|+.+++..
T Consensus       318 ~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          318 GPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             CHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             ChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344322222222 336899999999988643 223556677788778889999999888764

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.94  E-value=1.4e-08  Score=71.50  Aligned_cols=109  Identities=14%  Similarity=0.012  Sum_probs=64.4

Q ss_pred             HHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC
Q 020202           40 FNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFN  119 (329)
Q Consensus        40 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  119 (329)
                      |+.+...+ |.+...+..+...+...|++++|...|++...... .+...|..+..++...|++++|...|++..... +
T Consensus        10 ~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p   86 (148)
T 2vgx_A           10 IAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-I   86 (148)
T ss_dssp             HHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-C
Confidence            33444433 34455556666666666666666666666665432 255556666666666666666666666665543 3


Q ss_pred             CCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          120 PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       120 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .+...+..+..++...|++++|...|++..+.
T Consensus        87 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           87 XEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34555666666666666666666666666554

>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=98.94  E-value=1.7e-08  Score=79.34  Aligned_cols=196  Identities=12%  Similarity=-0.013  Sum_probs=130.9

Q ss_pred             ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           50 QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      .+...+..+...+...|++++|...|++...... .+...|..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4567788889999999999999999999988743 277889999999999999999999999998875 45677888999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMID  209 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  209 (329)
                      .++...|++++|...|++..+.+.. +...+...+....+   ..++.. +..........+......+.. + ..|+.+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~  152 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLTR-L-IAAERE  152 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHHH-H-HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHHH-H-HHHHHH
Confidence            9999999999999999988775321 11111111111111   111111 222223333344444333322 2 268888


Q ss_pred             HHHHHHHHHHhCCCCCCh-hhHHHHHHHHHcc-CChhHHHHHHHHHHHc
Q 020202          210 EAFRLLHNLVEDGHKPFP-SLYAPIIKGMFRR-GQFDDAFCFFSEMKIK  256 (329)
Q Consensus       210 ~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~  256 (329)
                      +|.+.++...+.  .|+. .....+...+.+. +.+++|.++|..+.+.
T Consensus       153 ~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          153 RELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            898888877664  3443 3333333334444 5678899999877653

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.94  E-value=1.5e-08  Score=71.38  Aligned_cols=103  Identities=13%  Similarity=-0.014  Sum_probs=92.6

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ++..+..+...+.+.|++++|...|+.....+ |.+...|..+..++...|++++|+..|++..+..+. +...|..+..
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHH
Confidence            45678888899999999999999999999987 888999999999999999999999999999987543 6788999999


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCc
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPV  122 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~  122 (329)
                      ++...|++++|...|++..+..  |+.
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~--~~~  137 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHS--NDE  137 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--CCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCH
Confidence            9999999999999999998864  544

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

Probab=98.93  E-value=7.8e-08  Score=65.02  Aligned_cols=98  Identities=15%  Similarity=0.141  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ...+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4556666666666666666666666666543 2244556666666666666666666666665543 3344555556666


Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 020202          132 LLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~  151 (329)
                      +...|++++|...++++.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            66666666666666665554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.92  E-value=9e-08  Score=73.87  Aligned_cols=187  Identities=10%  Similarity=-0.082  Sum_probs=104.0

Q ss_pred             ccCchhHHHHHHHHhhhcCCCccHHHHHHH-------HHHHHhcchHHHHHHHHHHHHHcCCccC---------------
Q 020202           29 KHGLVDNAVEVFNKCTAFNCQQCVLLYNSL-------LFALCEVKLFHGAYALIRRMIRKGFVPD---------------   86 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------   86 (329)
                      ..++...|.+.|.++.+.+ |-....|..+       ...+...++..+++..++.-..  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            5678888888888888776 6677778777       4555555555555555544433  1221               


Q ss_pred             -------hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccC--H
Q 020202           87 -------KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLD--L  157 (329)
Q Consensus        87 -------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  157 (329)
                             ......+...+...|++++|.+.|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1123344555666667777776666665443  322244444555666666666666665433221 110  1


Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          158 ETFNSLIETICKSGEVEFCVEMYYSVCKLGLCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            2455555666666666666666666553221122  223444455555666666666666666554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.92  E-value=3.2e-08  Score=73.55  Aligned_cols=156  Identities=12%  Similarity=-0.020  Sum_probs=87.2

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc----CC-ccChHHHHHHHHHHHhcCc
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK----GF-VPDKRTYAILVNAWCSSGK  102 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~  102 (329)
                      ...|++++|.+.++.+.. .......++..+...+...|++++|...+++....    +. .....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            456778888875554433 21345667777777888888888888888776652    11 1133456666677777777


Q ss_pred             hhHHHHHHHHHHhCC--CC----CCcccHHHHHHHHHhcCChHHHHHHHHHHHHc----CCcc-CHHhHHHHHHHHHccC
Q 020202          103 MREAQEFLQEMSDKG--FN----PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GFVL-DLETFNSLIETICKSG  171 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~--~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~  171 (329)
                      +++|...+++..+..  .+    .....+..+...+...|++++|...+++..+.    +... ...++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            777777776664430  01    11233555666666667777776666665432    1000 0122344555555566


Q ss_pred             CHHHHHHHHHHHH
Q 020202          172 EVEFCVEMYYSVC  184 (329)
Q Consensus       172 ~~~~a~~~~~~~~  184 (329)
                      ++++|.+.+++..
T Consensus       162 ~~~~A~~~~~~al  174 (203)
T 3gw4_A          162 NLLEAQQHWLRAR  174 (203)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            6666655555543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.91  E-value=4.8e-08  Score=66.73  Aligned_cols=119  Identities=11%  Similarity=-0.057  Sum_probs=68.6

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      +...+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...++...+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45556666666666667777777666666543 2245556666666666666666666666665543 333455555666


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE  172 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  172 (329)
                      .+...|++++|...+++..+.... +...+..+..++...|+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhc
Confidence            666666666666666666555322 44444455454444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.90  E-value=5.7e-08  Score=66.66  Aligned_cols=101  Identities=11%  Similarity=0.028  Sum_probs=60.9

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                      +.+...+..+...+...|++++|...|++..+... .+...+..+..++...|++++|...+++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            34455666666666666666666666666665432 245556666666666666666666666665543 3344555556


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ..++.+.|++++|.+.+++..+.
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHh
Confidence            66666666666666666665554

>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=98.89  E-value=6.2e-09  Score=77.28  Aligned_cols=149  Identities=11%  Similarity=0.003  Sum_probs=76.0

Q ss_pred             HHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC---------------hH
Q 020202           24 IEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD---------------KR   88 (329)
Q Consensus        24 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~   88 (329)
                      +......|+++.+.+.|+.-.... +.....+..+...+...|++++|...|++..+......               ..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             -----------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            344445566666666665433221 23455677777778888888888888888776422111               14


Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                      .+..+..++...|++++|...++...+.. +.+...+..+..++...|++++|...|++..+.... +...+..+..++.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~  167 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHH
Confidence            55555555566666666666666555543 334445555555555566666666666555554322 3444444444444


Q ss_pred             ccCCHHH
Q 020202          169 KSGEVEF  175 (329)
Q Consensus       169 ~~~~~~~  175 (329)
                      ..++.++
T Consensus       168 ~~~~~~~  174 (198)
T 2fbn_A          168 KLKEARK  174 (198)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            4444333

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.88  E-value=4.2e-08  Score=72.88  Aligned_cols=119  Identities=11%  Similarity=0.008  Sum_probs=54.8

Q ss_pred             hcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CC-CCCcccHHHHHHHHHhcCCh
Q 020202           64 EVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK----GF-NPPVRGRDLLVQGLLNAGYL  138 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~  138 (329)
                      ..|++++|.+.++.+.. .......++..+...+...|++++|...+++....    +. +....++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            45666666664433322 11223445556666666666666666666655431    10 11123344455555555555


Q ss_pred             HHHHHHHHHHHHc----CCcc--CHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 020202          139 ESAKQMVNKMIKQ----GFVL--DLETFNSLIETICKSGEVEFCVEMYYSV  183 (329)
Q Consensus       139 ~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~  183 (329)
                      ++|...+++..+.    +..+  ....+..+...+...|++++|...+++.
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a  133 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKS  133 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            5555555544332    1010  1223444444455555555555555444

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.88  E-value=6.2e-08  Score=78.21  Aligned_cols=132  Identities=10%  Similarity=0.024  Sum_probs=113.3

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc---------------HHHHHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC---------------VLLYNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      +...+..+...+.+.|++++|...|++..+.. +.+               ..+|..+..++.+.|++++|+..+++..+
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  224 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWL-EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE  224 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh-hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45678889999999999999999999998876 444               58999999999999999999999999998


Q ss_pred             cCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHH-HHHHHHHHH
Q 020202           81 KGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESA-KQMVNKMIK  150 (329)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~  150 (329)
                      ... .+...+..+..++...|++++|...|++..+.. +.+...+..+..++.+.|+.++| ...+..|..
T Consensus       225 ~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          225 LDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            753 377889999999999999999999999998875 45677888899999999999888 446666543

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.87  E-value=3.8e-08  Score=71.51  Aligned_cols=122  Identities=10%  Similarity=0.087  Sum_probs=80.6

Q ss_pred             HhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH-HHhcCCh--H
Q 020202           63 CEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG-LLNAGYL--E  139 (329)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  139 (329)
                      ...|++++|...+++...... .+...+..+...+...|++++|...+++..+.. +.+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            345677777777777766542 356677777777777788888887777776653 3455566666666 6677776  7


Q ss_pred             HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcC
Q 020202          140 SAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLG  187 (329)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  187 (329)
                      +|...+++..+.... +...+..+..++...|++++|...+++..+..
T Consensus        99 ~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            777777777766432 45666677777777777777777777776654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.86  E-value=4.2e-08  Score=68.50  Aligned_cols=99  Identities=14%  Similarity=-0.018  Sum_probs=51.5

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      +...+..+...+.+.|++++|...|++...... .+...|..+..++...|++++|...|+...... +.++..+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            344444455555555555555555555554432 244455555555555555555555555555443 333444555555


Q ss_pred             HHHhcCChHHHHHHHHHHHHc
Q 020202          131 GLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ++...|++++|...|++..+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            555555555555555555443

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.86  E-value=7.3e-08  Score=67.75  Aligned_cols=100  Identities=12%  Similarity=0.011  Sum_probs=89.7

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      +...+..+...+.+.|++++|...|+.....+ |.+...|..+..++...|++++|...|++...... .+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHH
Confidence            55677888899999999999999999999887 77899999999999999999999999999998753 36778899999


Q ss_pred             HHHhcCchhHHHHHHHHHHhCC
Q 020202           96 AWCSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~  117 (329)
                      ++...|++++|...|+...+..
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            9999999999999999997753

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.85  E-value=1.7e-05  Score=63.03  Aligned_cols=137  Identities=10%  Similarity=0.076  Sum_probs=80.1

Q ss_pred             ccCchh-HHHHHHHHhhhcCCCccHHHHHHHHHHHHhcch----------HHHHHHHHHHHHHcCCccChHHHHHHHHHH
Q 020202           29 KHGLVD-NAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKL----------FHGAYALIRRMIRKGFVPDKRTYAILVNAW   97 (329)
Q Consensus        29 ~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (329)
                      +.|.++ +|+.+++.+...+ |-+..+|+.--..+...+.          +++++.+++.+....++ +..+|+.-..++
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL  118 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLL  118 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            445444 6777777777766 5566666654444433332          45666666666665433 555666555555


Q ss_pred             HhcC--chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc
Q 020202           98 CSSG--KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGY-LESAKQMVNKMIKQGFVLDLETFNSLIETICK  169 (329)
Q Consensus        98 ~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  169 (329)
                      ...+  ++++++.+++.+.+.. +.|..+|+....++...|. ++++++.++++.+..+. |...|+.....+..
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~  191 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHH
T ss_pred             hccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHH
Confidence            5555  3666777777766654 4456666666666666666 46666666666666544 55555554444433

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.85  E-value=5.1e-06  Score=65.99  Aligned_cols=232  Identities=8%  Similarity=-0.001  Sum_probs=139.1

Q ss_pred             HHHHHHHHHHH---HhcchHH-HHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc----------hhHHHHHHHHHHhCC
Q 020202           52 VLLYNSLLFAL---CEVKLFH-GAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK----------MREAQEFLQEMSDKG  117 (329)
Q Consensus        52 ~~~~~~l~~~~---~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~  117 (329)
                      +..|..+....   .+.|.+. +|+++++.+...++. +...|+.--.++...+.          +++++.+++.+....
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~  104 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC
Confidence            44454444433   3445544 788888888876432 44455543333333332          567778888877764


Q ss_pred             CCCCcccHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC-HHHHHHHHHHHHHcCCCCchhh
Q 020202          118 FNPPVRGRDLLVQGLLNAGY--LESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE-VEFCVEMYYSVCKLGLCADVST  194 (329)
Q Consensus       118 ~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~  194 (329)
                       +-+..+|+.-..++.+.|+  +++++.+++++.+.... |...|+.-.-++...|. ++++++.++.+.+..+ .|...
T Consensus       105 -PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N~SA  181 (331)
T 3dss_A          105 -PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSS  181 (331)
T ss_dssp             -TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CCHHH
T ss_pred             -CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CCHHH
Confidence             4567777777777777774  78888888888887644 77777777666777777 5788888888887665 56667


Q ss_pred             HHHHHHHHHhc--------------CCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc-----------CChhHHHHH
Q 020202          195 YKILIPAVSKA--------------GMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR-----------GQFDDAFCF  249 (329)
Q Consensus       195 ~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~  249 (329)
                      |+.....+.+.              +.++++.+.+.......+. |...|+-+-..+.+.           +.++++++.
T Consensus       182 W~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~  260 (331)
T 3dss_A          182 WHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELES  260 (331)
T ss_dssp             HHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHH
Confidence            76666555544              3466677777776665433 555555443333333           235566666


Q ss_pred             HHHHHHcCCCCChhhHHHHHHH-----HhccCCHHHHHHHHHHHHhC
Q 020202          250 FSEMKIKGHPPNRPVYTMLITM-----CGRGGRFVEAANYLVEMTEM  291 (329)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~~  291 (329)
                      ++++.+.  .|+. .|..+..+     ....|..+++...+.++++.
T Consensus       261 ~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          261 CKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            6666654  2332 23221111     11345555666666666643

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.85  E-value=2.2e-07  Score=62.06  Aligned_cols=98  Identities=14%  Similarity=0.096  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      +..+..+...+...|++++|...|+...... |.+...+..+...+...|++++|...+++..+... .+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHH
Confidence            4455666666666677777777777666554 44566666666666666666666666666665532 245556666666


Q ss_pred             HHhcCchhHHHHHHHHHHhC
Q 020202           97 WCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~  116 (329)
                      +...|++++|...++...+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            66666666666666666554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.84  E-value=8.2e-08  Score=74.08  Aligned_cols=187  Identities=8%  Similarity=-0.124  Sum_probs=115.8

Q ss_pred             hcchHHHHHHHHHHHHHcCCccChHHHHHH-------HHHHHhcCchhHHHHHHHHHHhCCCCCCc--------------
Q 020202           64 EVKLFHGAYALIRRMIRKGFVPDKRTYAIL-------VNAWCSSGKMREAQEFLQEMSDKGFNPPV--------------  122 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------  122 (329)
                      ..++.+.|.+.|.++.+..+. ....|..+       ...+...++..+++..++.-..  +.|+.              
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            578888888888888877433 55667666       3455555555555554444433  11211              


Q ss_pred             --------ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCc--h
Q 020202          123 --------RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCAD--V  192 (329)
Q Consensus       123 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  192 (329)
                              .....+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                    112335566777788888888887776654  332255555567777888888888876443321 111  2


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--hhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          193 STYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPF--PSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       193 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3566667777778888888888887764332143  234555666777778888888888777765

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.83  E-value=5.3e-08  Score=67.94  Aligned_cols=100  Identities=11%  Similarity=0.008  Sum_probs=88.9

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      +...+..+...+.+.|++++|...|+.....+ |.+...|..+..++...|++++|...|++...... .+...+..+..
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHHH
Confidence            44567778888999999999999999999887 77899999999999999999999999999998753 36778889999


Q ss_pred             HHHhcCchhHHHHHHHHHHhCC
Q 020202           96 AWCSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~  117 (329)
                      ++...|++++|...|+...+..
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999997754

>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=98.80  E-value=2.3e-07  Score=63.12  Aligned_cols=60  Identities=20%  Similarity=0.108  Sum_probs=24.0

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      +..+...+.+.|++++|+..|++..+.+ |.+...|..+..++.+.|++++|+..+++..+
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIE   66 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3333334444444444444444443333 33333444444444444444444444444333

>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=98.78  E-value=1.8e-07  Score=63.70  Aligned_cols=100  Identities=14%  Similarity=-0.024  Sum_probs=88.8

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      +...+..+...+.+.|++++|...|++..+... .+...|..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            456788889999999999999999999998753 377889999999999999999999999998875 456788999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcC
Q 020202          131 GLLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      ++...|++++|...+++..+..
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHhC
Confidence            9999999999999999988763

>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=98.77  E-value=2.3e-07  Score=63.27  Aligned_cols=96  Identities=14%  Similarity=0.141  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--cC----hHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV--PD----KRTYAI   92 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~   92 (329)
                      .+..+...+.+.|++++|+..|++..+.+ |.+...|+.+..+|...|++++|++.+++..+....  ++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            45556666666666666666666666655 555666666666666666666666666665543211  01    123444


Q ss_pred             HHHHHHhcCchhHHHHHHHHHHh
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      +..++...|++++|++.|++...
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            44555555555555555555544

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.76  E-value=7e-07  Score=59.54  Aligned_cols=98  Identities=16%  Similarity=0.023  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ...+..+...+...|++++|...|++...... .+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            44555566666666666666666666665432 245555666666666666666666666665543 2344555555666


Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 020202          132 LLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~  151 (329)
                      +...|++++|.+.+++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhhHHHHHHHHHHHHHc
Confidence            66666666666666665554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.75  E-value=2.5e-07  Score=61.18  Aligned_cols=100  Identities=16%  Similarity=0.070  Sum_probs=67.3

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc--ChHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP--DKRTYAIL   93 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l   93 (329)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            44556666677777777777777777776655 5566667777777777777777777777766653 22  35566666


Q ss_pred             HHHHHhc-CchhHHHHHHHHHHhCC
Q 020202           94 VNAWCSS-GKMREAQEFLQEMSDKG  117 (329)
Q Consensus        94 ~~~~~~~-~~~~~a~~~~~~~~~~~  117 (329)
                      ..++... |++++|.+.++......
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            6777777 77777777777766553

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.75  E-value=3.2e-07  Score=65.66  Aligned_cols=99  Identities=8%  Similarity=-0.030  Sum_probs=71.6

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      +...+..+...+.+.|++++|+..|++..+.. +.+...|..+..++...|++++|+..|++..+.... +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            45567777777777777777777777777765 556777777777777777777777777777766422 5666777777


Q ss_pred             HHHhcCchhHHHHHHHHHHhC
Q 020202           96 AWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      ++...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777777777777777777654

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.75  E-value=4.2e-07  Score=62.70  Aligned_cols=99  Identities=15%  Similarity=0.033  Sum_probs=58.6

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      .++..+..+...+...|++++|...|+...... |.+...|..+..++...|++++|...+++..+.... +...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHH
Confidence            345556666666666666666666666665554 445566666666666666666666666666554322 445555566


Q ss_pred             HHHHhcCchhHHHHHHHHHHh
Q 020202           95 NAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      .++...|++++|...++...+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            666666666666666655544

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.74  E-value=1.8e-07  Score=63.78  Aligned_cols=99  Identities=15%  Similarity=0.179  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--cC----hHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV--PD----KRTY   90 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~   90 (329)
                      +..+..+...+...|++++|...|+...... +.+...+..+...+...|++++|...+++.......  ++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4556667777777777777777777777665 556677777777777777777777777776654321  11    4556


Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhC
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      ..+..++...|++++|.+.++...+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            66666666777777777777666654

>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=98.72  E-value=3e-07  Score=68.10  Aligned_cols=131  Identities=13%  Similarity=0.026  Sum_probs=100.6

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccH----------------HHHHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCV----------------LLYNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      ...+..+...+...|++++|...|++..+.. +.+.                .++..+..++...|++++|+..+++..+
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~  116 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLK  116 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3457778888999999999999999998754 3233                7889999999999999999999999998


Q ss_pred             cCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH-HHHHHHHH
Q 020202           81 KGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAK-QMVNKMIK  150 (329)
Q Consensus        81 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~  150 (329)
                      .. +.+...+..+..++...|++++|...|++..+.. +.+...+..+..++...++..++. ..+..+..
T Consensus       117 ~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          117 ID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             hC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            74 3367889999999999999999999999998764 445667777777777777766665 44554443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.71  E-value=8.2e-07  Score=62.01  Aligned_cols=99  Identities=16%  Similarity=0.072  Sum_probs=58.1

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc---HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC---VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAI   92 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   92 (329)
                      +...+..+...+...|++++|.+.|+...+.. +.+   ...+..+..++...|++++|...+++..+... .+...+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD-ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG-GDVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS-CCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc-ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc-cCHHHHHH
Confidence            45556666666666666666666666666544 222   45555666666666666666666666555422 24445555


Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhC
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      +..++...|++++|...+++....
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            555666666666666666665544

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.70  E-value=3.2e-06  Score=70.64  Aligned_cols=197  Identities=12%  Similarity=0.009  Sum_probs=101.3

Q ss_pred             HHHHHhcchHHHHHHHHHHHHHcCCccCh----------------HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCC-CC
Q 020202           59 LFALCEVKLFHGAYALIRRMIRKGFVPDK----------------RTYAILVNAWCSSGKMREAQEFLQEMSDKGFN-PP  121 (329)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~  121 (329)
                      ...+.+.|++++|++.|..+.+.......                ..+..+...|...|++++|.+.+..+...--. ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            34566777788888877777765322211                12455666666677777776666665432101 11


Q ss_pred             c----ccHHHHHHHHHhcCChHHHHHHHHHHHHc----CCccC-HHhHHHHHHHHHccCCHHHHHHHHHHHHHc--CC--
Q 020202          122 V----RGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GFVLD-LETFNSLIETICKSGEVEFCVEMYYSVCKL--GL--  188 (329)
Q Consensus       122 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~--  188 (329)
                      .    .+.+.+-..+...|+++.|..++.+....    +..+. ..++..+...+...|++++|..++.+....  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    11122222333446666666666654432    11111 334555666666666666666666665432  11  


Q ss_pred             CC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCC-C--hhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          189 CA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVED---GHKP-F--PSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       189 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      .+ ...++..++..|...|++++|..+++.....   ...| .  ...+..+...+...|++++|...|.+...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            11 1335556666666666666666666655432   1111 1  12344444555556666666666655554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.69  E-value=5.9e-07  Score=59.30  Aligned_cols=93  Identities=14%  Similarity=-0.017  Sum_probs=36.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC--chhhHHHHHHHH
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCA--DVSTYKILIPAV  202 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~  202 (329)
                      +..+...+...|++++|...+++..+.... +...+..+..++...|++++|...+++..+... .  +...+..+..++
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVIE-DEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSC-CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-ccchHHHHHHHHHHH
Confidence            333444444444444444444444433211 233333444444444444444444444433221 1  233333333444


Q ss_pred             Hhc-CCHHHHHHHHHHHH
Q 020202          203 SKA-GMIDEAFRLLHNLV  219 (329)
Q Consensus       203 ~~~-~~~~~a~~~~~~~~  219 (329)
                      ... |++++|.+.++...
T Consensus        87 ~~~~~~~~~A~~~~~~~~  104 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAK  104 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHG
T ss_pred             HHHhCCHHHHHHHHHHHh
Confidence            444 44444444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.67  E-value=9.3e-07  Score=63.21  Aligned_cols=100  Identities=15%  Similarity=0.002  Sum_probs=71.5

Q ss_pred             ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           50 QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      .+...+..+...+...|++++|+..|++..+.... +...|..+..++...|++++|+..+++..+.. +.+...|..+.
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            44566777777777778888888888777765422 56677777777777777777777777777654 34466677777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc
Q 020202          130 QGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .++...|++++|...|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            7777777777777777777665

>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=98.67  E-value=7.7e-07  Score=60.62  Aligned_cols=98  Identities=14%  Similarity=0.105  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCC----cccHH
Q 020202           53 LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF--NPP----VRGRD  126 (329)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~  126 (329)
                      ..+..+...+.+.|++++|++.|++..+..+ -+...|..+..++...|++++|+..+++..+...  .++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p-~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDP-SNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            4455666666667777777777766666532 2455666666666666777776666666654320  000    11344


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      .+..++...|++++|++.|++....
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4445555556666666666555543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.65  E-value=1.8e-06  Score=60.25  Aligned_cols=101  Identities=13%  Similarity=0.000  Sum_probs=73.6

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC----hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCccc
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD----KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRG  124 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  124 (329)
                      +.+...+..+...+...|++++|.+.|++..+.  .|+    ...+..+..++...|++++|...++...+.. +.+...
T Consensus        25 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  101 (148)
T 2dba_A           25 ASSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKA  101 (148)
T ss_dssp             CCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHH
Confidence            345677777888888888888888888887765  344    5667777777778888888888887776653 334566


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQG  152 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~  152 (329)
                      +..+..++...|++++|...+++..+..
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            6777777777788888887777777653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.65  E-value=2.8e-06  Score=71.04  Aligned_cols=198  Identities=10%  Similarity=0.027  Sum_probs=141.2

Q ss_pred             HHHHHHhcCchhHHHHHHHHHHhCCCCCCc----------------ccHHHHHHHHHhcCChHHHHHHHHHHHHcCC-cc
Q 020202           93 LVNAWCSSGKMREAQEFLQEMSDKGFNPPV----------------RGRDLLVQGLLNAGYLESAKQMVNKMIKQGF-VL  155 (329)
Q Consensus        93 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~  155 (329)
                      -...+.+.|++++|++.|..+.+.......                ..+..+...|...|++++|.+.+.++...-. .+
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            356678899999999999999876422111                1267788999999999999999988765411 11


Q ss_pred             CH----HhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC-
Q 020202          156 DL----ETFNSLIETICKSGEVEFCVEMYYSVCKL----GLCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVED--GH-  223 (329)
Q Consensus       156 ~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~-  223 (329)
                      +.    .+.+.+-..+...|+++.+..++......    +..+ -..++..+...+...|++++|..+++++...  +. 
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            22    12333344445678899999999887542    2222 2457788899999999999999999987643  11 


Q ss_pred             -CC-ChhhHHHHHHHHHccCChhHHHHHHHHHHHc----CCCCC--hhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          224 -KP-FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK----GHPPN--RPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       224 -~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                       .+ ...++..++..|...|++++|..++++....    +.++.  ...+..+...+...|++++|...+.+..+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             11 2356888889999999999999999887643    11111  24566677778889999999999888764

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.64  E-value=1.2e-06  Score=60.42  Aligned_cols=99  Identities=12%  Similarity=-0.017  Sum_probs=54.3

Q ss_pred             ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHH
Q 020202           50 QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLV  129 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  129 (329)
                      .+...+..+...+...|++++|...|+....... .+...+..+..++...|++++|...++...+.. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            3455555556666666666666666665555432 234555555555555666666666555555543 23344555555


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 020202          130 QGLLNAGYLESAKQMVNKMIK  150 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~~~~~  150 (329)
                      .++...|++++|...+++..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            555555555555555555544

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.64  E-value=3.9e-07  Score=62.10  Aligned_cols=99  Identities=11%  Similarity=0.085  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCC----cccH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGF--NPP----VRGR  125 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~  125 (329)
                      ...+..+...+...|++++|...|++..... +.+...+..+..++...|++++|...++.......  .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            3455666666666777777777776666553 22455566666666666666666666666654321  111    3445


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          126 DLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       126 ~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ..+..++...|++++|.+.+++..+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            55555566666666666666665554

>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=98.63  E-value=7.4e-08  Score=81.18  Aligned_cols=117  Identities=12%  Similarity=-0.002  Sum_probs=57.0

Q ss_pred             chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC--------------hHHHHHHHHHH
Q 020202           32 LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD--------------KRTYAILVNAW   97 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~   97 (329)
                      ++++|...|+...... +.....|..+...+.+.|++++|...|++..+......              ...|..+..++
T Consensus       249 ~~~~A~~~~~~~~~~~-~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~  327 (457)
T 1kt0_A          249 SFEKAKESWEMDTKEK-LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCY  327 (457)
T ss_dssp             EEECCCCGGGSCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHHH-HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            3444544444333322 23455667777777777777777777777765421111              23344444444


Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIK  150 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  150 (329)
                      .+.|++++|+..+++..+.. +.+...|..+..+|...|++++|...|++..+
T Consensus       328 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~  379 (457)
T 1kt0_A          328 LKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  379 (457)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            44444444444444444432 22333344444444444444444444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.63  E-value=5.7e-07  Score=60.70  Aligned_cols=96  Identities=13%  Similarity=-0.105  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWC   98 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   98 (329)
                      .+..+...+.+.|++++|...|+...+.. |.+...|..+..++...|++++|+..|++..+.... +...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34555666777788888888888777766 667777777777777778888888887777766432 5566777777777


Q ss_pred             hcCchhHHHHHHHHHHhC
Q 020202           99 SSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~  116 (329)
                      ..|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            777777777777777654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.57  E-value=2.7e-06  Score=57.85  Aligned_cols=94  Identities=20%  Similarity=0.109  Sum_probs=56.6

Q ss_pred             HHHHHHHHccCchhHHHHHHHHhhhcCCCccH---HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC---hHHHHHHH
Q 020202           21 SLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCV---LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD---KRTYAILV   94 (329)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~   94 (329)
                      ..+...+...|++++|...|+.+.+.. |.+.   ..+..+..++...|++++|...|++..+.... +   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHH
Confidence            344555666677777777777666544 3333   45666666666667777777766666654322 2   34455566


Q ss_pred             HHHHhcCchhHHHHHHHHHHhC
Q 020202           95 NAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      .++...|++++|...++.+.+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666666554

>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=98.55  E-value=3.7e-07  Score=77.29  Aligned_cols=122  Identities=13%  Similarity=0.086  Sum_probs=98.9

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      .+...+.+.|++++|.+.|++..+.. |.+..+|..+..++.+.|++++|.+.+++..+... .+...+..+..++...|
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcC
Confidence            34455678899999999999999876 67799999999999999999999999999998753 36788999999999999


Q ss_pred             chhHHHHHHHHHHhCCCCCCcccHHHHHHH--HHhcCChHHHHHHHH
Q 020202          102 KMREAQEFLQEMSDKGFNPPVRGRDLLVQG--LLNAGYLESAKQMVN  146 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  146 (329)
                      ++++|.+.+++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        89 ~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           89 KFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999998764 3345566666666  888899999999988

>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=98.55  E-value=2.1e-06  Score=72.32  Aligned_cols=130  Identities=9%  Similarity=0.022  Sum_probs=106.7

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc---------------HHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC---------------VLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      ...+..+...+.+.|++++|...|++..+.. +.+               ..+|..+..++.+.|++++|+..+++.++.
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            4567888899999999999999999998765 333               688999999999999999999999999987


Q ss_pred             CCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHH-HHHHHH
Q 020202           82 GFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQ-MVNKMI  149 (329)
Q Consensus        82 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~  149 (329)
                      .. .+...|..+..++...|++++|...|++..+.. +.+...+..+..++.+.++.+++.+ .+..|.
T Consensus       347 ~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          347 DS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             ST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             CC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            53 377889999999999999999999999998875 4566788888888888888877764 444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.53  E-value=1.9e-06  Score=58.03  Aligned_cols=94  Identities=13%  Similarity=0.023  Sum_probs=49.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHh
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSK  204 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  204 (329)
                      +..+...+.+.|++++|...+++..+.... +...|..+..++...|++++|+..|++..+..+ .+...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            334444555555555555555555554322 445555555555555555555555555555432 234455555555555


Q ss_pred             cCCHHHHHHHHHHHHh
Q 020202          205 AGMIDEAFRLLHNLVE  220 (329)
Q Consensus       205 ~~~~~~a~~~~~~~~~  220 (329)
                      .|++++|...+++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555544

>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=98.51  E-value=1.9e-06  Score=70.32  Aligned_cols=89  Identities=10%  Similarity=-0.105  Sum_probs=51.5

Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      ...|..+..++.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|.+.|++..+.... +...+..+..+
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~  350 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            3455566666666666666666666666543 334555666666666666666666666666655322 44555555555


Q ss_pred             HHccCCHHHHH
Q 020202          167 ICKSGEVEFCV  177 (329)
Q Consensus       167 ~~~~~~~~~a~  177 (329)
                      +...++.+++.
T Consensus       351 ~~~~~~~~~a~  361 (370)
T 1ihg_A          351 KQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555443

>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=98.50  E-value=2.1e-06  Score=72.69  Aligned_cols=121  Identities=10%  Similarity=0.026  Sum_probs=77.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC
Q 020202          128 LVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM  207 (329)
Q Consensus       128 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  207 (329)
                      +...+.+.|++++|.+.+++..+.... +...+..+..++.+.|++++|.+.+++..+..+ .+...+..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCC
Confidence            344566677777777777777776432 566777777777777777777777777776543 345667777777777777


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHH--HHccCChhHHHHHHH
Q 020202          208 IDEAFRLLHNLVEDGHKPFPSLYAPIIKG--MFRRGQFDDAFCFFS  251 (329)
Q Consensus       208 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  251 (329)
                      +++|...|++..+.... +...+..+..+  +.+.|++++|.+.++
T Consensus        90 ~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            77777777777665322 33344444444  666677777777766

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.49  E-value=1.3e-06  Score=61.94  Aligned_cols=96  Identities=9%  Similarity=-0.043  Sum_probs=39.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHccCChhHHHHHHHHHHHc----CCC-CChh
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVED----GHKP-FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK----GHP-PNRP  263 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~  263 (329)
                      ++..+...+...|++++|...+++..+.    +..+ ....+..+...+...|++++|...+++....    +.+ ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            3444444444445555555544443321    0000 0223334444444555555555544444322    000 0112


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                      .+..+...+...|++++|.+.+++..
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33444444445555555555544433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.48  E-value=2.1e-06  Score=60.81  Aligned_cols=25  Identities=12%  Similarity=0.053  Sum_probs=11.2

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHH
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMI   79 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~   79 (329)
                      +..+...+...|++++|...+++..
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al   36 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRL   36 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            3444444444444444444444433

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.47  E-value=4.5e-06  Score=59.44  Aligned_cols=99  Identities=13%  Similarity=0.120  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhc--------C---------CCccHHHHHHHHHHHHhcchHHHHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAF--------N---------CQQCVLLYNSLLFALCEVKLFHGAYALIRRMI   79 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   79 (329)
                      ...+......+.+.|++++|+..|+.....        .         -+.+...|..+..++.+.|++++|+..++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456777778888889999998888887764        0         02233455556666666666666666666655


Q ss_pred             HcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 020202           80 RKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        80 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      +... .+...|..+..++...|++++|...|+.....
T Consensus        91 ~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KREE-TNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcCC-cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            5432 24455555666666666666666666655554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.47  E-value=6.6e-07  Score=59.97  Aligned_cols=87  Identities=15%  Similarity=0.129  Sum_probs=58.1

Q ss_pred             ccCchhHHHHHHHHhhhcC--CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHH
Q 020202           29 KHGLVDNAVEVFNKCTAFN--CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREA  106 (329)
Q Consensus        29 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  106 (329)
                      ..|++++|+..|++..+.+  -|.+...+..+..++...|++++|...|++..+..+. +...+..+..++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHH
Confidence            3567777777777777653  2445667777777777777777777777777766433 466677777777777777777


Q ss_pred             HHHHHHHHhC
Q 020202          107 QEFLQEMSDK  116 (329)
Q Consensus       107 ~~~~~~~~~~  116 (329)
                      ...+++....
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777777654

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.46  E-value=3.1e-05  Score=66.90  Aligned_cols=173  Identities=10%  Similarity=0.025  Sum_probs=138.6

Q ss_pred             chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcch----------HHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           32 LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKL----------FHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      .-++|++.++.+...+ |-+..+|+.--.++...++          ++++++.++.+.+...+ +..+|+.-.-++.+.+
T Consensus        44 ~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcc
Confidence            3467899999999887 7778888887777777777          89999999999987655 7788888888888888


Q ss_pred             --chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc--------
Q 020202          102 --KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG-YLESAKQMVNKMIKQGFVLDLETFNSLIETICKS--------  170 (329)
Q Consensus       102 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  170 (329)
                        +++++++.++++.+.. +.+..+|+....++.+.| .++++++.++++.+..+. +...|+.....+.+.        
T Consensus       122 ~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccc
Confidence              6799999999998876 567888988888888888 899999999999888655 778888777666552        


Q ss_pred             ------CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH
Q 020202          171 ------GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMID  209 (329)
Q Consensus       171 ------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  209 (329)
                            +.++++.+.+++.....+ -+...|..+-..+.+.++.+
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCCCS
T ss_pred             cccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCCcc
Confidence                  457888888888887654 56777887777776666533

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.44  E-value=1.8e-05  Score=53.63  Aligned_cols=22  Identities=14%  Similarity=-0.013  Sum_probs=8.6

Q ss_pred             HHHHHHccCCHHHHHHHHHHHH
Q 020202          163 LIETICKSGEVEFCVEMYYSVC  184 (329)
Q Consensus       163 l~~~~~~~~~~~~a~~~~~~~~  184 (329)
                      +..++...|++++|...|+.+.
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~  103 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVA  103 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            3333333444444444443333

>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=98.41  E-value=5.2e-06  Score=67.76  Aligned_cols=91  Identities=7%  Similarity=-0.070  Sum_probs=69.3

Q ss_pred             CcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 020202          121 PVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIP  200 (329)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  200 (329)
                      +...|..+..+|.+.|++++|+..+++..+.... +...+..+..+|...|++++|...|++..+..+ .+...+..+..
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~  349 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            3566777888888888888888888888876433 677788888888888888888888888877643 35666777777


Q ss_pred             HHHhcCCHHHHHH
Q 020202          201 AVSKAGMIDEAFR  213 (329)
Q Consensus       201 ~~~~~~~~~~a~~  213 (329)
                      ++...++.+++.+
T Consensus       350 ~~~~~~~~~~a~k  362 (370)
T 1ihg_A          350 VKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777766654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.35  E-value=2.3e-06  Score=69.09  Aligned_cols=149  Identities=11%  Similarity=-0.000  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAW   97 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (329)
                      ..+..+...+.+.|++++|...|++.....  |+...       +...++.+++...+.          ...|..+..++
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            445566666777777778877777776643  22221       222333333332221          13677788888


Q ss_pred             HhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH-HHccCCHHHH
Q 020202           98 CSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET-ICKSGEVEFC  176 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a  176 (329)
                      .+.|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..+.... +...+..+... ....+..+.+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888887764 446677888888888888888888888887765322 34455555444 2345567777


Q ss_pred             HHHHHHHHHcC
Q 020202          177 VEMYYSVCKLG  187 (329)
Q Consensus       177 ~~~~~~~~~~~  187 (329)
                      ...|..+....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            78888776543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.35  E-value=1.1e-05  Score=57.35  Aligned_cols=99  Identities=15%  Similarity=0.124  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHc--------CC---------ccChHHHHHHHHHHHhcCchhHHHHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRK--------GF---------VPDKRTYAILVNAWCSSGKMREAQEFLQEMS  114 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  114 (329)
                      ...+......+.+.|++++|+..|.+....        ..         +.+...|..+..++.+.|++++|+..++...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            556777888888999999999999887764        00         1122345555556666666666666666665


Q ss_pred             hCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          115 DKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       115 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      +.. +.+...|..+..++...|++++|...|++..+.
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            543 334455555666666666666666666655554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.34  E-value=1.7e-06  Score=57.89  Aligned_cols=86  Identities=20%  Similarity=0.152  Sum_probs=51.9

Q ss_pred             cchHHHHHHHHHHHHHcC--CccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHH
Q 020202           65 VKLFHGAYALIRRMIRKG--FVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAK  142 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  142 (329)
                      .|++++|+..|++..+.+  -+.+...+..+..++...|++++|...+++..+.. +.+...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            456666777777666543  12234556666666777777777777777766654 334556666666667777777777


Q ss_pred             HHHHHHHHc
Q 020202          143 QMVNKMIKQ  151 (329)
Q Consensus       143 ~~~~~~~~~  151 (329)
                      ..+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            776666654

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.31  E-value=8.2e-05  Score=64.25  Aligned_cols=169  Identities=7%  Similarity=-0.013  Sum_probs=92.1

Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccC--
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGY----------LESAKQMVNKMIKQGFVLDLETFNSLIETICKSG--  171 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  171 (329)
                      ++|++.++.+...+ +-+..+|+.--.++.+.|+          ++++++.++++.+.... +..+|+.-.-++.+.+  
T Consensus        46 eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           46 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccc
Confidence            44555555555543 2233444444444444444          56666666666655433 5555555555555555  


Q ss_pred             CHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHcc----------
Q 020202          172 EVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAG-MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRR----------  240 (329)
Q Consensus       172 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------  240 (329)
                      +++++++.++++.+..+ -+...|+.-..++.+.| .++++.+.++++.+.++. +...|+.....+.+.          
T Consensus       124 ~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccccccc
Confidence            44666666666665543 44555555555555555 566666666666555433 445555544444332          


Q ss_pred             ----CChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC
Q 020202          241 ----GQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGR  277 (329)
Q Consensus       241 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  277 (329)
                          +.++++.+.++++.... +-|...|..+...+.+.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             cccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                34567777777766652 3355666666666655555

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.29  E-value=2.7e-06  Score=68.61  Aligned_cols=150  Identities=9%  Similarity=0.005  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ...+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            445666677777778888888888777654  233221       223333333332221          2378889999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHH-HHhcCCHHH
Q 020202          132 LLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA-VSKAGMIDE  210 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~  210 (329)
                      |.+.|++++|+..+++..+.... +...+..+..+|...|++++|...|++..+..+ .+...+..+... ....+..+.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p-~~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYAP-DDKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999987533 778999999999999999999999999876543 234455555554 334567788


Q ss_pred             HHHHHHHHHhCC
Q 020202          211 AFRLLHNLVEDG  222 (329)
Q Consensus       211 a~~~~~~~~~~~  222 (329)
                      +..+|..+....
T Consensus       318 a~~~~~~~l~~~  329 (338)
T 2if4_A          318 QKEMYKGIFKGK  329 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHhhCCC
Confidence            888998887653

>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=98.27  E-value=2.4e-05  Score=54.61  Aligned_cols=61  Identities=13%  Similarity=0.047  Sum_probs=34.1

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCCCc-------c-----HHHHHHHHHHHHhcchHHHHHHHHHHHHH
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQ-------C-----VLLYNSLLFALCEVKLFHGAYALIRRMIR   80 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   80 (329)
                      .+......+.+.|++++|+..|++..+.. |.       +     ...|+.+..++.+.|++++|+..+++.++
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~-p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEIS-HTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH-TTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34555566667777777777777776554 11       1     12455555555555555555555555444

>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=98.25  E-value=1.5e-05  Score=55.67  Aligned_cols=97  Identities=18%  Similarity=0.014  Sum_probs=48.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C-----Ch-----hhHHHHHHHHHccCChhHHHHHHHHHHHc-----C
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVEDGHK-P-----FP-----SLYAPIIKGMFRRGQFDDAFCFFSEMKIK-----G  257 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~  257 (329)
                      .+......+.+.|++++|...|++..+.... |     +.     ..|..+..++.+.|++++|+..+++.++.     .
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            4445555666677777777777776654222 0     11     14455555555555555555555555442     0


Q ss_pred             CCC-ChhhH----HHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          258 HPP-NRPVY----TMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       258 ~~~-~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      +.| +...|    .....++...|++++|+..|++..+
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            022 22333    4444445555555555555554443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.22  E-value=6.2e-05  Score=51.85  Aligned_cols=109  Identities=10%  Similarity=0.076  Sum_probs=49.0

Q ss_pred             chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh----cCchhHHH
Q 020202           32 LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS----SGKMREAQ  107 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  107 (329)
                      ++++|.+.|++..+.+ .+...    |...|...+.+++|.++|++..+.|   +...+..+...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4445555555555444 22222    3444444444444555555544443   33344444444444    44455555


Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHHHHHHHHHHHc
Q 020202          108 EFLQEMSDKGFNPPVRGRDLLVQGLLN----AGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  151 (329)
                      .+|++..+.|   ++..+..|...|..    .+++++|...|++..+.
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            5555444433   23334444444444    44444444444444444

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.19  E-value=6.7e-06  Score=69.38  Aligned_cols=123  Identities=10%  Similarity=-0.009  Sum_probs=70.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhC---CCCC----ChhhHHHHHHHHHccCChhHHHHHHHHHHHc-----C--CCCChhhHHH
Q 020202          202 VSKAGMIDEAFRLLHNLVED---GHKP----FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK-----G--HPPNRPVYTM  267 (329)
Q Consensus       202 ~~~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  267 (329)
                      +...|++++|+.++++..+.   -..|    ...+++.|...|...|++++|..++++.+..     |  .+-...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44567777777777665532   1111    1345666777777777777777776665532     1  1112345666


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHh-----CCCC-CC-hhhHHHHHHHHHhCCchhHHHHHHHHHh
Q 020202          268 LITMCGRGGRFVEAANYLVEMTE-----MGLT-PI-SRCFDLVTDGLKNCGKHDLAEKIELLEV  324 (329)
Q Consensus       268 l~~~~~~~~~~~~a~~~~~~~~~-----~~~~-p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  324 (329)
                      |...|...|++++|..++++..+     .|.. |+ ..+...+..++...|.+++|+.++..+.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777766542     2321 11 3344555566666677777776666553

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.18  E-value=1e-05  Score=68.30  Aligned_cols=125  Identities=12%  Similarity=0.048  Sum_probs=95.1

Q ss_pred             HHHccCCHHHHHHHHHHHHHc-----CC-CC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CC-ChhhHH
Q 020202          166 TICKSGEVEFCVEMYYSVCKL-----GL-CA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVED-----GH-KP-FPSLYA  231 (329)
Q Consensus       166 ~~~~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~-~~~~~~  231 (329)
                      .+...|++++|..++++..+.     |. .| ...+++.|..+|...|++++|..++++..+.     |. .| ...+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            356789999999999887643     11 12 2467999999999999999999999987642     22 12 245688


Q ss_pred             HHHHHHHccCChhHHHHHHHHHHHc-----CC--CCChhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          232 PIIKGMFRRGQFDDAFCFFSEMKIK-----GH--PPNRPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       232 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      .|...|...|++++|+.++++....     |.  +....+.+.+..++...+.+++|..++..+.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999887643     32  22234556677778889999999999999875

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.17  E-value=0.00014  Score=50.07  Aligned_cols=111  Identities=16%  Similarity=0.055  Sum_probs=61.6

Q ss_pred             chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHH
Q 020202           66 KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN----AGYLESA  141 (329)
Q Consensus        66 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  141 (329)
                      +++++|.++|++..+.| .|+.  .  +...|...+..++|.++|++..+.|   ++..+..+...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFG--C--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTH--H--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhh--h--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            45666666666666655 2222  2  4455555555666666666665553   34455555555555    5566666


Q ss_pred             HHHHHHHHHcCCccCHHhHHHHHHHHHc----cCCHHHHHHHHHHHHHcC
Q 020202          142 KQMVNKMIKQGFVLDLETFNSLIETICK----SGEVEFCVEMYYSVCKLG  187 (329)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  187 (329)
                      .+.|++..+.|   ++..+..+...|..    .+++++|...|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66666665553   34455555555555    555566666555555543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.16  E-value=1.3e-05  Score=52.60  Aligned_cols=91  Identities=15%  Similarity=0.101  Sum_probs=58.6

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCcc-C----hHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVP-D----KRTY   90 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~   90 (329)
                      +...+..+...+...|++++|++.|++..+.. |.+...+..+..++...|++++|.+.+++..+..... +    ...+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~   81 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHH
Confidence            45667777777777788888888887777665 5667777777777777778888877777777653211 0    3334


Q ss_pred             HHHHHHHHhcCchhHHH
Q 020202           91 AILVNAWCSSGKMREAQ  107 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~  107 (329)
                      ..+..++...|+.+.|.
T Consensus        82 ~~~~~~~~~~~~~~~a~   98 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPV   98 (111)
T ss_dssp             HHHHHHHHHHHCCCCCS
T ss_pred             HHHHHHHHHHHhHhhhH
Confidence            44444444444444443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.15  E-value=3.3e-05  Score=48.59  Aligned_cols=79  Identities=15%  Similarity=0.118  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+... .+...+..+..+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            3455555666666666666666666665544 44555566666666666666666666666555432 133444444443


Q ss_pred             H
Q 020202           97 W   97 (329)
Q Consensus        97 ~   97 (329)
                      +
T Consensus        87 ~   87 (91)
T 1na3_A           87 K   87 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.10  E-value=2.8e-05  Score=54.18  Aligned_cols=94  Identities=15%  Similarity=0.039  Sum_probs=68.9

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchH----------HHHHHHHHHHHHcCCccChHHHHHHHHHH
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLF----------HGAYALIRRMIRKGFVPDKRTYAILVNAW   97 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   97 (329)
                      .+.+.+++|.+.++...+.+ |.+...|+.+..++...+++          ++|+..|++.++.... +..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            45567889999999998887 78889999888888888765          4788888887776433 556777777777


Q ss_pred             HhcC-----------chhHHHHHHHHHHhCCCCCCcccH
Q 020202           98 CSSG-----------KMREAQEFLQEMSDKGFNPPVRGR  125 (329)
Q Consensus        98 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~  125 (329)
                      ...|           ++++|.+.|++..+..  |+...|
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~--P~~~~y  127 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDEQ--PDNTHY  127 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHhC--CCCHHH
Confidence            7664           6777777777776643  554444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.07  E-value=4.4e-05  Score=50.65  Aligned_cols=78  Identities=15%  Similarity=0.069  Sum_probs=40.1

Q ss_pred             HHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHh
Q 020202           36 AVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        36 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      |+..|+...+.+ |.+...+..+...+...|++++|...|++..+... .+...|..+..++...|++++|...|++..+
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444555554443 44455555555555555555555555555554432 1344455555555555555555555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.04  E-value=3.6e-05  Score=49.70  Aligned_cols=67  Identities=18%  Similarity=0.098  Sum_probs=51.8

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      |-++..+..+...+.+.|++++|+..|++..+.+ |.+...|..+..+|...|++++|.+.|++..+.
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3466777788888888888888888888887776 666778888888888888888888888776653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.02  E-value=9.6e-05  Score=46.35  Aligned_cols=79  Identities=15%  Similarity=0.133  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ...+..+...+...|++++|...|++..+... .+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            44555566666666666666666666655432 244455555666666666666666666655543 2233334444333


Q ss_pred             H
Q 020202          132 L  132 (329)
Q Consensus       132 ~  132 (329)
                      +
T Consensus        87 ~   87 (91)
T 1na3_A           87 K   87 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.01  E-value=6.1e-05  Score=49.93  Aligned_cols=77  Identities=13%  Similarity=0.052  Sum_probs=66.2

Q ss_pred             HHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202            3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      +.++...+.. +.++..+..+...+...|++++|...|+...+.+ |.+...|..+..++...|++++|...|++..+.
T Consensus         6 ~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            6 ERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3455555444 5578899999999999999999999999999877 677889999999999999999999999998765

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.00  E-value=4.2e-05  Score=50.14  Aligned_cols=90  Identities=12%  Similarity=-0.020  Sum_probs=58.9

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-------cc
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPP-------VR  123 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~  123 (329)
                      +...+..+...+...|++++|.+.|++..+... .+...+..+..++...|++++|...+++..+..  |+       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHHH
Confidence            456677777777888888888888887776642 256677777777888888888888888777653  33       23


Q ss_pred             cHHHHHHHHHhcCChHHHHH
Q 020202          124 GRDLLVQGLLNAGYLESAKQ  143 (329)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~  143 (329)
                      .+..+..++...|+.+.|..
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHHhHhhhHh
Confidence            34444444444444444433

>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=97.91  E-value=8.5e-05  Score=51.77  Aligned_cols=95  Identities=9%  Similarity=0.006  Sum_probs=65.8

Q ss_pred             HhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCch----------hHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 020202           63 CEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKM----------REAQEFLQEMSDKGFNPPVRGRDLLVQGL  132 (329)
Q Consensus        63 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (329)
                      .+.+.+++|.+.++...+.... +...|..+..++...+++          ++|+..|++.++.. +.+..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            3556788888888888877533 777888888888877765          47777777777764 34556777777777


Q ss_pred             HhcC-----------ChHHHHHHHHHHHHcCCccCHHhHH
Q 020202          133 LNAG-----------YLESAKQMVNKMIKQGFVLDLETFN  161 (329)
Q Consensus       133 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~  161 (329)
                      ...|           ++++|.+.|++..+.  .|+...|.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~  128 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYL  128 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHH
Confidence            7664           677777777776665  34444443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.83  E-value=0.001  Score=53.29  Aligned_cols=143  Identities=12%  Similarity=0.010  Sum_probs=85.6

Q ss_pred             CccHHHHHHHHHHHHh-----cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh---cC--c---hhHHHHHHHHHHh
Q 020202           49 QQCVLLYNSLLFALCE-----VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS---SG--K---MREAQEFLQEMSD  115 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~--~---~~~a~~~~~~~~~  115 (329)
                      |.+...|...+++...     ..+..+|..+|++..+..+. ....|..+.-++..   .+  .   .......++....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lDP~-~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSSPE-FTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            5566666666655432     23356777777777765321 23344433333321   01  0   1111112222111


Q ss_pred             -CCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhh
Q 020202          116 -KGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVST  194 (329)
Q Consensus       116 -~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  194 (329)
                       ...+.+..++..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.|++....+  |...+
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--P~~~t  345 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PGANT  345 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CSHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcCh
Confidence             1124566777777777777789999999999888885  677777777788888899999999998887754  45455


Q ss_pred             HH
Q 020202          195 YK  196 (329)
Q Consensus       195 ~~  196 (329)
                      |.
T Consensus       346 ~~  347 (372)
T 3ly7_A          346 LY  347 (372)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.78  E-value=0.00015  Score=46.73  Aligned_cols=66  Identities=12%  Similarity=0.000  Sum_probs=45.7

Q ss_pred             CccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHh
Q 020202           49 QQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      |.+...+..+...+...|++++|+..|++..+.... +...|..+..++...|++++|...+++..+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445667777777777777777777777777766432 455677777777777777777777776654

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.58  E-value=0.00024  Score=58.95  Aligned_cols=89  Identities=7%  Similarity=-0.056  Sum_probs=59.3

Q ss_pred             ccCChhHHHHHHHHHHHc---CCCC----ChhhHHHHHHHHhccCCHHHHHHHHHHHHh-----CCC-CCC-hhhHHHHH
Q 020202          239 RRGQFDDAFCFFSEMKIK---GHPP----NRPVYTMLITMCGRGGRFVEAANYLVEMTE-----MGL-TPI-SRCFDLVT  304 (329)
Q Consensus       239 ~~~~~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~p~-~~~~~~l~  304 (329)
                      ..|++++|+.++++.++.   -+.|    ...+++.+..+|...|++++|..++++..+     .|. .|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            346777887777776543   1111    235677778888888888888888777653     221 122 45677788


Q ss_pred             HHHHhCCchhHHHHHHHHHhhhc
Q 020202          305 DGLKNCGKHDLAEKIELLEVSLR  327 (329)
Q Consensus       305 ~~~~~~g~~~~a~~~~~~~~~~~  327 (329)
                      ..|...|++++|+.+++.+..+.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~  412 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIM  412 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHH
Confidence            88888888888888877776653

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.54  E-value=0.0051  Score=49.33  Aligned_cols=144  Identities=11%  Similarity=-0.003  Sum_probs=90.4

Q ss_pred             ccChHHHHHHHHHHHh--cC---chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh---cC-Ch-HHHH---HHHHHHHH
Q 020202           84 VPDKRTYAILVNAWCS--SG---KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN---AG-YL-ESAK---QMVNKMIK  150 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~--~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~-~~-~~a~---~~~~~~~~  150 (329)
                      +.+...|...+++...  .+   +..+|..+|++..+.. |-....+..+.-+|..   .+ .. ....   ..+.....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            4466677777765432  22   3578888899888764 2233444444433321   11 11 1111   11221111


Q ss_pred             -cCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhh
Q 020202          151 -QGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSL  229 (329)
Q Consensus       151 -~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  229 (329)
                       ...+.+..++..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++....  .|...+
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t  345 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANT  345 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcCh
Confidence             1124467777777777777799999999999988875  67777777788888899999999999888775  455666


Q ss_pred             HHH
Q 020202          230 YAP  232 (329)
Q Consensus       230 ~~~  232 (329)
                      |..
T Consensus       346 ~~~  348 (372)
T 3ly7_A          346 LYW  348 (372)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            553

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.46  E-value=0.00052  Score=57.03  Aligned_cols=90  Identities=16%  Similarity=0.094  Sum_probs=44.2

Q ss_pred             HHccCChhHHHHHHHHHHHcC---CCC----ChhhHHHHHHHHhccCCHHHHHHHHHHHHh-----CCC-CCC-hhhHHH
Q 020202          237 MFRRGQFDDAFCFFSEMKIKG---HPP----NRPVYTMLITMCGRGGRFVEAANYLVEMTE-----MGL-TPI-SRCFDL  302 (329)
Q Consensus       237 ~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~p~-~~~~~~  302 (329)
                      +...|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|..++++..+     .|. .|+ ..+++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            444555555555555554320   111    123455555555555666666655555442     111 111 334555


Q ss_pred             HHHHHHhCCchhHHHHHHHHHhhh
Q 020202          303 VTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       303 l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      |...|...|++++|+.+++.+..+
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHH
Confidence            555666666666666555555443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.39  E-value=0.0016  Score=41.04  Aligned_cols=67  Identities=7%  Similarity=-0.039  Sum_probs=38.1

Q ss_pred             CCCHHHHHHHHHHHHccCc---hhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           14 SVSPQTLSLIIEEFGKHGL---VDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      +.++..+..+..++...++   .++|..++++..+.+ |.++.....+...+.+.|++++|+..|+.+.+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3455555555555543333   456666666666555 555556666666666666666666666666554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.35  E-value=0.0027  Score=40.29  Aligned_cols=59  Identities=15%  Similarity=0.109  Sum_probs=50.1

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHH-HHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVL-LYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      ....+.+.|++++|...|+...+.. |.+.. .+..+..++...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            4566778899999999999998876 66777 88889999999999999999999988764

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.35  E-value=0.001  Score=55.23  Aligned_cols=62  Identities=8%  Similarity=-0.089  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHhC-----C--CCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           88 RTYAILVNAWCSSGKMREAQEFLQEMSDK-----G--FNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        88 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                      .+++.+..+|...|++++|+.++++..+.     |  .+....+++.|...|...|++++|+.++++..
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            34455555555555555555555544321     1  01112334555555555555555555555443

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.31  E-value=0.0013  Score=54.69  Aligned_cols=92  Identities=9%  Similarity=0.065  Sum_probs=71.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC---CCCC----hhhHHHHHHHHHccCChhHHHHHHHHHHHc-----C-CCC-Chh
Q 020202          198 LIPAVSKAGMIDEAFRLLHNLVEDG---HKPF----PSLYAPIIKGMFRRGQFDDAFCFFSEMKIK-----G-HPP-NRP  263 (329)
Q Consensus       198 l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~~~  263 (329)
                      .+..+.+.|++++|+.++++..+..   ..|+    ..+++.+...|...|++++|+.++++.+..     | -.| ...
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            3455667899999999999987541   1222    346888999999999999999999887643     2 122 235


Q ss_pred             hHHHHHHHHhccCCHHHHHHHHHHHH
Q 020202          264 VYTMLITMCGRGGRFVEAANYLVEMT  289 (329)
Q Consensus       264 ~~~~l~~~~~~~~~~~~a~~~~~~~~  289 (329)
                      +++.|...|...|++++|..++++..
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            68889999999999999999998876

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.22  E-value=0.023  Score=43.77  Aligned_cols=64  Identities=11%  Similarity=0.022  Sum_probs=29.0

Q ss_pred             hHHHHHHHHHc-----cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhc-CCHHHHHHHHHHHHhCC
Q 020202          159 TFNSLIETICK-----SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKA-GMIDEAFRLLHNLVEDG  222 (329)
Q Consensus       159 ~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~  222 (329)
                      .|..+...|.+     -|+.++|.+.|++..+.++.-+..++......++.. |+.+.+.+.+++.....
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~  270 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCC
Confidence            44444444444     245555555555554433222233444444444442 44555555555544443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.20  E-value=0.00087  Score=42.71  Aligned_cols=54  Identities=20%  Similarity=0.292  Sum_probs=24.0

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHH-hHHHHHHHHHccCCHHHHHHHHHHHHH
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLE-TFNSLIETICKSGEVEFCVEMYYSVCK  185 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~  185 (329)
                      .+.+.|++++|...+++..+.... +.. .+..+..++...|++++|.+.|++..+
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344444444444444444443211 233 444444444444444444444444444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.17  E-value=0.023  Score=51.47  Aligned_cols=75  Identities=12%  Similarity=0.118  Sum_probs=41.7

Q ss_pred             HHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHcc
Q 020202           91 AILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKS  170 (329)
Q Consensus        91 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (329)
                      ..++..+.+.|.++.|.++.+.-            ..-.......|+++.|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~------------~~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQ------------DQKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCH------------HHHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCCc------------chheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            55555556666666665544211            11123345566666666664332      2556666666666667


Q ss_pred             CCHHHHHHHHHHH
Q 020202          171 GEVEFCVEMYYSV  183 (329)
Q Consensus       171 ~~~~~a~~~~~~~  183 (329)
                      ++++.|.+.|.++
T Consensus       695 ~~~~~A~~~y~~~  707 (814)
T 3mkq_A          695 FNFKLAIEAFTNA  707 (814)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHc
Confidence            7776666666654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.13  E-value=0.0099  Score=40.97  Aligned_cols=84  Identities=11%  Similarity=0.066  Sum_probs=60.0

Q ss_pred             chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc---hHHHHHHHHHHHHHcCCcc--ChHHHHHHHHHHHhcCchhHH
Q 020202           32 LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK---LFHGAYALIRRMIRKGFVP--DKRTYAILVNAWCSSGKMREA  106 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a  106 (329)
                      ....+.+-|......+ +++..+...+..++++.+   ++++++.+|++..+.+ .|  +...+-.+.-++.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            3445566666666656 577777777888888877   6778888888888764 23  344555666777888888888


Q ss_pred             HHHHHHHHhCC
Q 020202          107 QEFLQEMSDKG  117 (329)
Q Consensus       107 ~~~~~~~~~~~  117 (329)
                      .+.++.+.+..
T Consensus        91 ~~y~~~lL~ie  101 (152)
T 1pc2_A           91 LKYVRGLLQTE  101 (152)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            88888887753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.12  E-value=0.013  Score=36.86  Aligned_cols=68  Identities=10%  Similarity=0.049  Sum_probs=43.3

Q ss_pred             CccHHHHHHHHHHHHhcch---HHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 020202           49 QQCVLLYNSLLFALCEVKL---FHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (329)
                      +.|+..+..+..++...++   .++|..++++.++.... +......+...+.+.|++++|+..|+.+.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            4556666666666654433   56777777777765432 55566666667777777777777777776654

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.05  E-value=0.012  Score=37.94  Aligned_cols=67  Identities=7%  Similarity=-0.026  Sum_probs=48.3

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcC------CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFN------CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK   81 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   81 (329)
                      .++.....+...+.+.|+++.|...|+...+..      -.+...++..+..++.+.|+++.|...+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            456666777788888888888888887776431      1345667777777888888888888888777765

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.02  E-value=0.022  Score=51.60  Aligned_cols=155  Identities=13%  Similarity=0.116  Sum_probs=93.3

Q ss_pred             HHHHhcCchhHHHH-HHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           95 NAWCSSGKMREAQE-FLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        95 ~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      ......+++++|.+ ++..+      ++......++..+.+.|.++.|.++.+.-.            .-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCH
Confidence            34445667777655 43111      101223666777777777777776553111            112334567788


Q ss_pred             HHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHH
Q 020202          174 EFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEM  253 (329)
Q Consensus       174 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  253 (329)
                      +.|.++.+.+      .+...|..+...+.+.++++.|++.|.++..         |..+...+...|+.+...++.+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            8887775432      4567788888888888888888888877532         334455555577777666665555


Q ss_pred             HHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 020202          254 KIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEM  288 (329)
Q Consensus       254 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  288 (329)
                      ...|      -++....+|.+.|++++|.+++.++
T Consensus       734 ~~~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          734 ETTG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHcC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            5442      2344455566677777777777554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.00  E-value=0.0074  Score=41.61  Aligned_cols=86  Identities=14%  Similarity=0.086  Sum_probs=66.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccC---ChhHHHHHHHHHHHcCCCC--ChhhHHHHHHHHhccCCHHHH
Q 020202          207 MIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRG---QFDDAFCFFSEMKIKGHPP--NRPVYTMLITMCGRGGRFVEA  281 (329)
Q Consensus       207 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a  281 (329)
                      ....+.+-|.+..+.+. ++..+...+..++++.+   +.++++.+++...+.. .|  +...+-.+.-++.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            45667777777766655 57787777888899988   5669999999988874 23  355666777788999999999


Q ss_pred             HHHHHHHHhCCCCCC
Q 020202          282 ANYLVEMTEMGLTPI  296 (329)
Q Consensus       282 ~~~~~~~~~~~~~p~  296 (329)
                      .++++.+.+.  .|+
T Consensus        91 ~~y~~~lL~i--eP~  103 (152)
T 1pc2_A           91 LKYVRGLLQT--EPQ  103 (152)
T ss_dssp             HHHHHHHHHH--CTT
T ss_pred             HHHHHHHHhc--CCC
Confidence            9999999874  454

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.93  E-value=0.045  Score=38.76  Aligned_cols=44  Identities=14%  Similarity=0.031  Sum_probs=20.1

Q ss_pred             HccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHH
Q 020202           28 GKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRR   77 (329)
Q Consensus        28 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   77 (329)
                      .+.|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~   59 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQT   59 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            3444555554444333      1234444444444444554444444443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.87  E-value=0.022  Score=43.85  Aligned_cols=83  Identities=13%  Similarity=0.068  Sum_probs=46.9

Q ss_pred             hHHHHHHHHhhhcCCCc--cHHHHHHHHHHHHhc-----chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhc-CchhH
Q 020202           34 DNAVEVFNKCTAFNCQQ--CVLLYNSLLFALCEV-----KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSS-GKMRE  105 (329)
Q Consensus        34 ~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~  105 (329)
                      ..|...+++..+.+ |.  +...|..+...|...     |+.++|.+.|++.++.+..-+..++......++.. |+.++
T Consensus       180 ~~A~a~lerAleLD-P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          180 HAAVMMLERACDLW-PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHC-TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            44555555555554 22  244566666666663     66666666666666553322355555556655553 66666


Q ss_pred             HHHHHHHHHhCC
Q 020202          106 AQEFLQEMSDKG  117 (329)
Q Consensus       106 a~~~~~~~~~~~  117 (329)
                      +.+.+++.....
T Consensus       259 a~~~L~kAL~a~  270 (301)
T 3u64_A          259 FDEALDRALAID  270 (301)
T ss_dssp             HHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCC
Confidence            666666666554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.79  E-value=0.0092  Score=38.45  Aligned_cols=67  Identities=9%  Similarity=-0.007  Sum_probs=55.4

Q ss_pred             ChhhHHHHHHHHHccCChhHHHHHHHHHHHcC------CCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          226 FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG------HPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       226 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      +...+..+...+.+.|+++.|...++...+..      -.+....+..+..++.+.|+++.|...+++..+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            45566778899999999999999999987641      12456788999999999999999999999998753

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.78  E-value=0.057  Score=36.11  Aligned_cols=134  Identities=13%  Similarity=0.099  Sum_probs=67.5

Q ss_pred             cchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc---cHHHHHHHHHhcCChHHH
Q 020202           65 VKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR---GRDLLVQGLLNAGYLESA  141 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a  141 (329)
                      .|..++..++..+.....   +..-||.+|--....-+-+-..++++.+-+.   -|..   -...++.+|.+.|.    
T Consensus        20 dG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDis~C~NlKrVi~C~~~~n~----   89 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLDKCQNLKSVVECGVINNT----   89 (172)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGGGCSCTHHHHHHHHHTTC----
T ss_pred             hhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCcHhhhcHHHHHHHHHHhcc----
Confidence            455566666666555432   4444555555555555555555555444321   1111   11223333333322    


Q ss_pred             HHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          142 KQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                                    +.......+......|..++..+++..+... .+|++...-.+..+|.+.|+..++.+++.+.-+.
T Consensus        90 --------------~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           90 --------------LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             --------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             --------------hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence                          3334444555555666666666666664332 2355556666666666666666666666666665


Q ss_pred             CC
Q 020202          222 GH  223 (329)
Q Consensus       222 ~~  223 (329)
                      |+
T Consensus       155 G~  156 (172)
T 1wy6_A          155 GE  156 (172)
T ss_dssp             TC
T ss_pred             hh
Confidence            54

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.48  E-value=0.035  Score=37.86  Aligned_cols=51  Identities=14%  Similarity=0.027  Sum_probs=21.4

Q ss_pred             CCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 020202          171 GEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  222 (329)
Q Consensus       171 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  222 (329)
                      ++.++|.++|+.+.+.+-.. ...|......-.+.|+...|.+++......+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            34444444444443321111 3333333333444444444444444444443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.34  E-value=0.12  Score=34.57  Aligned_cols=149  Identities=12%  Similarity=0.153  Sum_probs=84.6

Q ss_pred             HHHHHHHHH--HHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           18 QTLSLIIEE--FGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        18 ~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ++...|+.+  +.-.|..++..++..+..+.   .+..-||.+|.-....-+-+-..++++..-+   -.|..       
T Consensus         6 el~kkLmeAK~~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDis-------   72 (172)
T 1wy6_A            6 EIIRKLMDAKKFLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDLD-------   72 (172)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCGG-------
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCcH-------
Confidence            344555544  44568999999999988774   3677788888777776666666666555432   22221       


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHH
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEF  175 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  175 (329)
                         ..|+.......+-.+   +  .+.......+..+...|.-++-.+++..+.. +.+|++.....+..+|.+.|+..+
T Consensus        73 ---~C~NlKrVi~C~~~~---n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~  143 (172)
T 1wy6_A           73 ---KCQNLKSVVECGVIN---N--TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERD  143 (172)
T ss_dssp             ---GCSCTHHHHHHHHHT---T--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHH
T ss_pred             ---hhhcHHHHHHHHHHh---c--chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhh
Confidence               222222222222211   1  2233444555566666666666666666433 224456666666666666666666


Q ss_pred             HHHHHHHHHHcCC
Q 020202          176 CVEMYYSVCKLGL  188 (329)
Q Consensus       176 a~~~~~~~~~~~~  188 (329)
                      +.+++.+.-+.|+
T Consensus       144 a~eLl~~AC~kG~  156 (172)
T 1wy6_A          144 ATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhhh
Confidence            6666666666655

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.33  E-value=0.09  Score=35.91  Aligned_cols=53  Identities=19%  Similarity=0.222  Sum_probs=25.1

Q ss_pred             CchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCc
Q 020202          101 GKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFV  154 (329)
Q Consensus       101 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  154 (329)
                      ++.++|.++|+.+.+.+ +-=...|....+.-.+.|+...|.+++.+....+..
T Consensus        74 ~D~d~aR~vy~~a~~~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            45555555555554432 111333333444444555555555555555555433

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.21  E-value=0.034  Score=36.85  Aligned_cols=92  Identities=14%  Similarity=0.074  Sum_probs=61.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhH---HHHHHHHHHHcCCC-CChhhHHHHHHHHhc
Q 020202          199 IPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDD---AFCFFSEMKIKGHP-PNRPVYTMLITMCGR  274 (329)
Q Consensus       199 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~  274 (329)
                      +..-........+.+-|......|. ++..+-..+..++.+..+...   ++.+++.+...+.+ -.....-.+.-++.+
T Consensus         8 l~~~~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yk   86 (126)
T 1nzn_A            8 LNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   86 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HhccCCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence            3333444455666666766655444 566766667788888877665   77888887765311 133445556677888


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 020202          275 GGRFVEAANYLVEMTEM  291 (329)
Q Consensus       275 ~~~~~~a~~~~~~~~~~  291 (329)
                      .|++++|.++++.+.+.
T Consensus        87 lg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           87 LKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHh
Confidence            99999999998888864

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.17  E-value=0.065  Score=35.51  Aligned_cols=82  Identities=10%  Similarity=0.072  Sum_probs=37.8

Q ss_pred             hHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHH---HHHHHHHHHHcCCc-cChHHHHHHHHHHHhcCchhHHHHH
Q 020202           34 DNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHG---AYALIRRMIRKGFV-PDKRTYAILVNAWCSSGKMREAQEF  109 (329)
Q Consensus        34 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~  109 (329)
                      ..+.+-|......| .++..+-..+..++++.++...   ++.+++++.+.+.+ -.....-.+.-++.+.|++++|.+.
T Consensus        18 ~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           18 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            33444444443333 3455555555555555444333   55555555544211 1222233344455555555555555


Q ss_pred             HHHHHhC
Q 020202          110 LQEMSDK  116 (329)
Q Consensus       110 ~~~~~~~  116 (329)
                      ++.+.+.
T Consensus        97 ~~~lL~~  103 (126)
T 1nzn_A           97 VRGLLQT  103 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            5555543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.93  E-value=0.27  Score=34.82  Aligned_cols=129  Identities=15%  Similarity=0.082  Sum_probs=80.3

Q ss_pred             HHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChH
Q 020202           60 FALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLE  139 (329)
Q Consensus        60 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  139 (329)
                      ....+.|+++.|.++.+.+      .+...|..|.......|+++-|...|....+         +..+.-.|.-.|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            3455678888888877654      2566788888888888888888888876543         445566666777776


Q ss_pred             HHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 020202          140 SAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNL  218 (329)
Q Consensus       140 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  218 (329)
                      ...++-+.....|      -++.....+...|+++++.++|.+..+   .|..      .......|..+.|.++.+.+
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~eA------~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LPLA------YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HHHH------HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hHHH------HHHHHHcCcHHHHHHHHHHh
Confidence            6666655555443      234445556667888888777754322   1211      11222355666666666654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.78  E-value=0.15  Score=45.33  Aligned_cols=128  Identities=13%  Similarity=0.090  Sum_probs=82.9

Q ss_pred             HHHHHHHHHccCc-hhHHHHHHHHhhhcCCCccHHHH-HHHHHHHHhcc-hHHHHHHHHHHHHHc------CCcc-Ch--
Q 020202           20 LSLIIEEFGKHGL-VDNAVEVFNKCTAFNCQQCVLLY-NSLLFALCEVK-LFHGAYALIRRMIRK------GFVP-DK--   87 (329)
Q Consensus        20 ~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~-~~~~a~~~~~~~~~~------~~~~-~~--   87 (329)
                      ...++..+...++ .+.|..+|+++...+ |.....+ ..++..+...+ +--+|.+++.+..+.      ...+ +.  
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~-p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~  329 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKD-PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADS  329 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhC-CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccc
Confidence            4556666666666 588999999998876 3222222 33343333332 223455555544321      1111 11  


Q ss_pred             --------HHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           88 --------RTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        88 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                              .....-...|...|+++-|+++-++..... |.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       330 ~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          330 ARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    112222345667899999999999998764 5567899999999999999999999998774

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.77  E-value=8.7e-06  Score=66.66  Aligned_cols=245  Identities=13%  Similarity=0.082  Sum_probs=154.0

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      .+..|..|..+..+.+...+|++-|-+   .   -|+..|..++.+..+.|.+++...++....+..  .++..=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk---A---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK---A---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC---C---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh---C---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHH
Confidence            355677788888877777777655422   1   255567788888888888888888777665542  34455567888


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc--------------------CCCC
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKL--------------------GLCA  190 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~  190 (329)
                      +|++.++..+..+++.       .|+..-...+..-|...|.++.|.-+|..+...                    .-..
T Consensus       125 ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAn  197 (624)
T 3lvg_A          125 ALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKAN  197 (624)
T ss_dssp             HHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCC
T ss_pred             HHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            8888877655433321       244444455555555556555555555443211                    1124


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 020202          191 DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLIT  270 (329)
Q Consensus       191 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  270 (329)
                      ++.||..+-.+|...+.+.-|...--.++-.     ..-...++..|...|.+++.+.+++..... -+....+|+-|.-
T Consensus       198 s~ktWKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaI  271 (624)
T 3lvg_A          198 STRTWKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAI  271 (624)
T ss_dssp             SSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHH
T ss_pred             ChhHHHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHH
Confidence            6789999999999999887776554444422     122234667789999999999999887743 2457788888888


Q ss_pred             HHhccCCHHHHHHHHHHHHh-CCCCC------ChhhHHHHHHHHHhCCchhHHH
Q 020202          271 MCGRGGRFVEAANYLVEMTE-MGLTP------ISRCFDLVTDGLKNCGKHDLAE  317 (329)
Q Consensus       271 ~~~~~~~~~~a~~~~~~~~~-~~~~p------~~~~~~~l~~~~~~~g~~~~a~  317 (329)
                      .|++- ++++..+.++..-. .+++-      ....|..++-.|.+-.++|.|.
T Consensus       272 LYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          272 LYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            88765 45555555443322 12211      2345666666666666666554

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.56  E-value=0.32  Score=39.77  Aligned_cols=74  Identities=15%  Similarity=0.093  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHh-----CCCCCCcccHHH
Q 020202           53 LLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSD-----KGFNPPVRGRDL  127 (329)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  127 (329)
                      .+...++..+...|+++++...+..+.... +.+...+..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-..
T Consensus       172 ~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          172 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            345556677777788888877777776653 33666777788888888888888777776633     367776655443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.06  E-value=0.2  Score=44.53  Aligned_cols=53  Identities=11%  Similarity=0.043  Sum_probs=34.8

Q ss_pred             HHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 020202          235 KGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEM  288 (329)
Q Consensus       235 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  288 (329)
                      ..+...|+++-|+.+-++.... .+-+-.+|..|..+|...|+++.|+-.++-+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3455667777777777776655 2334567777777777777777777666654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.95  E-value=1.4  Score=36.80  Aligned_cols=255  Identities=9%  Similarity=0.043  Sum_probs=147.3

Q ss_pred             cCchhHHHHHHHHhhh-----cCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-CCccChHHHHHHHHHH----Hh
Q 020202           30 HGLVDNAVEVFNKCTA-----FNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRK-GFVPDKRTYAILVNAW----CS   99 (329)
Q Consensus        30 ~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~----~~   99 (329)
                      .|+++.|++.+-.+.+     .+.+........++..|...++++...+.+..+... |..+..  ...+++.+    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~a--i~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLS--IQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHH--HHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHH--HHHHHHHHHHHHhc
Confidence            3778888887766653     234556778888999999999999998888766643 332222  23333322    22


Q ss_pred             cCchhHH--HHHHHHHHhCCCCCC--------cccHHHHHHHHHhcCChHHHHHHHHHHHHc--CCccC---HHhHHHHH
Q 020202          100 SGKMREA--QEFLQEMSDKGFNPP--------VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ--GFVLD---LETFNSLI  164 (329)
Q Consensus       100 ~~~~~~a--~~~~~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~  164 (329)
                      ....+..  ..+.+.+.  .+...        ......|...+...|++.+|.+++..+...  |....   ...+..-+
T Consensus       107 ~~~~d~~~~~~~i~~l~--~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~  184 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIR--VVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQM  184 (445)
T ss_dssp             HCTTHHHHHHHHHHCCS--SSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHH--HHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            3332221  12221111  11111        112356788899999999999999988653  22211   24566778


Q ss_pred             HHHHccCCHHHHHHHHHHHHH----cCCCCc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCChhhHH----HH
Q 020202          165 ETICKSGEVEFCVEMYYSVCK----LGLCAD--VSTYKILIPAVSKAGMIDEAFRLLHNLVED-GHKPFPSLYA----PI  233 (329)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~----~l  233 (329)
                      +.|...+++.+|..++.++..    ....|+  ...+...+..+...+++.+|...|.++... ....+...+.    .+
T Consensus       185 rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~  264 (445)
T 4b4t_P          185 ELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHI  264 (445)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHH
Confidence            889999999999999988742    222222  245677778888899999998888877543 1111222221    11


Q ss_pred             HHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhcc--CCHHHHHHHHHHH
Q 020202          234 IKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRG--GRFVEAANYLVEM  288 (329)
Q Consensus       234 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~  288 (329)
                      +.+..-.+..+.-..+.........-++...|..++.+|...  .+++.+.+.|...
T Consensus       265 v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~  321 (445)
T 4b4t_P          265 VYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPV  321 (445)
T ss_dssp             HHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSS
T ss_pred             HHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHH
Confidence            111111222122222333332222234667788888888643  4566666655443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.81  E-value=2  Score=40.81  Aligned_cols=193  Identities=12%  Similarity=0.017  Sum_probs=121.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc----CC--------------
Q 020202          127 LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKL----GL--------------  188 (329)
Q Consensus       127 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--------------  188 (329)
                      .++..+.+.+.++.+.++....     +.++...-.+..++...|++++|.+.|.+....    ..              
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            3555566667776666544332     224444456677888999999999999774210    00              


Q ss_pred             ----CCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCC
Q 020202          189 ----CADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPF----PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPP  260 (329)
Q Consensus       189 ----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  260 (329)
                          ..-..-|..++..+.+.+.++.+.++-....+....-+    ...|..+.+++...|++++|...+-.+.....+ 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence                00123467788888899999999888877665422112    125788899999999999999988887765333 


Q ss_pred             ChhhHHHHHHHHhccCCHHH------------HHHHHHHHHh-C-CCCCChhhHHHHHHHHHhCCchhHHHHH-HHHHhh
Q 020202          261 NRPVYTMLITMCGRGGRFVE------------AANYLVEMTE-M-GLTPISRCFDLVTDGLKNCGKHDLAEKI-ELLEVS  325 (329)
Q Consensus       261 ~~~~~~~l~~~~~~~~~~~~------------a~~~~~~~~~-~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~  325 (329)
                       ...+..|+..++..|..+.            ..+++....+ . .+...+..|..|.......|++..|-.+ |+...+
T Consensus       971 -~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence             4567777776666555444            3333332211 1 1122234567677667777888877655 666555


Q ss_pred             h
Q 020202          326 L  326 (329)
Q Consensus       326 ~  326 (329)
                      +
T Consensus      1050 L 1050 (1139)
T 4fhn_B         1050 Y 1050 (1139)
T ss_dssp             H
T ss_pred             h
Confidence            4

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.66  E-value=1.6  Score=36.34  Aligned_cols=190  Identities=12%  Similarity=0.131  Sum_probs=119.6

Q ss_pred             cchHHHHHHHHHHHHHc-----CCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHH----Hhc
Q 020202           65 VKLFHGAYALIRRMIRK-----GFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGL----LNA  135 (329)
Q Consensus        65 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  135 (329)
                      .+++++|++.+..+.+.     +..........++..|...++|+...+.+..+....... ......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            36788888887666643     234456678889999999999999988877765432111 22233333332    223


Q ss_pred             CChHHHH--HHHHHHHH--cC-Ccc---CHHhHHHHHHHHHccCCHHHHHHHHHHHHHc--CCCCc---hhhHHHHHHHH
Q 020202          136 GYLESAK--QMVNKMIK--QG-FVL---DLETFNSLIETICKSGEVEFCVEMYYSVCKL--GLCAD---VSTYKILIPAV  202 (329)
Q Consensus       136 ~~~~~a~--~~~~~~~~--~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~  202 (329)
                      ...+...  .+.+.+..  .| +..   .......|...+...|++.+|..++..+...  +..+.   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            3332211  11111111  01 111   1223456788899999999999999998643  22121   34677788899


Q ss_pred             HhcCCHHHHHHHHHHHHh----CCCCCC--hhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          203 SKAGMIDEAFRLLHNLVE----DGHKPF--PSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       203 ~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      ...+++.+|..++.++..    ....|+  ...+...+..+...+++.+|.+.|.++..
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999998753    222222  23466677778888999999888877754

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.62  E-value=2.7  Score=39.93  Aligned_cols=60  Identities=12%  Similarity=0.027  Sum_probs=28.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCccCH----HhHHHHHHHHHccCCHHHHHHHHHHHH
Q 020202          125 RDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDL----ETFNSLIETICKSGEVEFCVEMYYSVC  184 (329)
Q Consensus       125 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~  184 (329)
                      |..++..+.+.|.++.+.++-....+....-+.    ..|..+.+.+...|++++|...+-.+.
T Consensus       902 Y~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~p  965 (1139)
T 4fhn_B          902 YLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLS  965 (1139)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCC
Confidence            344555555555555555555444433111111    134455555555555555555554443

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=94.60  E-value=0.47  Score=29.80  Aligned_cols=47  Identities=21%  Similarity=0.241  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          210 EAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       210 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      +..+-+..+......|++......+++|.+.+++..|.++++.++.+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34444444444445555555555555555555555555555554433

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=94.43  E-value=0.37  Score=39.43  Aligned_cols=68  Identities=18%  Similarity=0.258  Sum_probs=36.3

Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH-----hCCCCCChhhHH
Q 020202          233 IIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT-----EMGLTPISRCFD  301 (329)
Q Consensus       233 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~p~~~~~~  301 (329)
                      ++..+...|+++++...+..+... .+.+...+..++.++.+.|+..+|++.|+...     +.|+.|...+-.
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            444455556666665555555443 23345555666666666666666665555543     245555544433

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.39  E-value=3  Score=38.22  Aligned_cols=256  Identities=14%  Similarity=0.006  Sum_probs=129.8

Q ss_pred             HHccCchhHHHHHHHHhhhcC--CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC-------ccChHHHHHHHHHH
Q 020202           27 FGKHGLVDNAVEVFNKCTAFN--CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF-------VPDKRTYAILVNAW   97 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~~   97 (329)
                      ....|+.++++.+++.....+  -.+....-..+.-+.+..|..+++..++.......-       .+....-..+.-+.
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            334566666666666554311  022233333444445555555567777666554321       01111222333333


Q ss_pred             HhcCc-hhHHHHHHHHHHhCCCCCCcccHH--HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH--HHccCC
Q 020202           98 CSSGK-MREAQEFLQEMSDKGFNPPVRGRD--LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET--ICKSGE  172 (329)
Q Consensus        98 ~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~  172 (329)
                      +-.|. -+++...+..+....- +......  .+...+.-.|+.+....++..+.+..   +..+...+..+  +...|+
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTC
T ss_pred             HhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCC
Confidence            33332 2345555555544321 1111112  23333456677777777777766542   33333334333  446788


Q ss_pred             HHHHHHHHHHHHHcCCCCchhhH--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHH
Q 020202          173 VEFCVEMYYSVCKLGLCADVSTY--KILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFF  250 (329)
Q Consensus       173 ~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  250 (329)
                      .+.+..+.+.+.... .|....-  .++.-+|+..|+.....+++..+.... ..+..-...+.-++...|+.+.+.+++
T Consensus       540 ~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          540 QELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             hHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            888888888776531 1222222  233456777888888888888887642 223333344444555667777777777


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHhccCCH-HHHHHHHHHHH
Q 020202          251 SEMKIKGHPPNRPVYTMLITMCGRGGRF-VEAANYLVEMT  289 (329)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~  289 (329)
                      ..+...+ .|....-..+.-+....|.. .++...+..+.
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            6665542 34443333333333334433 46677777775

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.21  E-value=4.2e-05  Score=62.79  Aligned_cols=203  Identities=14%  Similarity=0.059  Sum_probs=119.8

Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      +..|..|..+..+.+...+|++.|   ++   .-|+..|..++.+..+.|.+++-...+...++..-  ++..=+.|+-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsy---Ik---A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSY---IK---ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSS---CC---CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHH---Hh---CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHH
Confidence            345777888877777777766544   12   23667788888888888888888888776665522  44555678888


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------------------CCCC
Q 020202          167 ICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG--------------------HKPF  226 (329)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~  226 (329)
                      |++.++..+..+++       ..|+..-...+..-|...|.++.|.-+|..+..-.                    -..+
T Consensus       126 yAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns  198 (624)
T 3lvg_A          126 LAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANS  198 (624)
T ss_dssp             HHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCS
T ss_pred             HHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            88888866544433       12666667777788888888887777775542110                    0123


Q ss_pred             hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          227 PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDG  306 (329)
Q Consensus       227 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  306 (329)
                      +.||-.+-.+|...+.+.-|...--.+.-     ...-...++..|...|.+++.+.+++.-.... .....+|+.|.-.
T Consensus       199 ~ktWKeV~~ACvd~~EfrLAqicGLniIv-----hadeL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaIL  272 (624)
T 3lvg_A          199 TRTWKEVCFACVDGKEFRLAQMCGLHIVV-----HADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAIL  272 (624)
T ss_dssp             SCSHHHHTHHHHHSCTTTTTTHHHHHHHC-----CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCchHHHHHHHhcchhcc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHH
Confidence            44555555555555555554444333332     11223344555555566666555555544211 2345566666666


Q ss_pred             HHhC
Q 020202          307 LKNC  310 (329)
Q Consensus       307 ~~~~  310 (329)
                      |++-
T Consensus       273 YsKY  276 (624)
T 3lvg_A          273 YSKF  276 (624)
T ss_dssp             HHSS
T ss_pred             HHhc
Confidence            6554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=94.05  E-value=0.64  Score=29.20  Aligned_cols=69  Identities=12%  Similarity=0.108  Sum_probs=54.3

Q ss_pred             HHccC-ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          237 MFRRG-QFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDG  306 (329)
Q Consensus       237 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  306 (329)
                      +.+.. +.-+..+-++.+....+.|++......+++|.+.+++..|.++++-.+.+- .+...+|..+++-
T Consensus        19 F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lqE   88 (109)
T 1v54_E           19 FNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQE   88 (109)
T ss_dssp             HTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHHH
T ss_pred             cCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHHH
Confidence            33444 556788888888888999999999999999999999999999998887432 3345567777654

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=93.72  E-value=0.97  Score=30.14  Aligned_cols=59  Identities=22%  Similarity=0.334  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 020202          210 EAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLI  269 (329)
Q Consensus       210 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  269 (329)
                      +..+-++.+...+..|++......+++|.+.+++..|.++|+-++.+ ..+...+|..++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            44444455555555666666666666666666666666666665544 222333454444

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=93.29  E-value=1.2  Score=29.78  Aligned_cols=64  Identities=13%  Similarity=0.105  Sum_probs=51.8

Q ss_pred             ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          242 QFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDG  306 (329)
Q Consensus       242 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  306 (329)
                      |.-+..+-++.+...++.|++......+++|.+.+|+..|.++|+-.+.+ ..+...+|..+++-
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqE  131 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE  131 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHH
Confidence            45567777888888889999999999999999999999999999888753 23445567777654

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=92.42  E-value=0.77  Score=34.93  Aligned_cols=116  Identities=16%  Similarity=0.093  Sum_probs=76.5

Q ss_pred             HHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc--cChHHHHHHHHHHHhcCc
Q 020202           25 EEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV--PDKRTYAILVNAWCSSGK  102 (329)
Q Consensus        25 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~  102 (329)
                      ..+.+.|++++|++....-++.. |.|...-..++..+|-.|++++|.+-++...+....  |...+|..+|++      
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a------   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA------   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH------
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH------
Confidence            45678899999999998888877 888999999999999999999999999888776321  222234444433      


Q ss_pred             hhHHHHHHHHHHhCCCCC-----CcccHHHHHHHHH--hcCChHHHHHHHHHHHHc
Q 020202          103 MREAQEFLQEMSDKGFNP-----PVRGRDLLVQGLL--NAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       103 ~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~  151 (329)
                          +..=.++...+-.|     .......++.+..  ..|+.++|..+-.++.+.
T Consensus        78 ----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           78 ----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             ----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                22222333322111     2223344555544  358888888888877654

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=92.31  E-value=1.4  Score=29.39  Aligned_cols=74  Identities=12%  Similarity=0.129  Sum_probs=52.0

Q ss_pred             CCCCChhhHHHHHHHHHccCCh---hHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCCh
Q 020202          222 GHKPFPSLYAPIIKGMFRRGQF---DDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPIS  297 (329)
Q Consensus       222 ~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  297 (329)
                      +..|+..+--.+..++.+..+.   .+++.+++++...+..-....+-.+.-++.+.|++++|.++.+.+.+.  .|+.
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~N  111 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERNN  111 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTTC
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCCC
Confidence            4456666666677777777654   467888888877642223455666777888999999999999988864  4553

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.07  E-value=1.9  Score=29.17  Aligned_cols=72  Identities=11%  Similarity=0.098  Sum_probs=51.3

Q ss_pred             CCCChhhHHHHHHHHHccCCh---hHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC
Q 020202          223 HKPFPSLYAPIIKGMFRRGQF---DDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI  296 (329)
Q Consensus       223 ~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  296 (329)
                      ..|+..+--.+..++.++.+.   .+++.+++.+...+..-.....-.+.-++.+.|++++|.++.+.+.+.  .|+
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~--eP~  109 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERN  109 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT--CCC
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCC
Confidence            356777766677777777754   467788888877533223445556677888999999999999998875  454

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.79  E-value=1.4  Score=30.74  Aligned_cols=24  Identities=8%  Similarity=0.007  Sum_probs=11.5

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHH
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEM  113 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~  113 (329)
                      +..+.+++...+++..|...|++.
T Consensus        66 l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           66 LVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHH
Confidence            334444444555555555555443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.30  E-value=2.5  Score=29.49  Aligned_cols=61  Identities=13%  Similarity=0.131  Sum_probs=38.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCh-------hhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          194 TYKILIPAVSKAGMIDEAFRLLHNLVED-GHKPFP-------SLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       194 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      ++-.-+..+...+.++.|+-+.+.+... +..|+.       .++..+.+++...+++.+|...|++.+
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3444556666777787777777765532 112221       145556677777788888888777754

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.24  E-value=2.3  Score=28.40  Aligned_cols=68  Identities=6%  Similarity=0.061  Sum_probs=44.0

Q ss_pred             CccHHHHHHHHHHHHhcc---hHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhC
Q 020202           49 QQCVLLYNSLLFALCEVK---LFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        49 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      .|+..+--.+..++++.+   +..+++.+++++.+.+..-....+-.+.-++.+.|+++.|.+..+.+.+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            556666556666666654   34467777777776653223445555666777888888888888777765

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.90  E-value=4.4  Score=33.57  Aligned_cols=99  Identities=11%  Similarity=0.022  Sum_probs=66.3

Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHHHHcCC--ccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHc---CCCCchhh--H
Q 020202          123 RGRDLLVQGLLNAGYLESAKQMVNKMIKQGF--VLDLETFNSLIETICKSGEVEFCVEMYYSVCKL---GLCADVST--Y  195 (329)
Q Consensus       123 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~  195 (329)
                      .+...+...|.+.|+++.|.+.+.++...-.  ..-...+-..++.+...+++..+...+.+....   +..|+...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            4677888999999999999999998877522  223456777788888889999998888887532   22222211  1


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          196 KILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       196 ~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                      ..-...+...+++..|...|-+....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            11122234568888888888776543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.72  E-value=3.8  Score=33.94  Aligned_cols=60  Identities=10%  Similarity=-0.002  Sum_probs=28.5

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCC--CCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGF--NPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                      ...+...+.+.|+++.|.+.+.++.....  ..-...+-.+++.+...+++..+...+.++.
T Consensus       134 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          134 WINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            34455555555555555555555543311  1112334444555555555555555555443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.61  E-value=13  Score=34.34  Aligned_cols=281  Identities=12%  Similarity=0.063  Sum_probs=147.2

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCC-------CccHHHHHHHHHHHHhcch-HHHHHHHHHHHHHcCCccChHHHH--
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNC-------QQCVLLYNSLLFALCEVKL-FHGAYALIRRMIRKGFVPDKRTYA--   91 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--   91 (329)
                      .+.-.....|..+++..++.......-       .+....-..+.-+++-.|. -+++.+.+..+....- +......  
T Consensus       416 llaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~-~~~~~~Aal  494 (963)
T 4ady_A          416 LYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDS-ATSGEAAAL  494 (963)
T ss_dssp             HHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHH
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHH
Confidence            333444556665667777766554321       0112222223223322232 2355666666554321 1111122  


Q ss_pred             HHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH--HHHHHhcCChHHHHHHHHHHHHcCCccCHHh--HHHHHHHH
Q 020202           92 ILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL--VQGLLNAGYLESAKQMVNKMIKQGFVLDLET--FNSLIETI  167 (329)
Q Consensus        92 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~  167 (329)
                      .+...+.-.|+-+....++..+.+..   +......+  .-++...|+.+.+..+++.+.... .|....  -.++.-+|
T Consensus       495 ALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAy  570 (963)
T 4ady_A          495 GMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAY  570 (963)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHT
T ss_pred             HHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHh
Confidence            23334556677777777777766532   22333333  334457799999999988887641 222221  12344567


Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCh-hHH
Q 020202          168 CKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQF-DDA  246 (329)
Q Consensus       168 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a  246 (329)
                      +..|+.....+++..+.... ..++.....+.-++...|+.+.+.++++.+.+.+ .|....-..+..+....|.. .++
T Consensus       571 aGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~a  648 (963)
T 4ady_A          571 AGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSA  648 (963)
T ss_dssp             TTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHH
T ss_pred             cCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHH
Confidence            78899888888988887642 2333333333344445677766777776665543 44544444455555555554 578


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHh--ccC-------CHHHHHHHHHHHHh-CCCCCChhhHHHHHHHHHhCCc
Q 020202          247 FCFFSEMKIKGHPPNRPVYTMLITMCG--RGG-------RFVEAANYLVEMTE-MGLTPISRCFDLVTDGLKNCGK  312 (329)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~-------~~~~a~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~g~  312 (329)
                      ..++..+...   +|..+-..-+.++.  -.|       +....++.+..... +.-.++...-..+..+....|.
T Consensus       649 id~L~~L~~D---~d~~Vrq~Ai~ALG~Ig~gtnna~~~rva~~l~~L~~~~~dk~~d~~~~fga~iAqGll~aG~  721 (963)
T 4ady_A          649 IDVLDPLTKD---PVDFVRQAAMIALSMILIQQTEKLNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIMNAGG  721 (963)
T ss_dssp             HHHHHHHHTC---SSHHHHHHHHHHHHHHSTTCCTTTCTTHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHTTGG
T ss_pred             HHHHHHHccC---CCHHHHHHHHHHHHHHhcCCccccchHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhcCC
Confidence            8888888743   44444333333332  222       33334443333332 2334556666667777766664

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=88.83  E-value=8.5  Score=31.39  Aligned_cols=166  Identities=13%  Similarity=0.086  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhc-CCC---ccHHHHHHHHHHHHhc-chHHHHHHHHHHHHHcCCccChHHH--
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAF-NCQ---QCVLLYNSLLFALCEV-KLFHGAYALIRRMIRKGFVPDKRTY--   90 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~---~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~--   90 (329)
                      .....|...|.+.|+.++..+++...... +..   ........++..+... +..+.-.++..+..+..-. +..+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            34566788888888888888888776532 111   2344566777777663 3334444444444432111 22233  


Q ss_pred             ----HHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-----cccHHHHHHHHHhcCChHHHHHHHHHHHHc--CCccCHHh
Q 020202           91 ----AILVNAWCSSGKMREAQEFLQEMSDKGFNPP-----VRGRDLLVQGLLNAGYLESAKQMVNKMIKQ--GFVLDLET  159 (329)
Q Consensus        91 ----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~  159 (329)
                          ..++..|...|++.+|.+++..+.+.--..|     ...+..-++.|...+++.++...+......  .+.+++..
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence                2567788888888888888877765321112     123444566777888888888888766543  22233333


Q ss_pred             HHHH----HHHHH-ccCCHHHHHHHHHHHH
Q 020202          160 FNSL----IETIC-KSGEVEFCVEMYYSVC  184 (329)
Q Consensus       160 ~~~l----~~~~~-~~~~~~~a~~~~~~~~  184 (329)
                      -..+    ...+. ..+++..|...|-+..
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            2221    22344 6778888877776654

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=88.75  E-value=3.1  Score=31.72  Aligned_cols=20  Identities=10%  Similarity=0.092  Sum_probs=10.9

Q ss_pred             HHHHHHccCchhHHHHHHHH
Q 020202           23 IIEEFGKHGLVDNAVEVFNK   42 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~   42 (329)
                      .+...++.|+.+....+++.
T Consensus         8 ~L~~A~~~g~~~~v~~Ll~~   27 (285)
T 1wdy_A            8 LLIKAVQNEDVDLVQQLLEG   27 (285)
T ss_dssp             HHHHHHHTTCHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHc
Confidence            34445566776655555443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=88.33  E-value=7.9  Score=30.38  Aligned_cols=86  Identities=12%  Similarity=0.021  Sum_probs=44.4

Q ss_pred             HHHhcchHHHHHHH----HHHHHHcCCccChHHHHHHHHHHHhcCchh-HHHHHHHHHH----hCC--CCCCcccHHHHH
Q 020202           61 ALCEVKLFHGAYAL----IRRMIRKGFVPDKRTYAILVNAWCSSGKMR-EAQEFLQEMS----DKG--FNPPVRGRDLLV  129 (329)
Q Consensus        61 ~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~  129 (329)
                      .+.+.|+...|-++    ++-+.+.+++++......++..+.....-+ .-.++++.+.    +.|  ..-++.....+.
T Consensus        62 ~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a  141 (312)
T 2wpv_A           62 SFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIG  141 (312)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHH
T ss_pred             HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Confidence            34445555554443    444445567777777777776665533211 1123333332    222  112445566666


Q ss_pred             HHHHhcCChHHHHHHHH
Q 020202          130 QGLLNAGYLESAKQMVN  146 (329)
Q Consensus       130 ~~~~~~~~~~~a~~~~~  146 (329)
                      ..|.+.|++.+|...|-
T Consensus       142 ~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          142 SKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             HHHHHTTCHHHHHHHHH
T ss_pred             HHHhhcCCHHHHHHHHH
Confidence            77777777766665553

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.22  E-value=2  Score=32.69  Aligned_cols=54  Identities=24%  Similarity=0.235  Sum_probs=28.8

Q ss_pred             HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           97 WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        97 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      ..+.|+++++++....-++.. |.|...-..+++.+|-.|++++|.+-++...+.
T Consensus         7 ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            344555555555555554443 344455555555555555555555555555544

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.09  E-value=4.6  Score=27.36  Aligned_cols=66  Identities=6%  Similarity=0.059  Sum_probs=28.5

Q ss_pred             ccHHHHHHHHHHHHhcch---HHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHh
Q 020202           50 QCVLLYNSLLFALCEVKL---FHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      |+..+-..+..++++..+   ..+++.+++++.+.+..-.....-.+.-++.+.|++++|.++.+.+.+
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            444444444444444332   234455555544432211222233334445555555555555555544

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=86.37  E-value=6.9  Score=29.67  Aligned_cols=240  Identities=11%  Similarity=-0.004  Sum_probs=117.9

Q ss_pred             HHHHHHHhcchHHHHHHHHHHHHHcCCccChH---HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCccc--HHHHHHH
Q 020202           57 SLLFALCEVKLFHGAYALIRRMIRKGFVPDKR---TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRG--RDLLVQG  131 (329)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~  131 (329)
                      ..+...++.|+.+.+..+    .+.|..++..   .-...+...+..|+.+-    ++.+.+.|..++...  -.+.+..
T Consensus         7 ~~L~~A~~~g~~~~v~~L----l~~g~~~~~~~~~~g~t~L~~A~~~g~~~~----v~~Ll~~g~~~~~~~~~g~t~L~~   78 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQL----LEGGANVNFQEEEGGWTPLHNAVQMSREDI----VELLLRHGADPVLRKKNGATPFLL   78 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHH----HHTTCCTTCCCTTTCCCHHHHHHHTTCHHH----HHHHHHTTCCTTCCCTTCCCHHHH
T ss_pred             hHHHHHHHcCCHHHHHHH----HHcCCCcccccCCCCCcHHHHHHHcCCHHH----HHHHHHcCCCCcccCCCCCCHHHH
Confidence            445566777877655444    4555444322   11234555566677544    444455554443221  1233444


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCccCH---HhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhh------------HH
Q 020202          132 LLNAGYLESAKQMVNKMIKQGFVLDL---ETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVST------------YK  196 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------------~~  196 (329)
                      .+..|+.+    +++.+.+.|..++.   .-++ .+...+..|+.+-    ++.+.+.|..++...            -.
T Consensus        79 A~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t-~L~~A~~~~~~~~----~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~  149 (285)
T 1wdy_A           79 AAIAGSVK----LLKLFLSKGADVNECDFYGFT-AFMEAAVYGKVKA----LKFLYKRGANVNLRRKTKEDQERLRKGGA  149 (285)
T ss_dssp             HHHHTCHH----HHHHHHHTTCCTTCBCTTCCB-HHHHHHHTTCHHH----HHHHHHTTCCTTCCCCCCHHHHHTTCCCC
T ss_pred             HHHcCCHH----HHHHHHHcCCCCCccCcccCC-HHHHHHHhCCHHH----HHHHHHhCCCcccccccHHHHHhhccCCC
Confidence            55566654    44445555554432   2222 3344456676654    444445554443220            11


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhh--HHHHHHH
Q 020202          197 ILIPAVSKAGMIDEAFRLLHNLVEDGHKPF---PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPV--YTMLITM  271 (329)
Q Consensus       197 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~  271 (329)
                      ..+...+..|+.+-+..+++.   .|..++   ..-.+.+.. .+..++......+++.+.+.|..++...  -...+..
T Consensus       150 t~L~~A~~~~~~~~v~~Ll~~---~~~~~~~~~~~g~t~l~~-a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~  225 (285)
T 1wdy_A          150 TALMDAAEKGHVEVLKILLDE---MGADVNACDNMGRNALIH-ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLIL  225 (285)
T ss_dssp             CHHHHHHHHTCHHHHHHHHHT---SCCCTTCCCTTSCCHHHH-HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHH
T ss_pred             cHHHHHHHcCCHHHHHHHHHh---cCCCCCccCCCCCCHHHH-HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHH
Confidence            234444566776655555432   143332   222333333 4456666666777888888877665432  1123344


Q ss_pred             HhccCCHHHHHHHHHHHHh-CCCCCChh---hHHHHHHHHHhCCchhHHHHHHHH
Q 020202          272 CGRGGRFVEAANYLVEMTE-MGLTPISR---CFDLVTDGLKNCGKHDLAEKIELL  322 (329)
Q Consensus       272 ~~~~~~~~~a~~~~~~~~~-~~~~p~~~---~~~~l~~~~~~~g~~~~a~~~~~~  322 (329)
                      .++.|+.+-    ++.+.+ .|..++..   -.+ -+....+.|..+-+.-+.+.
T Consensus       226 A~~~~~~~~----v~~Ll~~~g~~~~~~~~~g~t-~l~~A~~~~~~~i~~~Ll~~  275 (285)
T 1wdy_A          226 AVEKKHLGL----VQRLLEQEHIEINDTDSDGKT-ALLLAVELKLKKIAELLCKR  275 (285)
T ss_dssp             HHHTTCHHH----HHHHHHSSSCCTTCCCTTSCC-HHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHcCCHHH----HHHHHhccCCCccccCCCCCc-HHHHHHHcCcHHHHHHHHHc
Confidence            445666554    344444 56555432   222 33444566777666655554

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=84.94  E-value=15  Score=30.06  Aligned_cols=57  Identities=16%  Similarity=0.176  Sum_probs=27.5

Q ss_pred             HHHHHHHhcchHHHHHHHHHHHHHcCCccC-----hHHHHHHHHHHHhcCchhHHHHHHHHH
Q 020202           57 SLLFALCEVKLFHGAYALIRRMIRKGFVPD-----KRTYAILVNAWCSSGKMREAQEFLQEM  113 (329)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~  113 (329)
                      .++..|...|++.+|.+++.++.+.=...|     ...+..-++.|...+++.++...+...
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            345555555556665555555554311111     122333444555555555555555554

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.68  E-value=5.5  Score=24.97  Aligned_cols=17  Identities=6%  Similarity=-0.234  Sum_probs=6.8

Q ss_pred             ccCCHHHHHHHHHHHHH
Q 020202          169 KSGEVEFCVEMYYSVCK  185 (329)
Q Consensus       169 ~~~~~~~a~~~~~~~~~  185 (329)
                      +.|--+++...+.++..
T Consensus        80 rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           80 HLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             hcccHHHHHHHHHHHHh
Confidence            34444444444433333

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=84.01  E-value=6  Score=24.86  Aligned_cols=12  Identities=42%  Similarity=0.221  Sum_probs=4.9

Q ss_pred             hcCChHHHHHHH
Q 020202          134 NAGYLESAKQMV  145 (329)
Q Consensus       134 ~~~~~~~a~~~~  145 (329)
                      ..|++++|..+.
T Consensus        52 NrG~Yq~Al~l~   63 (116)
T 2p58_C           52 NRGDYASALQQG   63 (116)
T ss_dssp             HTTCHHHHHHHH
T ss_pred             cchhHHHHHHhc
Confidence            344444444333

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=82.31  E-value=7.1  Score=24.49  Aligned_cols=79  Identities=10%  Similarity=-0.035  Sum_probs=36.7

Q ss_pred             CchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHH
Q 020202           31 GLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFL  110 (329)
Q Consensus        31 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  110 (329)
                      +..++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+.+    ..||...|..|.  -.+.|..+++...+
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL   91 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALC--EWHLGLGAALDRRL   91 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHH--HHHTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHH
Confidence            345555555555554431  1111112223444556666665554332    245555554443  23555555555555


Q ss_pred             HHHHhCC
Q 020202          111 QEMSDKG  117 (329)
Q Consensus       111 ~~~~~~~  117 (329)
                      ..+...|
T Consensus        92 ~~la~sg   98 (115)
T 2uwj_G           92 AGLGGSS   98 (115)
T ss_dssp             HHHHTCS
T ss_pred             HHHHhCC
Confidence            5555444

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=82.11  E-value=18  Score=29.03  Aligned_cols=209  Identities=12%  Similarity=0.104  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGY--LESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      ....++.-|...++.++|...++++.....  .......++......++  -+.+-.++..+.. ++-+.......+...
T Consensus        56 ~~~~ii~EYf~~~d~~Ea~~~l~eL~~p~~--~~~~v~~~I~~aLdr~~~erE~~s~LLs~L~~-~~ls~~~i~~gf~~l  132 (358)
T 3eiq_C           56 TLTPIIQEYFEHGDTNEVAEMLRDLNLGEM--KSGVPVLAVSLALEGKASHREMTSKLLSDLCG-TVMSTNDVEKSFDKL  132 (358)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHTTTCCGG--GGGHHHHHHHHHTTSCHHHHHHHHHHHHTTTT-TSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHhCCchh--HHHHHHHHHHHHhcCChHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHH
Confidence            356778888899999999999888643221  12222333333222222  2334455555553 444444444444444


Q ss_pred             HHccCCH----HHHHH----HHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHH-------------hC----
Q 020202          167 ICKSGEV----EFCVE----MYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLV-------------ED----  221 (329)
Q Consensus       167 ~~~~~~~----~~a~~----~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------------~~----  221 (329)
                      +....+.    ..|..    ++.++...++-|-.........    . .-..+.+.++...             ..    
T Consensus       133 le~ldDl~lDiP~a~~~la~flaRaV~d~~l~~~~l~~~~~~----~-~~~~~~~~l~~a~~~L~~~~~~~~~~~~WG~g  207 (358)
T 3eiq_C          133 LKDLPELALDTPRAPQLVGQFIARAVGDGILCNTYIDSYKGT----V-DCVQARAALDKATVLLSMSKGGKRKDSVWGSG  207 (358)
T ss_dssp             HHTHHHHHHHCTTHHHHHHHHHHHHHHTTCSCSSTTGGGC--------CCHHHHHHHHHHHHHHTC---------CCCCC
T ss_pred             HHhhhhhccccccHHHHHHHHHHHHHHhCCCCHHHHHHHhhc----c-cchHHHHHHHHHHHHHhccchHHHHHHhcCCC
Confidence            4433331    12222    2333333333232211110000    0 1112222222111             10    


Q ss_pred             -CCCCC---hhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCC--HHHHHHHHHHHHhCCCCC
Q 020202          222 -GHKPF---PSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGR--FVEAANYLVEMTEMGLTP  295 (329)
Q Consensus       222 -~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~p  295 (329)
                       +..|.   ......++.-|...|+.++|.+.++++..-... ...+...+..++-+.++  .+...+++..+.+.|+-+
T Consensus       208 ~~~~~veelkkki~~lL~EY~~s~D~~EA~~ci~EL~~p~fh-he~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls  286 (358)
T 3eiq_C          208 GGQQPVNHLVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFH-HELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTIT  286 (358)
T ss_dssp             CSSSCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCTTCH-HHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSC
T ss_pred             CCCccHHHHHHHHHHHHHHhccCCCHHHHHHHHHHccCCcch-HHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCC
Confidence             11221   123577888899999999999999998632111 12334444555555433  455778888888777665


Q ss_pred             ChhhHHHHHHH
Q 020202          296 ISRCFDLVTDG  306 (329)
Q Consensus       296 ~~~~~~~l~~~  306 (329)
                      .......+.+.
T Consensus       287 ~~q~~~Gf~~v  297 (358)
T 3eiq_C          287 IDQMKRGYERI  297 (358)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444333

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=82.11  E-value=6.1  Score=23.58  Aligned_cols=59  Identities=12%  Similarity=0.081  Sum_probs=26.8

Q ss_pred             HhhhhhCCCCCCHHHHHHHHHHHHccC-chhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh
Q 020202            5 IELMKPYNLSVSPQTLSLIIEEFGKHG-LVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE   64 (329)
Q Consensus         5 ~~~m~~~g~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   64 (329)
                      .+.|++.|+..++.- ..++..+...+ ..-.+.++++.+.+.+...+..|....+..+.+
T Consensus         5 ~~~l~~~g~~~t~~r-~~IL~~l~~~~~~~~s~~el~~~l~~~~~~is~~TVyR~L~~L~~   64 (83)
T 2fu4_A            5 NTALKKAGLKVTLPR-LKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDD   64 (83)
T ss_dssp             HHHHHHTTCCCCHHH-HHHHHHHTSGGGSSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcCHHH-HHHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHhhHHHHHHHHHH
Confidence            344555565555544 23334444433 344555555555544333333333333444433

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=82.07  E-value=7.1  Score=30.03  Aligned_cols=206  Identities=10%  Similarity=-0.012  Sum_probs=101.9

Q ss_pred             HHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHH--HHHHHHHHHhc
Q 020202           23 IIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRT--YAILVNAWCSS  100 (329)
Q Consensus        23 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~  100 (329)
                      .+...+..|+.+-+..+++.-..    ++...-.+.+...+..|+.+-+    +.+.+.|..++...  -...+...+..
T Consensus        34 ~L~~A~~~g~~~~v~~Ll~~g~~----~~~~~g~t~L~~A~~~g~~~~v----~~Ll~~ga~~~~~d~~g~t~L~~A~~~  105 (285)
T 3kea_A           34 ASYYAIADNNVRLVCTLLNAGAL----KNLLENEFPLHQAATLEDTKIV----KILLFSGLDDSQFDDKGNTALYYAVDS  105 (285)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTTGG----GSCCTTCCHHHHHTTSSSCHHH----HHHHHTTCCTTCCCTTSCCHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHhCCCC----CCCCCCCCHHHHHHHcCCHHHH----HHHHHCCCCCCCcCCCCCcHHHHHHHc
Confidence            34445567887766666554322    2221123345555666766544    34445565444221  11233444566


Q ss_pred             CchhHHHHHHHHHHhCCCCCCc---ccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHH-hHHHHHHHHHccCCHHHH
Q 020202          101 GKMREAQEFLQEMSDKGFNPPV---RGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLE-TFNSLIETICKSGEVEFC  176 (329)
Q Consensus       101 ~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a  176 (329)
                      |+.+-+..+++.    |..++.   ..+.+.+...+..|+.+-+    +.+.+.|..+... .-.+.+...+..|+.+-+
T Consensus       106 g~~~~v~~Ll~~----ga~~~~~~~~g~~t~L~~A~~~~~~~~v----~~Ll~~g~~~~~~~~g~t~L~~A~~~g~~~~v  177 (285)
T 3kea_A          106 GNMQTVKLFVKK----NWRLMFYGKTGWKTSFYHAVMLNDVSIV----SYFLSEIPSTFDLAILLSCIHITIKNGHVDMM  177 (285)
T ss_dssp             TCHHHHHHHHHH----CGGGGGCSSSGGGSHHHHHHHTTCHHHH----HHHHTTSCTTCCCSTHHHHHHHHHHTTCHHHH
T ss_pred             CCHHHHHHHHhc----CCCCCccCCCCCCCHHHHHHHcCCHHHH----HHHHhCCCccccccCCccHHHHHHHcChHHHH
Confidence            776655444443    433332   2224455566677776544    4444444333221 334555566778888777


Q ss_pred             HHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHH
Q 020202          177 VEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMK  254 (329)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  254 (329)
                      ..+++.-..... .+..-.+..+...+..|+.+    +.+.+.+.|..++....     .-...|+.+-+.-+++.-.
T Consensus       178 ~~Ll~~gad~n~-~~~~g~t~~L~~A~~~~~~~----~v~~Ll~~gad~~~~~~-----~a~~~~~~~iv~~Ll~~g~  245 (285)
T 3kea_A          178 ILLLDYMTSTNT-NNSLLFIPDIKLAIDNKDIE----MLQALFKYDINIYSANL-----ENVLLDDAEIAKMIIEKHV  245 (285)
T ss_dssp             HHHHHHHHHTCT-TCCCBCCTTHHHHHHHTCHH----HHHHHTTSCBCSTTTTG-----GGGTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCc-ccCCCCChHHHHHHHcCCHH----HHHHHHHcCCCCCCCCh-----hhhhcCCHHHHHHHHHcCC
Confidence            666655333222 12122222233344556654    44555567777666542     1245666665555554433

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=81.60  E-value=7.6  Score=24.38  Aligned_cols=79  Identities=11%  Similarity=-0.010  Sum_probs=37.0

Q ss_pred             CchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHH
Q 020202           31 GLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFL  110 (329)
Q Consensus        31 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  110 (329)
                      +..++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+.+    ..||...|..|..  .+.|..+++...+
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~rL   92 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALCE--YRLGLGSALESRL   92 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHH--HHHTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHHH
Confidence            445555555555554431  1111112223445556666666554332    2455555544432  3455555555555


Q ss_pred             HHHHhCC
Q 020202          111 QEMSDKG  117 (329)
Q Consensus       111 ~~~~~~~  117 (329)
                      ..+...|
T Consensus        93 ~~la~sg   99 (116)
T 2p58_C           93 NRLARSQ   99 (116)
T ss_dssp             HHHTTCC
T ss_pred             HHHHhCC
Confidence            5554444

---

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	329
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.78
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.76
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.53
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.52
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.51
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.48
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.47
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.46
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.37
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.35
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.34
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.34
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.01
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.97
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.94
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.93
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.93
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.87
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.85
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.82
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.81
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.8
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.78
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.72
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.72
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.68
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.57
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.54
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.5
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.45
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.44
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.44
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.43
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.29
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.27
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.26
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.24
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.23
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.23
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.21
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.18
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.17
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.13
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.09
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.08
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.0
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.94
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.85
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.62
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.61
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.58
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.23
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.15
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.9
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.66
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.1
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.81
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.59
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.24
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.22
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	91.32
d1bpoa1	157	Clathrin heavy-chain linker domain {Rat (Rattus no	84.4

>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=99.93  E-value=2.8e-22  Score=163.68  Aligned_cols=306  Identities=15%  Similarity=0.077  Sum_probs=222.9

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      -++..+..+..++.+.|++++|...|+.+.+.+ |.+..+|..+..++.+.|++++|.+.+......... +........
T Consensus        31 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~  108 (388)
T d1w3ba_          31 DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPD-FIDGYINLA  108 (388)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccccccccccccccccccc-ccccccccc
Confidence            355666666666666677777777776666655 555666666666666667777776666666654322 111111111


Q ss_pred             ----------------------------------HHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHH
Q 020202           95 ----------------------------------NAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLES  140 (329)
Q Consensus        95 ----------------------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  140 (329)
                                                        ......+....+...+....... +.+...+..+...+...|++++
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  187 (388)
T d1w3ba_         109 AALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWL  187 (388)
T ss_dssp             HHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHH
Confidence                                              11112222233333333333322 2334566667778888899999


Q ss_pred             HHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 020202          141 AKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVE  220 (329)
Q Consensus       141 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  220 (329)
                      |...+++..+.... +...+..+...+...|++++|...++.....+. .+...+..+...+.+.|++++|...|++..+
T Consensus       188 A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  265 (388)
T d1w3ba_         188 AIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIE  265 (388)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999988887533 677888899999999999999999999887654 5667788888999999999999999999887


Q ss_pred             CCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhH
Q 020202          221 DGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCF  300 (329)
Q Consensus       221 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  300 (329)
                      .... +..++..+...+...|++++|...++..... .+.+...+..+...+...|++++|.+.+++..+.. +-+...+
T Consensus       266 ~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  342 (388)
T d1w3ba_         266 LQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAH  342 (388)
T ss_dssp             TCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHH
T ss_pred             hCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHH
Confidence            6433 5678888999999999999999999988876 45577888889999999999999999999988654 2347788


Q ss_pred             HHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          301 DLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       301 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      ..+..+|.+.|++++|.+.++...+++|
T Consensus       343 ~~la~~~~~~g~~~~A~~~~~~al~l~P  370 (388)
T d1w3ba_         343 SNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            8899999999999999999998887764

>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=99.92  E-value=3e-21  Score=157.52  Aligned_cols=300  Identities=14%  Similarity=0.114  Sum_probs=238.7

Q ss_pred             HHHhhhhhCCCCCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHH--------------------
Q 020202            3 KTIELMKPYNLSVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFAL--------------------   62 (329)
Q Consensus         3 ~~~~~m~~~g~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--------------------   62 (329)
                      +.++...+.. |-++.++..+..++.+.|++++|...+....+.. +.+...........                    
T Consensus        54 ~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (388)
T d1w3ba_          54 HFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN  131 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHhhhhccccccccccccccccc-cccccccccccccccccccccccccccccccccc
Confidence            3444444443 4567899999999999999999999999998765 33333333322222                    


Q ss_pred             --------------HhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHH
Q 020202           63 --------------CEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLL  128 (329)
Q Consensus        63 --------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  128 (329)
                                    ...+....+...+....... +-+...+..+...+...|++++|...++...+.. +.+...+..+
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l  209 (388)
T d1w3ba_         132 PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINL  209 (388)
T ss_dssp             TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence                          22333444444444444432 2255677888889999999999999999998764 4456788899


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  208 (329)
                      ...+...|++++|...+++....+.. +...+..+...+.+.|++++|...|++..+..+ .+..++..+..++...|++
T Consensus       210 ~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~  287 (388)
T d1w3ba_         210 GNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSV  287 (388)
T ss_dssp             HHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCH
T ss_pred             hhhhhccccHHHHHHHHHHhHHHhhh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCH
Confidence            99999999999999999999887544 677888899999999999999999999988654 4577889999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHH
Q 020202          209 DEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEM  288 (329)
Q Consensus       209 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  288 (329)
                      ++|...++...... +.+...+..+...+...|++++|+..|++..+.. +.+..++..+..++...|++++|...|++.
T Consensus       288 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a  365 (388)
T d1w3ba_         288 AEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEA  365 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999988764 3467888899999999999999999999998762 335678889999999999999999999999


Q ss_pred             HhCCCCC-ChhhHHHHHHHHHhCCc
Q 020202          289 TEMGLTP-ISRCFDLVTDGLKNCGK  312 (329)
Q Consensus       289 ~~~~~~p-~~~~~~~l~~~~~~~g~  312 (329)
                      ++..  | +...|..+..+|.+.|+
T Consensus       366 l~l~--P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         366 IRIS--PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTC--TTCHHHHHHHHHHHHHTCC
T ss_pred             HHhC--CCCHHHHHHHHHHHHHcCC
Confidence            8753  5 47789999999988775

>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=99.78  E-value=6.3e-16  Score=122.75  Aligned_cols=227  Identities=15%  Similarity=0.091  Sum_probs=137.3

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      .....+.+.|++++|+..|+.+.+.+ |.+..+|..+..++...|++++|...|.+..+..+. +...+..+..++...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            45667889999999999999999887 778999999999999999999999999999886533 6778888999999999


Q ss_pred             chhHHHHHHHHHHhCCCCCCcccH-H---------------HHHHHHHhcCChHHHHHHHHHHHHcCC-ccCHHhHHHHH
Q 020202          102 KMREAQEFLQEMSDKGFNPPVRGR-D---------------LLVQGLLNAGYLESAKQMVNKMIKQGF-VLDLETFNSLI  164 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~-~---------------~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~  164 (329)
                      ++++|.+.++......  |+.... .               ..+..+...+.+.+|...+.+..+... .++..++..+.
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            9999999999987753  221111 0               011122223334444444444433321 11233444444


Q ss_pred             HHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChh
Q 020202          165 ETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFD  244 (329)
Q Consensus       165 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  244 (329)
                      ..+...|++++|...+++.....+ -+..+|..+..++...|++++|...|++..+.... +..++..+..+|.+.|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHHHHHHHHHHHHHCCCHH
Confidence            444455555555555554444322 23344444444455555555555555544443211 2334444444455555555


Q ss_pred             HHHHHHHHHH
Q 020202          245 DAFCFFSEMK  254 (329)
Q Consensus       245 ~a~~~~~~~~  254 (329)
                      +|+..|++.+
T Consensus       258 ~A~~~~~~al  267 (323)
T d1fcha_         258 EAVEHFLEAL  267 (323)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555444444

>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=99.76  E-value=1.2e-15  Score=121.13  Aligned_cols=259  Identities=12%  Similarity=0.023  Sum_probs=201.0

Q ss_pred             HHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcC
Q 020202           57 SLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAG  136 (329)
Q Consensus        57 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (329)
                      .....+.+.|++++|...|+++.+..+. +..+|..+..++...|++++|...+++..+.. +-+...+..+..+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            4566788999999999999999987533 67889999999999999999999999998865 456778888999999999


Q ss_pred             ChHHHHHHHHHHHHcCCccC--------------HHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCchhhHHHHHHH
Q 020202          137 YLESAKQMVNKMIKQGFVLD--------------LETFNSLIETICKSGEVEFCVEMYYSVCKLGL-CADVSTYKILIPA  201 (329)
Q Consensus       137 ~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~  201 (329)
                      ++++|.+.+++.........              .......+..+...+.+.++.+.+.+.....+ .++..++..+...
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~  181 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  181 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            99999999999887532100              00011122233445667888888888776543 2456778888899


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHH
Q 020202          202 VSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEA  281 (329)
Q Consensus       202 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  281 (329)
                      +...|++++|...+++....... +...|..+...+...|++++|.+.|++..+.. +-+...+..+..+|.+.|++++|
T Consensus       182 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A  259 (323)
T d1fcha_         182 FNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREA  259 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999998876533 57788899999999999999999999998763 33677899999999999999999


Q ss_pred             HHHHHHHHhCC----------CCCChhhHHHHHHHHHhCCchhHHHHH
Q 020202          282 ANYLVEMTEMG----------LTPISRCFDLVTDGLKNCGKHDLAEKI  319 (329)
Q Consensus       282 ~~~~~~~~~~~----------~~p~~~~~~~l~~~~~~~g~~~~a~~~  319 (329)
                      +..|++.++..          .......|..+-.++...|+.+.+...
T Consensus       260 ~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         260 VEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999987521          111233566677777777777765544

>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=99.53  E-value=1.2e-11  Score=98.80  Aligned_cols=301  Identities=13%  Similarity=0.036  Sum_probs=214.3

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCcc-----HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc-c----C
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQC-----VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV-P----D   86 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~   86 (329)
                      +.........+...|++++|++++++..... |.+     ...++.+..++...|++++|...|++..+.... +    .
T Consensus        12 ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   90 (366)
T d1hz4a_          12 AEFNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYA   90 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHH
Confidence            3445556677889999999999999987754 322     346778889999999999999999988753211 1    1


Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhC----CCCCC---cccHHHHHHHHHhcCChHHHHHHHHHHHHcCC----cc
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDK----GFNPP---VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGF----VL  155 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~  155 (329)
                      ...+..+...+...|++..+...+......    +....   ...+..+...+...|+++.+...+........    ..
T Consensus        91 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  170 (366)
T d1hz4a_          91 LWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQ  170 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhh
Confidence            245566777888999999999988876532    11111   12455667888999999999999998876422    22


Q ss_pred             CHHhHHHHHHHHHccCCHHHHHHHHHHHHHc----CCCC--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---
Q 020202          156 DLETFNSLIETICKSGEVEFCVEMYYSVCKL----GLCA--DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPF---  226 (329)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---  226 (329)
                      ....+......+...++...+...+......    +..+  ....+......+...|+++.|...++.........+   
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  250 (366)
T d1hz4a_         171 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  250 (366)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHH
Confidence            3345566667788889999998888776542    1111  123456677788899999999999998765433222   


Q ss_pred             hhhHHHHHHHHHccCChhHHHHHHHHHHHc----CCCCC-hhhHHHHHHHHhccCCHHHHHHHHHHHHhC----CCCC--
Q 020202          227 PSLYAPIIKGMFRRGQFDDAFCFFSEMKIK----GHPPN-RPVYTMLITMCGRGGRFVEAANYLVEMTEM----GLTP--  295 (329)
Q Consensus       227 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p--  295 (329)
                      ...+..+...+...|++++|...++.+...    +..|+ ...+..+..+|.+.|++++|.+.+++..+.    |...  
T Consensus       251 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~  330 (366)
T d1hz4a_         251 QGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHF  330 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHH
Confidence            334566788899999999999999887642    33333 356777888999999999999999987642    3221  


Q ss_pred             --ChhhHHHHHHHHHhCCchhHHHH
Q 020202          296 --ISRCFDLVTDGLKNCGKHDLAEK  318 (329)
Q Consensus       296 --~~~~~~~l~~~~~~~g~~~~a~~  318 (329)
                        .......++..+...+..+++.+
T Consensus       331 ~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         331 VIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCCChHHHH
Confidence              12345566777788888888765

>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=99.52  E-value=9.9e-12  Score=97.52  Aligned_cols=199  Identities=11%  Similarity=0.082  Sum_probs=150.3

Q ss_pred             HHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcc-hHHHHHHHHHHHHHcCCccChHHHHHHHH
Q 020202           17 PQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVK-LFHGAYALIRRMIRKGFVPDKRTYAILVN   95 (329)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   95 (329)
                      ...++.+...+.+.+.+++|+++++++++.+ |-+..+|+....++...| ++++|+..++...+.... +..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            3456677777888889999999999999887 778888988888888766 589999999988877544 6778888888


Q ss_pred             HHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCC---
Q 020202           96 AWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGE---  172 (329)
Q Consensus        96 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  172 (329)
                      .+.+.|++++|+..++++.+.. +.+...|..+...+.+.|++++|++.++++.+.++. +...|+.+..++.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            8999999999999999998875 556788888899999999999999999998887644 66777776666555444   


Q ss_pred             ---HHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 020202          173 ---VEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVED  221 (329)
Q Consensus       173 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  221 (329)
                         +++|++.+....+..+ .+...|..+...+.. ...+++.+.++...+.
T Consensus       199 ~~~~~~ai~~~~~al~~~P-~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVP-HNESAWNYLKGILQD-RGLSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCC-CchHHHHHHHHHHHh-cChHHHHHHHHHHHHh
Confidence               5677777777766543 355556555554433 3345666666665543

>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=99.51  E-value=1.9e-11  Score=95.82  Aligned_cols=216  Identities=7%  Similarity=-0.010  Sum_probs=171.5

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC-chhHHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG-KMREAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      ...++.+...+.+.+.+++|+++++++++..+. +...|+....++...| ++++|+..++...+.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            567777878888899999999999999987543 6678888888888876 5899999999998875 567889999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC---
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM---  207 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  207 (329)
                      .+.+.|++++|+..++++.+.... +...|..+...+...|++++|++.++.+.+.++ .+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccch
Confidence            999999999999999999998644 788999999999999999999999999998765 566778877777666555   


Q ss_pred             ---HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCC-CChhhHHHHHHHHh
Q 020202          208 ---IDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHP-PNRPVYTMLITMCG  273 (329)
Q Consensus       208 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~  273 (329)
                         +++|...+....+..+. +...|+.+...+. ....+++.+.++...+.... .+...+..+...|.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence               57888888888876533 6667776666554 44567888888887765322 23445566666654

>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=99.48  E-value=5.3e-11  Score=93.14  Aligned_cols=219  Identities=10%  Similarity=-0.016  Sum_probs=109.1

Q ss_pred             hHHHHHHHHhhhcCCCccHHHHHHHHHHHHhc--------------chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           34 DNAVEVFNKCTAFNCQQCVLLYNSLLFALCEV--------------KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        34 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      +.+..+|+++.... +.++..|..-+..+...              +..++|..+|++..+...+.+...|...+.....
T Consensus        33 ~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            44566677766543 55566665555444322              2335555566655543333344455555555556


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH-HHccCCHHHHHH
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET-ICKSGEVEFCVE  178 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~  178 (329)
                      .|+++.|..+|+.+.+.........|...+..+.+.|+.+.|.++|+++.+.+.. +...|...... +...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHH
Confidence            6666666666666554431111224555555555566666666666655554322 22223222221 223455555555


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC--hhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          179 MYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG-HKPF--PSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      +|+.+....+ .+...|...+..+.+.|+.+.|..+|++..... ..|.  ...|...+..-...|+.+.+.++++++.+
T Consensus       191 i~e~~l~~~p-~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhh-hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555554421 334455555555555555555555555554432 1221  22444444444455555555555555443

>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=99.47  E-value=2.9e-11  Score=94.64  Aligned_cols=221  Identities=7%  Similarity=-0.015  Sum_probs=138.1

Q ss_pred             hHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC--------------chhHHHHHHHHHHhCCCCCCcccHHHHHHHH
Q 020202           67 LFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG--------------KMREAQEFLQEMSDKGFNPPVRGRDLLVQGL  132 (329)
Q Consensus        67 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  132 (329)
                      ..+.+..+|++++..- +.+...|...+..+...+              ..++|..++++..+...+.+...|...+..+
T Consensus        31 ~~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~  109 (308)
T d2onda1          31 ITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3556777888877652 335566666665554433              2356667777776544344455566667777


Q ss_pred             HhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHH-HHhcCCHHHH
Q 020202          133 LNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA-VSKAGMIDEA  211 (329)
Q Consensus       133 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a  211 (329)
                      .+.|+++.|..+++++.+........+|...+..+.+.|+.+.|.++|++..+.++ .+...|...... +...|+.+.|
T Consensus       110 ~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a  188 (308)
T d2onda1         110 ESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             HhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHH
Confidence            77777777777777777654333344667777777777777777777777766544 233333333322 3345677777


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcC-CCCC--hhhHHHHHHHHhccCCHHHHHHHHHHH
Q 020202          212 FRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKG-HPPN--RPVYTMLITMCGRGGRFVEAANYLVEM  288 (329)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~  288 (329)
                      ..+|+.+.... +.+...|...+......|+++.|..+|++..... ..|+  ...|...+.--...|+.+.+.++.+++
T Consensus       189 ~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77777777652 2245667777777777777777777777776652 2322  235666666555667777777777776


Q ss_pred             Hh
Q 020202          289 TE  290 (329)
Q Consensus       289 ~~  290 (329)
                      .+
T Consensus       268 ~~  269 (308)
T d2onda1         268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=99.46  E-value=4.1e-11  Score=95.53  Aligned_cols=275  Identities=12%  Similarity=0.014  Sum_probs=198.1

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccC----hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCC-CC----Cc
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPD----KRTYAILVNAWCSSGKMREAQEFLQEMSDKGF-NP----PV  122 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~  122 (329)
                      ..........+...|++++|++++++..+.....+    ...+..+..++...|++++|...+++..+... .+    ..
T Consensus        12 ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   91 (366)
T d1hz4a_          12 AEFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYAL   91 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHH
Confidence            34444556778899999999999999887632211    24567788899999999999999998865321 11    12


Q ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHHHHc----CCccC---HHhHHHHHHHHHccCCHHHHHHHHHHHHHcCC----CCc
Q 020202          123 RGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GFVLD---LETFNSLIETICKSGEVEFCVEMYYSVCKLGL----CAD  191 (329)
Q Consensus       123 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~  191 (329)
                      ..+..+...+...|++..+...+.+....    +....   ...+..+...+...|+++.+...+........    ...
T Consensus        92 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  171 (366)
T d1hz4a_          92 WSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQ  171 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhH
Confidence            34556777888999999999999876542    11111   23455677888899999999999988875432    223


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC--ChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCC---h
Q 020202          192 VSTYKILIPAVSKAGMIDEAFRLLHNLVED----GHKP--FPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPN---R  262 (329)
Q Consensus       192 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~  262 (329)
                      ...+......+...++...+...+......    +..+  ....+..+...+...|++++|...+..........+   .
T Consensus       172 ~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  251 (366)
T d1hz4a_         172 LQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  251 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHH
Confidence            445666677788899999999888776542    1111  123455666778899999999999988765532222   3


Q ss_pred             hhHHHHHHHHhccCCHHHHHHHHHHHHh----CCCCCC-hhhHHHHHHHHHhCCchhHHHHHHHHHhhh
Q 020202          263 PVYTMLITMCGRGGRFVEAANYLVEMTE----MGLTPI-SRCFDLVTDGLKNCGKHDLAEKIELLEVSL  326 (329)
Q Consensus       263 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  326 (329)
                      ..+..+..++...|++++|...++....    .+..|+ ...+..+..+|.+.|++++|.+.++....+
T Consensus       252 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         252 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3456678889999999999999998763    344444 567888899999999999999998876554

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.37  E-value=6.8e-12  Score=99.60  Aligned_cols=275  Identities=8%  Similarity=-0.044  Sum_probs=194.7

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHH----------HHhcchHHHHHHHHHHHHHcCCccChHHHH
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFA----------LCEVKLFHGAYALIRRMIRKGFVPDKRTYA   91 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (329)
                      .++......+..++|+++++.+.+.+ |-+...|+..-..          +...|.+++|+..++...+..++ +...|.
T Consensus        34 ~~~~~~~~~~~~~~al~~~~~~l~~~-P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~  111 (334)
T d1dcea1          34 AVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWH  111 (334)
T ss_dssp             HHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            33333334444589999999999877 5666666543333          23355688999999998887533 666777


Q ss_pred             HHHHHHHhcC--chhHHHHHHHHHHhCCCCCCcccHH-HHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202           92 ILVNAWCSSG--KMREAQEFLQEMSDKGFNPPVRGRD-LLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus        92 ~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                      .+..++...+  ++++|...++.+.+.. +++...+. .....+...+.+++|+..++++.+.++. +...|+.+..++.
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~  189 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLP  189 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHH
Confidence            7777776665  4889999999998865 44555554 4446777889999999999999888654 7888999999999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHH
Q 020202          169 KSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFC  248 (329)
Q Consensus       169 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  248 (329)
                      +.|++++|...+....+..  |.   .......+...+..+++...+........ ++...+..+...+...|+.++|..
T Consensus       190 ~~~~~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~  263 (334)
T d1dcea1         190 QLHPQPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCK  263 (334)
T ss_dssp             HHSCCCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHH
Confidence            9998887766555443321  11   11233344556677778888887776543 345556667777888899999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCC-hhhHHHHHHHHHh
Q 020202          249 FFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPI-SRCFDLVTDGLKN  309 (329)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  309 (329)
                      .+.+..... +.+...+..+..++...|++++|.+.++...+..  |+ ...|..|...+.-
T Consensus       264 ~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld--P~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         264 ELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD--PMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             HHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHH
T ss_pred             HHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--cccHHHHHHHHHHHhH
Confidence            998887652 2355677888889999999999999999998754  54 5566666555543

>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=99.35  E-value=8.7e-11  Score=89.46  Aligned_cols=197  Identities=9%  Similarity=-0.109  Sum_probs=90.4

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC  168 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (329)
                      +|..+..+|.+.|++++|...|++..+.. |-++.+|..+..++.+.|++++|+..|+++.+.... +..++..+..++.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHH
Confidence            34444555555555555555555555543 334455555555555556666666655555554322 3445555555555


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCh----h
Q 020202          169 KSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQF----D  244 (329)
Q Consensus       169 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~  244 (329)
                      ..|++++|...|+...+..+ .+......+...+.+.+..+.+..+..........  ...++ ++..+......    +
T Consensus       117 ~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKE--QWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCC--STHHH-HHHHHTTSSCHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchh--hhhhh-HHHHHHHHHHHHHHHH
Confidence            56666666666655555432 22222222333333444444444444333332111  11111 12222111111    1


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          245 DAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       245 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      .+...+...... .+-...+|..+...+...|++++|.+.|+..+...
T Consensus       193 ~~~~~~~~~~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         193 RLKADATDNTSL-AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             HHHHHCCSHHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhhhc-CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            111111111100 00112345556777777777777777777776543

>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=99.34  E-value=6.1e-11  Score=90.35  Aligned_cols=198  Identities=10%  Similarity=-0.100  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      ..+|..+..+|.+.|++++|.+.|++.++..+. +..+|..+..++...|++++|+..|++..+.. +.+..++..+..+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~  114 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHH
Confidence            345566666677777777777777776665322 55666677777777777777777777776654 3345566666667


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCC----
Q 020202          132 LLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGM----  207 (329)
Q Consensus       132 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  207 (329)
                      +...|++++|.+.+++..+.... +......+..++.+.+..+....+.........  +...++ ++..+.....    
T Consensus       115 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK--EQWGWN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC--CSTHHH-HHHHHTTSSCHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch--hhhhhh-HHHHHHHHHHHHHH
Confidence            77777777777777766665322 333333333444444444444444444433221  111111 2222221111    


Q ss_pred             HHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          208 IDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       208 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                      .+.+...+........ -...+|..+...+...|++++|...|+.....
T Consensus       191 ~~~~~~~~~~~~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         191 MERLKADATDNTSLAE-HLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHHHHHCCSHHHHHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhhcCc-ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            2222222222111100 02335566677777777777777777777654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.34  E-value=9e-12  Score=98.89  Aligned_cols=262  Identities=7%  Similarity=-0.063  Sum_probs=188.9

Q ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHHcCCccCh-HHHHHHH---HH-------HHhcCchhHHHHHHHHHHhCCCCCCcc
Q 020202           55 YNSLLFALCEVKLFHGAYALIRRMIRKGFVPDK-RTYAILV---NA-------WCSSGKMREAQEFLQEMSDKGFNPPVR  123 (329)
Q Consensus        55 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~---~~-------~~~~~~~~~a~~~~~~~~~~~~~~~~~  123 (329)
                      ...++......+..++|+++++...+..  |+. ..|+..-   ..       +...|++++|+.+++...+.. +.+..
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~~--P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~  108 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYG  108 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHH
Confidence            3334433333444589999999998764  443 3443322   22       223455788999999998765 45677


Q ss_pred             cHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCccCHHhHH-HHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHH
Q 020202          124 GRDLLVQGLLNAGY--LESAKQMVNKMIKQGFVLDLETFN-SLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIP  200 (329)
Q Consensus       124 ~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  200 (329)
                      .|..+..++...++  +++|...+.++.+.... +...+. .....+...+.++.|+..++.....++ -+...|..+..
T Consensus       109 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~  186 (334)
T d1dcea1         109 TWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSC  186 (334)
T ss_dssp             HHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHH
Confidence            77778777777664  78999999999887543 455544 445677788999999999999888765 56788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHH
Q 020202          201 AVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVE  280 (329)
Q Consensus       201 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  280 (329)
                      ++.+.|++++|...+......  .|.   ...+...+...+..+++...+....... +++...+..+...+...|++++
T Consensus       187 ~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~  260 (334)
T d1dcea1         187 LLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELE  260 (334)
T ss_dssp             HHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHH
Confidence            999999988776555443332  111   1223344566677888888888877653 4456667777788888899999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhhhcc
Q 020202          281 AANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVSLRS  328 (329)
Q Consensus       281 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  328 (329)
                      |...+.+..+.. +-+...+..+..++.+.|++++|.+.++...+++|
T Consensus       261 a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         261 SCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             HHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            999999887654 22567888899999999999999999999988876

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.01  E-value=3.3e-08  Score=76.22  Aligned_cols=194  Identities=10%  Similarity=-0.002  Sum_probs=95.8

Q ss_pred             HHHHhcCchhHHHHHHHHHHhC----CCC-CCcccHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-ccCHHhHHHHH
Q 020202           95 NAWCSSGKMREAQEFLQEMSDK----GFN-PPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GF-VLDLETFNSLI  164 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~  164 (329)
                      ..|...+++++|...|.+..+.    +-+ .-..+|..+..+|.+.|++++|.+.+++..+.    |. .....++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            3455555556655555555332    100 11234555566666666666666666554432    10 01123344444


Q ss_pred             HHHH-ccCCHHHHHHHHHHHHHc----CCCC-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh------hhHHH
Q 020202          165 ETIC-KSGEVEFCVEMYYSVCKL----GLCA-DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFP------SLYAP  232 (329)
Q Consensus       165 ~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~  232 (329)
                      ..|. ..|++++|.+.+.+..+.    +..+ ...++..+...+...|++++|...|+++.........      ..+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            4443 346666666666655321    1111 1334566666777777777777777776654221110      11233


Q ss_pred             HHHHHHccCChhHHHHHHHHHHHcCCC-CC---hhhHHHHHHHHhc--cCCHHHHHHHHHHH
Q 020202          233 IIKGMFRRGQFDDAFCFFSEMKIKGHP-PN---RPVYTMLITMCGR--GGRFVEAANYLVEM  288 (329)
Q Consensus       233 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~~~~~~a~~~~~~~  288 (329)
                      .+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|+..|+.+
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            444555667777777777766554211 11   1234445555443  23466666666544

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.97  E-value=1.6e-08  Score=77.94  Aligned_cols=210  Identities=12%  Similarity=-0.074  Sum_probs=144.5

Q ss_pred             chhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc----CCcc-CHHhHHHHHHHHHccCCHHHH
Q 020202          102 KMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ----GFVL-DLETFNSLIETICKSGEVEFC  176 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a  176 (329)
                      ++++|..+|.+.               ...|...|++++|.+.|.+..+.    +-.+ -..+|..+..+|.+.|++++|
T Consensus        32 ~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A   96 (290)
T d1qqea_          32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (290)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHH
Confidence            467777666554               56788999999999999987663    2111 235788899999999999999


Q ss_pred             HHHHHHHHHcCC-----CCchhhHHHHHHHHHh-cCCHHHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHHccCChhH
Q 020202          177 VEMYYSVCKLGL-----CADVSTYKILIPAVSK-AGMIDEAFRLLHNLVED----GHKP-FPSLYAPIIKGMFRRGQFDD  245 (329)
Q Consensus       177 ~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~  245 (329)
                      .+.+++......     .....++..+...|.. .|++++|...+++..+.    +..+ ...++..+...+...|++++
T Consensus        97 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~  176 (290)
T d1qqea_          97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHH
Confidence            999998754311     1124456667777754 69999999999987642    2111 13457788999999999999


Q ss_pred             HHHHHHHHHHcCCCCCh------hhHHHHHHHHhccCCHHHHHHHHHHHHhCCCC-CC---hhhHHHHHHHHHh--CCch
Q 020202          246 AFCFFSEMKIKGHPPNR------PVYTMLITMCGRGGRFVEAANYLVEMTEMGLT-PI---SRCFDLVTDGLKN--CGKH  313 (329)
Q Consensus       246 a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~~--~g~~  313 (329)
                      |...|+++.........      ..+...+.++...|+++.|.+.+++..+.... ++   ......++.++..  .+.+
T Consensus       177 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~  256 (290)
T d1qqea_         177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (290)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHH
Confidence            99999998875322111      12344555677889999999999998765322 22   2355667777655  3457


Q ss_pred             hHHHHHHHHHhhh
Q 020202          314 DLAEKIELLEVSL  326 (329)
Q Consensus       314 ~~a~~~~~~~~~~  326 (329)
                      ++|.+.++...++
T Consensus       257 ~eai~~y~~~~~l  269 (290)
T d1qqea_         257 SEHCKEFDNFMRL  269 (290)
T ss_dssp             HHHHHHHTTSSCC
T ss_pred             HHHHHHHHHHhhc
Confidence            7777766544443

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=8.9e-08  Score=68.68  Aligned_cols=85  Identities=13%  Similarity=-0.031  Sum_probs=41.8

Q ss_pred             HHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhH
Q 020202           26 EFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMRE  105 (329)
Q Consensus        26 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  105 (329)
                      .+...|+++.|++.|+.+    .+|+..+|..+..++...|++++|++.|++.++.+.. +...|..+..++.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHH
Confidence            334455555555555432    1334445555555555555555555555555544322 34445555555555555555


Q ss_pred             HHHHHHHHHh
Q 020202          106 AQEFLQEMSD  115 (329)
Q Consensus       106 a~~~~~~~~~  115 (329)
                      |...|++...
T Consensus        89 A~~~~~kAl~   98 (192)
T d1hh8a_          89 AIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=8e-08  Score=68.95  Aligned_cols=87  Identities=6%  Similarity=-0.181  Sum_probs=50.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  208 (329)
                      ...+...|+++.|++.|.++.    +|+..+|..+..++...|++++|++.|++..+.++ .+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccH
Confidence            334455666666666665431    34555566666666666666666666666665543 3455566666666666666


Q ss_pred             HHHHHHHHHHHh
Q 020202          209 DEAFRLLHNLVE  220 (329)
Q Consensus       209 ~~a~~~~~~~~~  220 (329)
                      ++|...|++...
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666666554

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=4.7e-08  Score=63.98  Aligned_cols=94  Identities=14%  Similarity=0.087  Sum_probs=69.3

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      .-...+.+.|++++|+..|+...+.+ |.+...|..+..++...|++++|+..+....+.+. .+...|..+..++...|
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHcc
Confidence            34566677778888888888777766 66777777777777777888888877777776653 36667777777777777


Q ss_pred             chhHHHHHHHHHHhCC
Q 020202          102 KMREAQEFLQEMSDKG  117 (329)
Q Consensus       102 ~~~~a~~~~~~~~~~~  117 (329)
                      ++++|+..++...+..
T Consensus        86 ~~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHE  101 (117)
T ss_dssp             CHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            7777777777777653

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.87  E-value=7.5e-08  Score=66.88  Aligned_cols=94  Identities=15%  Similarity=0.134  Sum_probs=56.3

Q ss_pred             HHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhc
Q 020202           21 SLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSS  100 (329)
Q Consensus        21 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  100 (329)
                      ......+.+.|++++|+..|++..+.+ |.+...|..+..++...|++++|...|+..++.... +..+|..+..++...
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHc
Confidence            334445556666666666666666655 555666666666666666666666666666654322 445566666666666


Q ss_pred             CchhHHHHHHHHHHhC
Q 020202          101 GKMREAQEFLQEMSDK  116 (329)
Q Consensus       101 ~~~~~a~~~~~~~~~~  116 (329)
                      |++++|...+++....
T Consensus        92 g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          92 GKFRAALRDYETVVKV  107 (159)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            6666666666666554

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.85  E-value=1.3e-08  Score=73.84  Aligned_cols=99  Identities=15%  Similarity=0.033  Sum_probs=73.9

Q ss_pred             CCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           15 VSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      |+...+......+.+.|++++|+..|++....+ |.+...|+.+..+|.+.|++++|+..|+...+..+. +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            666677777777888888888888888877766 667777877888888888888888888777754322 456777777


Q ss_pred             HHHHhcCchhHHHHHHHHHHh
Q 020202           95 NAWCSSGKMREAQEFLQEMSD  115 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~  115 (329)
                      .++...|++++|...|++...
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            777788888888777777654

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=1.9e-07  Score=61.03  Aligned_cols=91  Identities=16%  Similarity=0.034  Sum_probs=50.7

Q ss_pred             HHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCCh
Q 020202           59 LFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYL  138 (329)
Q Consensus        59 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  138 (329)
                      ...+.+.|++++|+..|++.++..+. +...|..+..++...|++++|+..++...+.+ +.++..|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            34455556666666666665554322 44555555555556666666666665555543 34455555555555556666


Q ss_pred             HHHHHHHHHHHHc
Q 020202          139 ESAKQMVNKMIKQ  151 (329)
Q Consensus       139 ~~a~~~~~~~~~~  151 (329)
                      ++|+..+++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            6666665555554

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.81  E-value=9e-06  Score=61.23  Aligned_cols=96  Identities=16%  Similarity=0.073  Sum_probs=51.0

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHh----cchHHHHHHHHHHHHHcCCccChHHHH
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCE----VKLFHGAYALIRRMIRKGFVPDKRTYA   91 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~   91 (329)
                      ||..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45566666666666677777777777766654   44445455555544    445666666666655543   222233


Q ss_pred             HHHHHHHh----cCchhHHHHHHHHHHhCC
Q 020202           92 ILVNAWCS----SGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        92 ~l~~~~~~----~~~~~~a~~~~~~~~~~~  117 (329)
                      .+...+..    ..+.+.|...++.....|
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g  104 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLK  104 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhh
Confidence            33332222    234455555555555444

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.80  E-value=9.6e-06  Score=61.06  Aligned_cols=227  Identities=15%  Similarity=0.035  Sum_probs=164.5

Q ss_pred             cHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh----cCchhHHHHHHHHHHhCCCCCCcccHH
Q 020202           51 CVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS----SGKMREAQEFLQEMSDKGFNPPVRGRD  126 (329)
Q Consensus        51 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  126 (329)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...+...+......+   ++....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45677788888889999999999999998876   55666667777765    568899999999988776   334444


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHH----ccCCHHHHHHHHHHHHHcCCCCchhhHHHH
Q 020202          127 LLVQGLLN----AGYLESAKQMVNKMIKQGFVLDLETFNSLIETIC----KSGEVEFCVEMYYSVCKLGLCADVSTYKIL  198 (329)
Q Consensus       127 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  198 (329)
                      .+...+..    .++.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            55444443    46788899999998887643   22333333333    245577777777776664   456667777


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHc----cCChhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 020202          199 IPAVSK----AGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFR----RGQFDDAFCFFSEMKIKGHPPNRPVYTMLIT  270 (329)
Q Consensus       199 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  270 (329)
                      ...+..    ..+...+..+++...+.|   +......+...|..    ..++++|..+|....+.|   ++..+..|..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            777775    466788888888887765   45555556666654    568999999999998876   4566777777


Q ss_pred             HHhc----cCCHHHHHHHHHHHHhCCCCC
Q 020202          271 MCGR----GGRFVEAANYLVEMTEMGLTP  295 (329)
Q Consensus       271 ~~~~----~~~~~~a~~~~~~~~~~~~~p  295 (329)
                      .|..    ..+.++|.++|++..+.|..+
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            7764    448999999999998887544

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=2.8e-07  Score=63.86  Aligned_cols=93  Identities=11%  Similarity=0.003  Sum_probs=62.9

Q ss_pred             HHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCC
Q 020202           58 LLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGY  137 (329)
Q Consensus        58 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  137 (329)
                      ....|.+.|++++|...|++..+.... +...|..+..++...|++++|...|++..+.. +.+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            345566777777777777777766432 56666777777777777777777777776654 3445667777777777777


Q ss_pred             hHHHHHHHHHHHHcC
Q 020202          138 LESAKQMVNKMIKQG  152 (329)
Q Consensus       138 ~~~a~~~~~~~~~~~  152 (329)
                      +++|...+++.....
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            777777777776653

>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=98.72  E-value=8.4e-08  Score=63.00  Aligned_cols=95  Identities=9%  Similarity=0.065  Sum_probs=65.0

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhc---chHHHHHHHHHHHHHcCCccC-hHHHHHHHHHH
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEV---KLFHGAYALIRRMIRKGFVPD-KRTYAILVNAW   97 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~   97 (329)
                      .+++.+...+++++|.+.|+.....+ |.++.++..+..++.+.   +++++|+.+|+++...+..|+ ..++..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45666777777777777777777776 66777777777777653   345567777777766543333 23566677777


Q ss_pred             HhcCchhHHHHHHHHHHhCC
Q 020202           98 CSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        98 ~~~~~~~~a~~~~~~~~~~~  117 (329)
                      .+.|++++|.+.|+++.+..
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhHHHHHHHHHHHHhC
Confidence            77777777777777777653

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.72  E-value=1.3e-07  Score=68.37  Aligned_cols=99  Identities=10%  Similarity=-0.095  Sum_probs=87.1

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHH
Q 020202          190 ADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLI  269 (329)
Q Consensus       190 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  269 (329)
                      |+...+......+.+.|++++|...|.+..+..+. +...|..+..+|.+.|++++|+..|+...+.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            77778888899999999999999999998887543 78889999999999999999999999998753 33677899999


Q ss_pred             HHHhccCCHHHHHHHHHHHHh
Q 020202          270 TMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       270 ~~~~~~~~~~~a~~~~~~~~~  290 (329)
                      .+|...|++++|...|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999999998875

>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=98.68  E-value=1.6e-07  Score=60.79  Aligned_cols=90  Identities=13%  Similarity=-0.078  Sum_probs=62.3

Q ss_pred             HHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcC
Q 020202           22 LIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSG  101 (329)
Q Consensus        22 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  101 (329)
                      .....+.+.|++++|+..|++..+.+ |-+..+|..+..++.+.|++++|+..|++..+..+. +...+..+..++...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCC
Confidence            34555666777777777777777665 556777777777777777777777777777665422 5666777777777777


Q ss_pred             chhHHHHHHHHH
Q 020202          102 KMREAQEFLQEM  113 (329)
Q Consensus       102 ~~~~a~~~~~~~  113 (329)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            777777777654

>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=98.57  E-value=7.3e-07  Score=57.55  Aligned_cols=87  Identities=14%  Similarity=0.067  Sum_probs=39.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCH
Q 020202          129 VQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMI  208 (329)
Q Consensus       129 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  208 (329)
                      ...+.+.|++++|...|++....... +...|..+..++.+.|++++|+..|++..+..+ .+...+..+..+|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhccccccccccc-ccccchHHHHHHHHHCCCH
Confidence            33444444444444444444444322 344444444444444444444444444444332 2334444444444444444


Q ss_pred             HHHHHHHHH
Q 020202          209 DEAFRLLHN  217 (329)
Q Consensus       209 ~~a~~~~~~  217 (329)
                      ++|.+.+++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>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=98.54  E-value=2.7e-07  Score=60.48  Aligned_cols=100  Identities=12%  Similarity=0.066  Sum_probs=77.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCCh---hHHHHHHHHHHHcCCCCC-hhhHHHHHHH
Q 020202          196 KILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQF---DDAFCFFSEMKIKGHPPN-RPVYTMLITM  271 (329)
Q Consensus       196 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~-~~~~~~l~~~  271 (329)
                      ..++..+...+++++|.+.|+.....++. +..++..+..++.+.++.   ++|+.+++++...+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            45777888889999999999998887543 778888888888875544   568999998887643333 2367788889


Q ss_pred             HhccCCHHHHHHHHHHHHhCCCCCChh
Q 020202          272 CGRGGRFVEAANYLVEMTEMGLTPISR  298 (329)
Q Consensus       272 ~~~~~~~~~a~~~~~~~~~~~~~p~~~  298 (329)
                      |.+.|++++|.+.|+++.+..  |+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~--P~~~  106 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE--PQNN  106 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHhhhHHHHHHHHHHHHhC--cCCH
Confidence            999999999999999998754  5533

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.50  E-value=0.00011  Score=56.75  Aligned_cols=272  Identities=11%  Similarity=0.053  Sum_probs=161.1

Q ss_pred             CCCHHHHHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHH
Q 020202           14 SVSPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAIL   93 (329)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   93 (329)
                      .|+..-...+.+.|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+.      -+..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            35666667788889999999999999987654         557788889999999998887653      266789999


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCH
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEV  173 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  173 (329)
                      ...+.+......+     .+.......++.....++..|-..|.+++...+++...... ..+...++.++..|++.+. 
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-  148 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-  148 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-
Confidence            9999887765443     22233334456666788999999999999999999876542 4477788899999988653 


Q ss_pred             HHHHHHHHHHHHcCCCC--------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhH
Q 020202          174 EFCVEMYYSVCKLGLCA--------DVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDD  245 (329)
Q Consensus       174 ~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  245 (329)
                      ++..+.+..... ...+        ....|.-++..|.+.|+++.|..+.-   +.  .++..-....+..+.+.++.+.
T Consensus       149 ~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~  222 (336)
T d1b89a_         149 QKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVEL  222 (336)
T ss_dssp             HHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHH
T ss_pred             HHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHH
Confidence            444444433211 1111        11223445555555555555544332   21  2333344556666777777776


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHH-------------hccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHHHHhCCc
Q 020202          246 AFCFFSEMKIKGHPPNRPVYTMLITMC-------------GRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDGLKNCGK  312 (329)
Q Consensus       246 a~~~~~~~~~~~~~~~~~~~~~l~~~~-------------~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  312 (329)
                      ..++.....+.  .|  ...+.++...             .+.++..-...+++...+.+   +....+.+.+.|...++
T Consensus       223 ~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d  295 (336)
T d1b89a_         223 YYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEED  295 (336)
T ss_dssp             HHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcch
Confidence            66666655543  22  3334444444             44445554555555544434   34688889999999998


Q ss_pred             hhHHHHHH
Q 020202          313 HDLAEKIE  320 (329)
Q Consensus       313 ~~~a~~~~  320 (329)
                      ++.-++..
T Consensus       296 ~~~l~~~i  303 (336)
T d1b89a_         296 YQALRTSI  303 (336)
T ss_dssp             HHHHHHHH
T ss_pred             hHHHHHHH
Confidence            76655444

>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=98.45  E-value=9e-06  Score=56.64  Aligned_cols=61  Identities=13%  Similarity=0.024  Sum_probs=32.0

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      |+.+..+|.+.|++++|+..++..+... |.++.++..+..+|...|++++|...|++..+.
T Consensus        65 ~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          65 HLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            4444455555555555555555555443 334445555555555555555555555555554

>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=98.44  E-value=3.3e-06  Score=55.84  Aligned_cols=96  Identities=15%  Similarity=0.181  Sum_probs=65.9

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCc-cC-----hHHHHHH
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFV-PD-----KRTYAIL   93 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-----~~~~~~l   93 (329)
                      +..+...+.+.|++++|++.|++..+.+ |.+..++..+..+|.+.|++++|++.++++++.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            4456667777888888888888887776 667777888888888888888888888777653211 01     1345556


Q ss_pred             HHHHHhcCchhHHHHHHHHHHhC
Q 020202           94 VNAWCSSGKMREAQEFLQEMSDK  116 (329)
Q Consensus        94 ~~~~~~~~~~~~a~~~~~~~~~~  116 (329)
                      ...+...+++++|...|+.....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            66666667777777777666543

>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=98.44  E-value=7.3e-06  Score=57.12  Aligned_cols=114  Identities=10%  Similarity=-0.012  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcCCC--------------ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFNCQ--------------QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF   83 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (329)
                      ..+......+.+.|++++|+..|++.......              ....+|+.+..+|.+.|++++|+..++..+...+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p   93 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS   93 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccc
Confidence            34555667888999999999999988754210              1135677788999999999999999999998753


Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHH
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLL  133 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  133 (329)
                      . +..++..+..++...|++++|...|+...+.. |.+......+-.+..
T Consensus        94 ~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~  141 (170)
T d1p5qa1          94 N-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQ  141 (170)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHH
T ss_pred             c-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3 78899999999999999999999999998865 234444444444433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.43  E-value=4.1e-07  Score=75.46  Aligned_cols=168  Identities=11%  Similarity=-0.001  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHHHcCCccChHHHHHHHHH--HHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHH
Q 020202           68 FHGAYALIRRMIRKGFVPDKRTYAILVNA--WCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMV  145 (329)
Q Consensus        68 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  145 (329)
                      +..+.+.++...+....++..-....+..  ....+.++.++..++...+.. +++...+..+...+.+.|+.+.|...+
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~  143 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQ  143 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------C
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHH
Confidence            44555666655544333333222222211  122344455544444433332 344556677777778888888888777


Q ss_pred             HHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 020202          146 NKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKP  225 (329)
Q Consensus       146 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  225 (329)
                      .......   ...++..+...+...|++++|...|.+..+..+ .+...|+.+...+...|+..+|...|.+..... .|
T Consensus       144 ~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~  218 (497)
T d1ya0a1         144 SSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVP-SNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FP  218 (497)
T ss_dssp             CHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BC
T ss_pred             HHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CC
Confidence            7665431   234666777888888888888888888877654 456788888888888888888888888887764 35


Q ss_pred             ChhhHHHHHHHHHccC
Q 020202          226 FPSLYAPIIKGMFRRG  241 (329)
Q Consensus       226 ~~~~~~~l~~~~~~~~  241 (329)
                      ...++..|...+.+..
T Consensus       219 ~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         219 FPAASTNLQKALSKAL  234 (497)
T ss_dssp             CHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            6677777777665443

>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=98.29  E-value=1.1e-05  Score=56.17  Aligned_cols=82  Identities=11%  Similarity=-0.065  Sum_probs=57.4

Q ss_pred             ChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHH
Q 020202           86 DKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIE  165 (329)
Q Consensus        86 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  165 (329)
                      +...|..+..++.+.|++++|+..++..++.. +.+..+|..+..++...|++++|+..|++..+.... +......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            34456667777888888888888888887765 456667777888888888888888888887776433 5555555555


Q ss_pred             HHHc
Q 020202          166 TICK  169 (329)
Q Consensus       166 ~~~~  169 (329)
                      +..+
T Consensus       154 ~~~~  157 (169)
T d1ihga1         154 VKQK  157 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>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=98.27  E-value=1.9e-05  Score=53.88  Aligned_cols=61  Identities=16%  Similarity=0.129  Sum_probs=27.0

Q ss_pred             HHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           90 YAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        90 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      |..+..++.+.|++++|+..++...+.. |.+..+|..+..++...|++++|...|++..+.
T Consensus        70 ~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          70 NLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3334444444444444444444444432 233344444444444444444444444444443

>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=98.26  E-value=1.6e-05  Score=52.39  Aligned_cols=54  Identities=9%  Similarity=0.076  Sum_probs=21.9

Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHH
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMI  149 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  149 (329)
                      ..+.+.|++++|+..|++.++.+ +.+...+..+..+|.+.|++++|+..++++.
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            33344444444444444443332 2233333444444444444444444444433

>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=98.24  E-value=2.2e-05  Score=53.50  Aligned_cols=98  Identities=15%  Similarity=0.065  Sum_probs=80.6

Q ss_pred             HHHHHHHHHHccCchhHHHHHHHHhhhcCC----C-----------ccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCC
Q 020202           19 TLSLIIEEFGKHGLVDNAVEVFNKCTAFNC----Q-----------QCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGF   83 (329)
Q Consensus        19 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~   83 (329)
                      .+..-...+.+.|++++|+..|......-.    .           ....+|+.+..+|.+.|++++|++.++..+..+ 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            344556778899999999999998764210    1           123467788999999999999999999999875 


Q ss_pred             ccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 020202           84 VPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        84 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (329)
                      +.+..+|..+..++...|++++|...|+...+..
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3378899999999999999999999999998865

>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=98.23  E-value=2.1e-05  Score=54.63  Aligned_cols=82  Identities=7%  Similarity=-0.071  Sum_probs=63.1

Q ss_pred             cccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 020202          122 VRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPA  201 (329)
Q Consensus       122 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  201 (329)
                      ...+..+..++.+.|++++|+..+++..+.... +...|..+..++...|++++|.+.|+...+..+ .+......+..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~~  154 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            445677788899999999999999998887543 678888899999999999999999999888654 355555555555


Q ss_pred             HHhc
Q 020202          202 VSKA  205 (329)
Q Consensus       202 ~~~~  205 (329)
                      ..+.
T Consensus       155 ~~~l  158 (169)
T d1ihga1         155 KQKI  158 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=98.23  E-value=2.9e-05  Score=53.86  Aligned_cols=126  Identities=13%  Similarity=-0.025  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHccCchhHHHHHHHHhhhcC---CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHH
Q 020202           18 QTLSLIIEEFGKHGLVDNAVEVFNKCTAFN---CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILV   94 (329)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   94 (329)
                      ..+......+.+.|++++|+..|+.....-   ...+...                 ......+       ....|..+.
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~-----------------~~~~~~~-------~~~~~~Nla   71 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKE-----------------SKASESF-------LLAAFLNLA   71 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHH-----------------HHHHHHH-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhh-----------------hhhcchh-------HHHHHHhHH
Confidence            445666777888899999999888765321   0111000                 0000000       122455566


Q ss_pred             HHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHc
Q 020202           95 NAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICK  169 (329)
Q Consensus        95 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  169 (329)
                      .++.+.|++++|+..++...... +.+..+|..+..++...|++++|...|+++.+..+. +..+...+-.+...
T Consensus        72 ~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          72 MCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            66666777777777777666654 455666666667777777777777777776665322 44444444333333

>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=98.21  E-value=3e-05  Score=53.77  Aligned_cols=144  Identities=9%  Similarity=-0.046  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchh-HHHHHHHHHHhCCCCCCcccHHHHHH
Q 020202           52 VLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMR-EAQEFLQEMSDKGFNPPVRGRDLLVQ  130 (329)
Q Consensus        52 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~l~~  130 (329)
                      ...+......+.+.|++++|...|++....-  +             ..-... ........+       ....|..+..
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~--~-------------~~~~~~~~~~~~~~~~-------~~~~~~Nla~   72 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWL--E-------------MEYGLSEKESKASESF-------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--T-------------TCCSCCHHHHHHHHHH-------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--H-------------Hhhccchhhhhhcchh-------HHHHHHhHHH
Confidence            3445566778888999999999998766420  0             000000 001111111       1235667888


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHH-
Q 020202          131 GLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMID-  209 (329)
Q Consensus       131 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-  209 (329)
                      +|.+.|++++|+..+++..+.... +...|..+..++...|++++|...|.......+ .+......+-....+.+... 
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P-~n~~~~~~l~~~~~~~~~~~e  150 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQIFMCQKKAKEHNE  150 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHhHHH
Confidence            999999999999999999988643 788999999999999999999999999988654 44555555544444443332 


Q ss_pred             HHHHHHHHHH
Q 020202          210 EAFRLLHNLV  219 (329)
Q Consensus       210 ~a~~~~~~~~  219 (329)
                      ...+++..|.
T Consensus       151 ~~kk~~~~~f  160 (168)
T d1kt1a1         151 RDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3344444443

>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=98.18  E-value=2e-05  Score=53.13  Aligned_cols=73  Identities=12%  Similarity=-0.016  Sum_probs=52.3

Q ss_pred             HHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhc----------chHHHHHHHHHHHHHcCCccChHHHHHHHHH
Q 020202           27 FGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEV----------KLFHGAYALIRRMIRKGFVPDKRTYAILVNA   96 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   96 (329)
                      |-+.+.+++|...|+...+.+ |.+..++..+..++...          +.+++|+..|++..+..+. +..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHH
Confidence            445677899999999999887 88888998888888754          3446677777777765432 55666666666


Q ss_pred             HHhcC
Q 020202           97 WCSSG  101 (329)
Q Consensus        97 ~~~~~  101 (329)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            65543

>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=98.17  E-value=2.5e-06  Score=64.02  Aligned_cols=124  Identities=11%  Similarity=-0.012  Sum_probs=79.9

Q ss_pred             HHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhH
Q 020202           26 EFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMRE  105 (329)
Q Consensus        26 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  105 (329)
                      -..+.|++++|+..+++.++.. |.|...+..+...++..|++++|.+.|+...+.... +...+..+...+...+..++
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHH
Confidence            3457899999999999999887 888999999999999999999999999998876422 33344444444333322222


Q ss_pred             HHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202          106 AQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus       106 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      +..-.......+-+++...+......+...|+.++|.+.++++.+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            2111110000111112223334455677788888888888887765

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.13  E-value=9.8e-06  Score=67.02  Aligned_cols=112  Identities=9%  Similarity=-0.115  Sum_probs=47.6

Q ss_pred             hHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHH
Q 020202           87 KRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIET  166 (329)
Q Consensus        87 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  166 (329)
                      ...+..+...+.+.|+.+.|...+.......  + ..++..+...+...|++++|...|++..+..+. +...|+.+...
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~  195 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAIL  195 (497)
T ss_dssp             -----------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHH
Confidence            3344455555555555555555554443321  1 234445555566666666666666666555322 44556666666


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 020202          167 ICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVS  203 (329)
Q Consensus       167 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  203 (329)
                      +...|+..+|...|.+...... |...++..|...+.
T Consensus       196 ~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         196 ASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALS  231 (497)
T ss_dssp             HHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHH
Confidence            6666666666666666555433 44555555555444

>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=98.09  E-value=5.3e-05  Score=52.98  Aligned_cols=59  Identities=8%  Similarity=-0.036  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHH
Q 020202           89 TYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKM  148 (329)
Q Consensus        89 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  148 (329)
                      .+..+..++...|++++|+..++.+.... +-+...|..++.++.+.|+..+|++.|+++
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            34445555555566666666655555543 344555555566666666666665555554

>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=98.08  E-value=0.00016  Score=50.46  Aligned_cols=77  Identities=16%  Similarity=0.182  Sum_probs=61.3

Q ss_pred             hhHHHHHHHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHH-----hCCCCCChhhHHH
Q 020202          228 SLYAPIIKGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMT-----EMGLTPISRCFDL  302 (329)
Q Consensus       228 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~p~~~~~~~  302 (329)
                      ..+..+...+...|++++|...++.+.... +-+...|..++.+|.+.|+..+|++.|+++.     +.|+.|...+-..
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l  146 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  146 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHH
Confidence            456678888899999999999999988773 4577889999999999999999999998874     4688888765444


Q ss_pred             HHH
Q 020202          303 VTD  305 (329)
Q Consensus       303 l~~  305 (329)
                      .-.
T Consensus       147 ~~~  149 (179)
T d2ff4a2         147 NER  149 (179)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>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=98.00  E-value=9.2e-06  Score=60.81  Aligned_cols=52  Identities=25%  Similarity=0.277  Sum_probs=30.6

Q ss_pred             hcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 020202           99 SSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQ  151 (329)
Q Consensus        99 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  151 (329)
                      +.|++++|+..+++..+.. |.+...+..+...++..|++++|.+.++...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            4556666666666665554 445555566666666666666666666665554

>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=97.94  E-value=8.1e-05  Score=50.06  Aligned_cols=73  Identities=8%  Similarity=-0.064  Sum_probs=46.3

Q ss_pred             HHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCc----------hhHHHHHHHHHHhCCCCCCcccHHHHHHH
Q 020202           62 LCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGK----------MREAQEFLQEMSDKGFNPPVRGRDLLVQG  131 (329)
Q Consensus        62 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  131 (329)
                      |-+.+.+++|...|+...+..+ .+..++..+..++...++          +++|+..|++..+.. |.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P-~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCC-cchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            3456778889999988887753 366777777777765433          455666666666543 3445555555555


Q ss_pred             HHhcC
Q 020202          132 LLNAG  136 (329)
Q Consensus       132 ~~~~~  136 (329)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            55443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.85  E-value=0.0032  Score=48.33  Aligned_cols=238  Identities=13%  Similarity=0.084  Sum_probs=143.9

Q ss_pred             HHHHHHHHHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHh
Q 020202           20 LSLIIEEFGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCS   99 (329)
Q Consensus        20 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   99 (329)
                      |..++..+.+.++++.|.+++.+.      .+..+|..+...+.+.....-+     .+.......+......++..|-.
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~  111 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQD  111 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHH
Confidence            345777778888888877766543      2567888888888887666443     22223334466667789999999


Q ss_pred             cCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCH----------HhHHHHHHHHHc
Q 020202          100 SGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDL----------ETFNSLIETICK  169 (329)
Q Consensus       100 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~  169 (329)
                      .|.+++...+++...... ..+...++.++..|++.+ .++   +.+.+...+...|.          ..|.-++-.|.+
T Consensus       112 ~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~k---l~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~  186 (336)
T d1b89a_         112 RGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQK---MREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDK  186 (336)
T ss_dssp             TTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHH---HHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHH---HHHHHHhccccCCHHHHHHHHHHcCChHHHHHHHHh
Confidence            999999999999886543 456677888999998865 333   33434332111111          123334444444


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChhhHHHHH-------------HH
Q 020202          170 SGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDGHKPFPSLYAPII-------------KG  236 (329)
Q Consensus       170 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-------------~~  236 (329)
                      .|+++.|..+.   ..  -.++..-...++..+.+..+++...++.....+.  .|  ...+.++             ..
T Consensus       187 ~~~~~~A~~~~---i~--~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~  257 (336)
T d1b89a_         187 YEEYDNAIITM---MN--HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNY  257 (336)
T ss_dssp             TTCHHHHHHHH---HH--STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHH
T ss_pred             cCCHHHHHHHH---HH--cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHH
Confidence            55554444332   11  1234444556667777777777776666665543  22  2333344             44


Q ss_pred             HHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHH
Q 020202          237 MFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYL  285 (329)
Q Consensus       237 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  285 (329)
                      +.+.+++.-...+++.....|   +..+.+.+...|...++++.-.+..
T Consensus       258 ~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         258 FSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHH
Confidence            445555555555555544433   4567888888888888876544444

>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=97.62  E-value=0.00031  Score=43.15  Aligned_cols=67  Identities=7%  Similarity=-0.038  Sum_probs=43.2

Q ss_pred             CHHHHHHHHHHHHccCchhHHHHHHHHhhhcC------CCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcC
Q 020202           16 SPQTLSLIIEEFGKHGLVDNAVEVFNKCTAFN------CQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKG   82 (329)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   82 (329)
                      ++..+-.+...+.+.|++++|+..|++..+..      .+....+++.+..++.+.|++++|++.++++++..
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            44555566777777777777777777765431      01124566777777777777777777777777653

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.61  E-value=0.00055  Score=46.46  Aligned_cols=98  Identities=19%  Similarity=0.068  Sum_probs=56.7

Q ss_pred             hhHHHH--HHHHHhcCCHHHHHHHHHHHHhCCC-CCC----------hhhHHHHHHHHHccCChhHHHHHHHHHHHc---
Q 020202          193 STYKIL--IPAVSKAGMIDEAFRLLHNLVEDGH-KPF----------PSLYAPIIKGMFRRGQFDDAFCFFSEMKIK---  256 (329)
Q Consensus       193 ~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---  256 (329)
                      .+|..+  ...+...|++++|...|++..+... .|+          ...|+.+..+|...|++++|...+++....   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            345544  4455566778888888777665311 111          234666667777777777777777666542   


Q ss_pred             --CCCCC-----hhhHHHHHHHHhccCCHHHHHHHHHHHHh
Q 020202          257 --GHPPN-----RPVYTMLITMCGRGGRFVEAANYLVEMTE  290 (329)
Q Consensus       257 --~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  290 (329)
                        ...++     ...+..+..+|...|++++|...|++..+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              11111     12345556666667777777776666553

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.58  E-value=0.00096  Score=45.19  Aligned_cols=98  Identities=12%  Similarity=-0.004  Sum_probs=59.6

Q ss_pred             hHHHH--HHHHHccCCHHHHHHHHHHHHHcCCC-Cc----------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 020202          159 TFNSL--IETICKSGEVEFCVEMYYSVCKLGLC-AD----------VSTYKILIPAVSKAGMIDEAFRLLHNLVED----  221 (329)
Q Consensus       159 ~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  221 (329)
                      +|..+  ...+...|++++|++.|++..+.... |+          ...|+.+..+|.+.|++++|...+++..+.    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            44444  34455667777777777777653211 21          245667777777777777777777776532    


Q ss_pred             -CCCCC-----hhhHHHHHHHHHccCChhHHHHHHHHHHHc
Q 020202          222 -GHKPF-----PSLYAPIIKGMFRRGQFDDAFCFFSEMKIK  256 (329)
Q Consensus       222 -~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  256 (329)
                       ...++     ...+..+..+|...|++++|...|++..+.
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence             11111     113555667777777777777777776653

>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=97.23  E-value=0.0019  Score=39.40  Aligned_cols=65  Identities=11%  Similarity=-0.029  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHcC-----CccC-hHHHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 020202           53 LLYNSLLFALCEVKLFHGAYALIRRMIRKG-----FVPD-KRTYAILVNAWCSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        53 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (329)
                      ..+..+...+.+.|++++|...|++..+..     ..++ ..++..+..++.+.|++++|+..++++.+..
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            334456666667777777777776665431     1111 3455666666666666666666666666543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.15  E-value=0.012  Score=38.16  Aligned_cols=16  Identities=19%  Similarity=0.358  Sum_probs=8.7

Q ss_pred             chhHHHHHHHHhhhcC
Q 020202           32 LVDNAVEVFNKCTAFN   47 (329)
Q Consensus        32 ~~~~a~~~~~~~~~~~   47 (329)
                      ++++|.+.|++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            4555555555555544

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.90  E-value=0.022  Score=36.90  Aligned_cols=79  Identities=16%  Similarity=0.009  Sum_probs=36.9

Q ss_pred             chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcccHHHHHHHHHh----cCChHHH
Q 020202           66 KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVRGRDLLVQGLLN----AGYLESA  141 (329)
Q Consensus        66 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a  141 (329)
                      .++++|.++|++..+.|.   ......+.  .....+.++|.+++++..+.|   ++.....|...|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            456677777777666552   22222222  122334555555555555544   22333333333332    2334455


Q ss_pred             HHHHHHHHHcC
Q 020202          142 KQMVNKMIKQG  152 (329)
Q Consensus       142 ~~~~~~~~~~~  152 (329)
                      .++|++..+.|
T Consensus        79 ~~~~~~aa~~g   89 (133)
T d1klxa_          79 AQYYSKACGLN   89 (133)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHhhhhccC
Confidence            55555554443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.66  E-value=0.031  Score=35.17  Aligned_cols=137  Identities=13%  Similarity=0.149  Sum_probs=70.9

Q ss_pred             HHccCchhHHHHHHHHhhhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHH---HHHHHHHHHhcCch
Q 020202           27 FGKHGLVDNAVEVFNKCTAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRT---YAILVNAWCSSGKM  103 (329)
Q Consensus        27 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~  103 (329)
                      +.-.|..++..++..+....   .+..-||.+|......-+-+-..+.++..-+.   .|...   ...++.++...+  
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDls~C~Nlk~vv~C~~~~n--   83 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDLDKCQNLKSVVECGVINN--   83 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCGGGCSCTHHHHHHHHHTT--
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCchhhhcHHHHHHHHHHhc--
Confidence            34567788888888877663   35666777777766666666666665554321   11110   111222222211  


Q ss_pred             hHHHHHHHHHHhCCCCCCcccHHHHHHHHHhcCChHHHHHHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 020202          104 REAQEFLQEMSDKGFNPPVRGRDLLVQGLLNAGYLESAKQMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSV  183 (329)
Q Consensus       104 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  183 (329)
                                      .+...+...+..+...|+-+.-.++++.+.+. -.|++...-.+..+|.+.|...++-+++.+.
T Consensus        84 ----------------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~A  146 (161)
T d1wy6a1          84 ----------------TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEA  146 (161)
T ss_dssp             ----------------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ----------------chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence                            12233344445555555555555555554442 2445555555555666666666666666555


Q ss_pred             HHcCC
Q 020202          184 CKLGL  188 (329)
Q Consensus       184 ~~~~~  188 (329)
                      -+.|.
T Consensus       147 Ce~G~  151 (161)
T d1wy6a1         147 CKKGE  151 (161)
T ss_dssp             HHTTC
T ss_pred             HHHhH
Confidence            55554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.10  E-value=0.072  Score=33.49  Aligned_cols=138  Identities=14%  Similarity=0.132  Sum_probs=80.7

Q ss_pred             hcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCC-cccHHHHHHHHHhcCChHHHH
Q 020202           64 EVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPP-VRGRDLLVQGLLNAGYLESAK  142 (329)
Q Consensus        64 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~  142 (329)
                      -.|..++..+++.+.....   +..-||.++--....-+-+...+.++.+-+. +..+ -.-...++.++...+.     
T Consensus        14 ldG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-FDls~C~Nlk~vv~C~~~~n~-----   84 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FDLDKCQNLKSVVECGVINNT-----   84 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SCGGGCSCTHHHHHHHHHTTC-----
T ss_pred             HhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh-cCchhhhcHHHHHHHHHHhcc-----
Confidence            4566667777776666542   4455666666666666666666666655332 1111 1112333444443332     


Q ss_pred             HHHHHHHHcCCccCHHhHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 020202          143 QMVNKMIKQGFVLDLETFNSLIETICKSGEVEFCVEMYYSVCKLGLCADVSTYKILIPAVSKAGMIDEAFRLLHNLVEDG  222 (329)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  222 (329)
                                   +...+...+......|+-++..+++..+.+.+ .+++.....+..+|.+.|...++-+++.+.-+.|
T Consensus        85 -------------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          85 -------------LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             -------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             -------------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence                         33444555666667777777777777766643 3666677777777777777777777777777666


Q ss_pred             CC
Q 020202          223 HK  224 (329)
Q Consensus       223 ~~  224 (329)
                      .+
T Consensus       151 ~K  152 (161)
T d1wy6a1         151 EK  152 (161)
T ss_dssp             CH
T ss_pred             HH
Confidence            53

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.81  E-value=0.13  Score=32.33  Aligned_cols=68  Identities=12%  Similarity=0.104  Sum_probs=46.6

Q ss_pred             CCChhhHHHHHHHHHccC---ChhHHHHHHHHHHHcCCCCCh-hhHHHHHHHHhccCCHHHHHHHHHHHHhCC
Q 020202          224 KPFPSLYAPIIKGMFRRG---QFDDAFCFFSEMKIKGHPPNR-PVYTMLITMCGRGGRFVEAANYLVEMTEMG  292 (329)
Q Consensus       224 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  292 (329)
                      .|+..+--....++.++.   +.++++.+++++...+ +.+. ..+-.|..+|.+.|++++|.+.++.+.+..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            345555555666666554   4567888888887653 2232 466677788888999999999998888643

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.59  E-value=0.21  Score=29.59  Aligned_cols=46  Identities=20%  Similarity=0.223  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHccCChhHHHHHHHHHHH
Q 020202          210 EAFRLLHNLVEDGHKPFPSLYAPIIKGMFRRGQFDDAFCFFSEMKI  255 (329)
Q Consensus       210 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  255 (329)
                      ++.+-+..+......|++....+.+++|.+.+++..|.++++..+.
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~   69 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   69 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3344444444444455555555555555555555555555554443

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.24  E-value=0.26  Score=29.19  Aligned_cols=64  Identities=13%  Similarity=0.105  Sum_probs=51.8

Q ss_pred             ChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 020202          242 QFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEAANYLVEMTEMGLTPISRCFDLVTDG  306 (329)
Q Consensus       242 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  306 (329)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++++-...+ ..++...|..+++-
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHH
Confidence            55677788888888889999999999999999999999999999887743 23455677776653

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.22  E-value=0.54  Score=29.45  Aligned_cols=68  Identities=6%  Similarity=0.060  Sum_probs=42.2

Q ss_pred             ccHHHHHHHHHHHHhc---chHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCC
Q 020202           50 QCVLLYNSLLFALCEV---KLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKG  117 (329)
Q Consensus        50 ~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  117 (329)
                      +++.+--....+++++   .+.++++.+++++.+.+..-....+-.|.-+|.+.|++++|.+.++.+.+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            4455555555555543   4556777777777765322112455566667777888888888887777653

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=91.32  E-value=2.7  Score=33.12  Aligned_cols=116  Identities=9%  Similarity=0.022  Sum_probs=73.1

Q ss_pred             CCHHHHHHHHHHHHhCCCCCChhhHHHHH----HHHHccCChhHHHHHHHHHHHcCCCCChhhHHHHHHHHhccCCHHHH
Q 020202          206 GMIDEAFRLLHNLVEDGHKPFPSLYAPII----KGMFRRGQFDDAFCFFSEMKIKGHPPNRPVYTMLITMCGRGGRFVEA  281 (329)
Q Consensus       206 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  281 (329)
                      .+.+.+..++......... +..-+..+-    ......+..+.+...+......+  .+.......+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            5677888888777654322 222222222    22334566777877777766553  3444445555566677899999


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHhCCchhHHHHHHHHHhh
Q 020202          282 ANYLVEMTEMGLTPISRCFDLVTDGLKNCGKHDLAEKIELLEVS  325 (329)
Q Consensus       282 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  325 (329)
                      ...+..|... ..-...-..-+.+++...|+.++|...+.....
T Consensus       305 ~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         305 NTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            9888877432 122344446677889999999999988876543

>d1bpoa1 a.118.1.4 (A:331-487) Clathrin heavy-chain linker domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy-chain linker domain
domain: Clathrin heavy-chain linker domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=84.40  E-value=3.7  Score=26.54  Aligned_cols=99  Identities=13%  Similarity=0.098  Sum_probs=53.8

Q ss_pred             hhcCCCccHHHHHHHHHHHHhcchHHHHHHHHHHHHHcCCccChHHHHHHHHHHHhcCchhHHHHHHHHHHhCCCCCCcc
Q 020202           44 TAFNCQQCVLLYNSLLFALCEVKLFHGAYALIRRMIRKGFVPDKRTYAILVNAWCSSGKMREAQEFLQEMSDKGFNPPVR  123 (329)
Q Consensus        44 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  123 (329)
                      .+.|++-....|..-...+...|++.+|-++--...+ |+--+..|.+.+-..-...|...-.+.+|..+.+.| ..|..
T Consensus        23 ~r~~LpGAd~l~~~~F~~lf~~g~y~eAA~~aA~sP~-giLRt~~Ti~rFk~~~~~pGq~spLL~YF~~Ll~~~-~LN~~  100 (157)
T d1bpoa1          23 VRNNLAGAEELFARKFNALFAQGNYSEAAKVAANAPK-GILRTPDTIRRFQSVPAQPGQTSPLLQYFGILLDQG-QLNKY  100 (157)
T ss_dssp             HHTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSGG-GSSCSHHHHHHHTTSCCCTTSCCHHHHHHHHHHHHS-CCCHH
T ss_pred             HhcCCCChHHHHHHHHHHHHHcCCHHHHHHHHHhCCc-ccccCHHHHHHHHcCCCCCCCCCHHHHHHHHHHhcC-CCchH
Confidence            3445555555666666666777777777666544322 344456666555544445555566666666666655 23333


Q ss_pred             cHHHHHHHHHhcCChHHHHHH
Q 020202          124 GRDLLVQGLLNAGYLESAKQM  144 (329)
Q Consensus       124 ~~~~l~~~~~~~~~~~~a~~~  144 (329)
                      --.-+++.....|+.+-..+.
T Consensus       101 ESlEl~r~vL~q~r~~lve~W  121 (157)
T d1bpoa1         101 ESLELCRPVLQQGRKQLLEKW  121 (157)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhHHHHHHHHhcCcHHHHHHH
Confidence            333344555555555444444